*** Bismark methylation extractor version v0.19.0 ***

Setting option '--no_overlap' since this is (normally) the right thing to do for paired-end data

Core usage currently set to more than 20 threads. Let's see how this goes... (set value: 28)

Summarising Bismark methylation extractor parameters:
===============================================================
Bismark paired-end SAM format specified (default)
Number of cores to be used: 28
Output path specified as: /gscratch/srlab/strigg/analyses/20190214_30K/


Summarising bedGraph parameters:
===============================================================
Generating additional output in bedGraph and coverage format
bedGraph format:	<Chromosome> <Start Position> <End Position> <Methylation Percentage>
coverage format:	<Chromosome> <Start Position> <End Position> <Methylation Percentage> <count methylated> <count non-methylated>

Using a cutoff of 1 read(s) to report cytosine positions
Reporting and sorting cytosine methylation information in CpG context only (default)
The bedGraph UNIX sort command will use the following memory setting:	'2G'. Temporary directory used for sorting is the output directory

Checking file >>/gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam<< for signs of file truncation...

...passed!
Writing result file containing methylation information for C in CpG context from the original top strand to /gscratch/srlab/strigg/analyses/20190214_30K/CpG_OT_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CpG context from the complementary to original top strand to /gscratch/srlab/strigg/analyses/20190214_30K/CpG_CTOT_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CpG context from the complementary to original bottom strand to /gscratch/srlab/strigg/analyses/20190214_30K/CpG_CTOB_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CpG context from the original bottom strand to /gscratch/srlab/strigg/analyses/20190214_30K/CpG_OB_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt

Writing result file containing methylation information for C in CHG context from the original top strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHG_OT_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CHG context from the complementary to original top strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHG_CTOT_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CHG context from the complementary to original bottom strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHG_CTOB_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CHG context from the original bottom strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHG_OB_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt

Writing result file containing methylation information for C in CHH context from the original top strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHH_OT_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CHH context from the complementary to original top strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHH_CTOT_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CHH context from the complementary to original bottom strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHH_CTOB_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CHH context from the original bottom strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHH_OB_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

skipping SAM header line:	@HD	VN:1.0	SO:unsorted
skipping SAM header line:	@SQ	SN:PGA_scaffold1__77_contigs__length_89643857	LN:89643857
skipping SAM header line:	@SQ	SN:PGA_scaffold2__36_contigs__length_69596280	LN:69596280
skipping SAM header line:	@SQ	SN:PGA_scaffold3__111_contigs__length_57743597	LN:57743597
skipping SAM header line:	@SQ	SN:PGA_scaffold4__129_contigs__length_65288255	LN:65288255
skipping SAM header line:	@SQ	SN:PGA_scaffold5__109_contigs__length_67248332	LN:67248332
skipping SAM header line:	@SQ	SN:PGA_scaffold6__104_contigs__length_61759565	LN:61759565
skipping SAM header line:	@SQ	SN:PGA_scaffold7__69_contigs__length_43120122	LN:43120122
skipping SAM header line:	@SQ	SN:PGA_scaffold8__63_contigs__length_61151155	LN:61151155
skipping SAM header line:	@SQ	SN:PGA_scaffold9__45_contigs__length_38581958	LN:38581958
skipping SAM header line:	@SQ	SN:PGA_scaffold10__49_contigs__length_53961475	LN:53961475
skipping SAM header line:	@SQ	SN:PGA_scaffold11__79_contigs__length_51449921	LN:51449921
skipping SAM header line:	@SQ	SN:PGA_scaffold12__71_contigs__length_50438331	LN:50438331
skipping SAM header line:	@SQ	SN:PGA_scaffold13__52_contigs__length_44396874	LN:44396874
skipping SAM header line:	@SQ	SN:PGA_scaffold14__91_contigs__length_45393038	LN:45393038
skipping SAM header line:	@SQ	SN:PGA_scaffold15__101_contigs__length_47938513	LN:47938513
skipping SAM header line:	@SQ	SN:PGA_scaffold16__33_contigs__length_31980953	LN:31980953
skipping SAM header line:	@SQ	SN:PGA_scaffold17__51_contigs__length_34923512	LN:34923512
skipping SAM header line:	@SQ	SN:PGA_scaffold18__69_contigs__length_27737463	LN:27737463
skipping SAM header line:	@SQ	SN:PGA_scaffold100__1_contigs__length_37850	LN:37850
skipping SAM header line:	@SQ	SN:PGA_scaffold101__1_contigs__length_30584	LN:30584
skipping SAM header line:	@SQ	SN:PGA_scaffold102__1_contigs__length_45787	LN:45787
skipping SAM header line:	@SQ	SN:PGA_scaffold104__1_contigs__length_44353	LN:44353
skipping SAM header line:	@SQ	SN:PGA_scaffold105__1_contigs__length_50812	LN:50812
skipping SAM header line:	@SQ	SN:PGA_scaffold108__1_contigs__length_37373	LN:37373
skipping SAM header line:	@SQ	SN:PGA_scaffold109__1_contigs__length_31266	LN:31266
skipping SAM header line:	@SQ	SN:PGA_scaffold117__1_contigs__length_33965	LN:33965
skipping SAM header line:	@SQ	SN:PGA_scaffold118__1_contigs__length_78741	LN:78741
skipping SAM header line:	@SQ	SN:PGA_scaffold120__1_contigs__length_36635	LN:36635
skipping SAM header line:	@SQ	SN:PGA_scaffold122__1_contigs__length_44468	LN:44468
skipping SAM header line:	@SQ	SN:PGA_scaffold123__1_contigs__length_30311	LN:30311
skipping SAM header line:	@SQ	SN:PGA_scaffold124__1_contigs__length_35932	LN:35932
skipping SAM header line:	@SQ	SN:PGA_scaffold126__1_contigs__length_40575	LN:40575
skipping SAM header line:	@SQ	SN:PGA_scaffold130__1_contigs__length_89923	LN:89923
skipping SAM header line:	@SQ	SN:PGA_scaffold142__1_contigs__length_38690	LN:38690
skipping SAM header line:	@SQ	SN:PGA_scaffold143__1_contigs__length_40513	LN:40513
skipping SAM header line:	@SQ	SN:PGA_scaffold149__1_contigs__length_50731	LN:50731
skipping SAM header line:	@SQ	SN:PGA_scaffold156__1_contigs__length_34729	LN:34729
skipping SAM header line:	@SQ	SN:PGA_scaffold160__1_contigs__length_78292	LN:78292
skipping SAM header line:	@SQ	SN:PGA_scaffold162__1_contigs__length_44264	LN:44264
skipping SAM header line:	@SQ	SN:PGA_scaffold169__1_contigs__length_31898	LN:31898
skipping SAM header line:	@SQ	SN:PGA_scaffold170__1_contigs__length_35798	LN:35798
skipping SAM header line:	@SQ	SN:PGA_scaffold176__1_contigs__length_36388	LN:36388
skipping SAM header line:	@SQ	SN:PGA_scaffold183__1_contigs__length_41623	LN:41623
skipping SAM header line:	@SQ	SN:PGA_scaffold187__1_contigs__length_34318	LN:34318
skipping SAM header line:	@SQ	SN:PGA_scaffold192__1_contigs__length_44989	LN:44989
skipping SAM header line:	@SQ	SN:PGA_scaffold195__1_contigs__length_32961	LN:32961
skipping SAM header line:	@SQ	SN:PGA_scaffold198__1_contigs__length_42303	LN:42303
skipping SAM header line:	@SQ	SN:PGA_scaffold204__1_contigs__length_55275	LN:55275
skipping SAM header line:	@SQ	SN:PGA_scaffold208__1_contigs__length_57345	LN:57345
skipping SAM header line:	@SQ	SN:PGA_scaffold210__1_contigs__length_33808	LN:33808
skipping SAM header line:	@SQ	SN:PGA_scaffold218__1_contigs__length_46309	LN:46309
skipping SAM header line:	@SQ	SN:PGA_scaffold219__1_contigs__length_36659	LN:36659
skipping SAM header line:	@SQ	SN:PGA_scaffold222__1_contigs__length_32402	LN:32402
skipping SAM header line:	@SQ	SN:PGA_scaffold224__1_contigs__length_62707	LN:62707
skipping SAM header line:	@SQ	SN:PGA_scaffold227__1_contigs__length_76686	LN:76686
skipping SAM header line:	@SQ	SN:PGA_scaffold232__1_contigs__length_52758	LN:52758
skipping SAM header line:	@SQ	SN:PGA_scaffold233__1_contigs__length_37710	LN:37710
skipping SAM header line:	@SQ	SN:PGA_scaffold241__1_contigs__length_58227	LN:58227
skipping SAM header line:	@SQ	SN:PGA_scaffold248__1_contigs__length_42538	LN:42538
skipping SAM header line:	@SQ	SN:PGA_scaffold250__1_contigs__length_58865	LN:58865
skipping SAM header line:	@SQ	SN:PGA_scaffold252__1_contigs__length_58739	LN:58739
skipping SAM header line:	@SQ	SN:PGA_scaffold258__1_contigs__length_1101056	LN:1101056
skipping SAM header line:	@SQ	SN:PGA_scaffold263__1_contigs__length_39634	LN:39634
skipping SAM header line:	@SQ	SN:PGA_scaffold266__1_contigs__length_45904	LN:45904
skipping SAM header line:	@SQ	SN:PGA_scaffold271__1_contigs__length_30650	LN:30650
skipping SAM header line:	@SQ	SN:PGA_scaffold278__1_contigs__length_30505	LN:30505
skipping SAM header line:	@SQ	SN:PGA_scaffold298__1_contigs__length_47389	LN:47389
skipping SAM header line:	@SQ	SN:PGA_scaffold302__1_contigs__length_34996	LN:34996
skipping SAM header line:	@SQ	SN:PGA_scaffold312__1_contigs__length_71876	LN:71876
skipping SAM header line:	@SQ	SN:PGA_scaffold314__1_contigs__length_44723	LN:44723
skipping SAM header line:	@SQ	SN:PGA_scaffold323__1_contigs__length_1799026	LN:1799026
skipping SAM header line:	@SQ	SN:PGA_scaffold331__1_contigs__length_34410	LN:34410
skipping SAM header line:	@SQ	SN:PGA_scaffold335__1_contigs__length_41679	LN:41679
skipping SAM header line:	@SQ	SN:PGA_scaffold358__1_contigs__length_61761	LN:61761
skipping SAM header line:	@SQ	SN:PGA_scaffold362__1_contigs__length_32622	LN:32622
skipping SAM header line:	@SQ	SN:PGA_scaffold365__1_contigs__length_48417	LN:48417
skipping SAM header line:	@SQ	SN:PGA_scaffold366__1_contigs__length_31395	LN:31395
skipping SAM header line:	@SQ	SN:PGA_scaffold373__1_contigs__length_38341	LN:38341
skipping SAM header line:	@SQ	SN:PGA_scaffold390__1_contigs__length_33430	LN:33430
skipping SAM header line:	@SQ	SN:PGA_scaffold391__1_contigs__length_51723	LN:51723
skipping SAM header line:	@SQ	SN:PGA_scaffold396__1_contigs__length_39796	LN:39796
skipping SAM header line:	@SQ	SN:PGA_scaffold401__1_contigs__length_32839	LN:32839
skipping SAM header line:	@SQ	SN:PGA_scaffold407__1_contigs__length_92797	LN:92797
skipping SAM header line:	@SQ	SN:PGA_scaffold410__1_contigs__length_34202	LN:34202
skipping SAM header line:	@SQ	SN:PGA_scaffold413__1_contigs__length_35409	LN:35409
skipping SAM header line:	@SQ	SN:PGA_scaffold414__1_contigs__length_32258	LN:32258
skipping SAM header line:	@SQ	SN:PGA_scaffold416__1_contigs__length_69472	LN:69472
skipping SAM header line:	@SQ	SN:PGA_scaffold419__1_contigs__length_39080	LN:39080
skipping SAM header line:	@SQ	SN:PGA_scaffold420__1_contigs__length_38263	LN:38263
skipping SAM header line:	@SQ	SN:PGA_scaffold421__1_contigs__length_46195	LN:46195
skipping SAM header line:	@SQ	SN:PGA_scaffold427__1_contigs__length_35190	LN:35190
skipping SAM header line:	@SQ	SN:PGA_scaffold430__1_contigs__length_75279	LN:75279
skipping SAM header line:	@SQ	SN:PGA_scaffold434__1_contigs__length_41015	LN:41015
skipping SAM header line:	@SQ	SN:PGA_scaffold436__1_contigs__length_43688	LN:43688
skipping SAM header line:	@SQ	SN:PGA_scaffold443__1_contigs__length_72424	LN:72424
skipping SAM header line:	@SQ	SN:PGA_scaffold447__1_contigs__length_52487	LN:52487
skipping SAM header line:	@SQ	SN:PGA_scaffold448__1_contigs__length_63737	LN:63737
skipping SAM header line:	@SQ	SN:PGA_scaffold449__1_contigs__length_39915	LN:39915
skipping SAM header line:	@SQ	SN:PGA_scaffold451__1_contigs__length_35032	LN:35032
skipping SAM header line:	@SQ	SN:PGA_scaffold456__1_contigs__length_65608	LN:65608
skipping SAM header line:	@SQ	SN:PGA_scaffold460__1_contigs__length_33778	LN:33778
skipping SAM header line:	@SQ	SN:PGA_scaffold462__1_contigs__length_40118	LN:40118
skipping SAM header line:	@SQ	SN:PGA_scaffold464__1_contigs__length_37366	LN:37366
skipping SAM header line:	@SQ	SN:PGA_scaffold466__1_contigs__length_54285	LN:54285
skipping SAM header line:	@SQ	SN:PGA_scaffold474__1_contigs__length_53531	LN:53531
skipping SAM header line:	@SQ	SN:PGA_scaffold477__1_contigs__length_34283	LN:34283
skipping SAM header line:	@SQ	SN:PGA_scaffold490__1_contigs__length_38803	LN:38803
skipping SAM header line:	@SQ	SN:PGA_scaffold492__1_contigs__length_55775	LN:55775
skipping SAM header line:	@SQ	SN:PGA_scaffold497__1_contigs__length_30850	LN:30850
skipping SAM header line:	@SQ	SN:PGA_scaffold499__1_contigs__length_33044	LN:33044
skipping SAM header line:	@SQ	SN:PGA_scaffold500__1_contigs__length_54033	LN:54033
skipping SAM header line:	@SQ	SN:PGA_scaffold505__1_contigs__length_53330	LN:53330
skipping SAM header line:	@SQ	SN:PGA_scaffold508__1_contigs__length_47880	LN:47880
skipping SAM header line:	@SQ	SN:PGA_scaffold510__1_contigs__length_35714	LN:35714
skipping SAM header line:	@SQ	SN:PGA_scaffold512__1_contigs__length_43118	LN:43118
skipping SAM header line:	@SQ	SN:PGA_scaffold513__1_contigs__length_104957	LN:104957
skipping SAM header line:	@SQ	SN:PGA_scaffold536__1_contigs__length_43921	LN:43921
skipping SAM header line:	@SQ	SN:PGA_scaffold537__1_contigs__length_41859	LN:41859
skipping SAM header line:	@SQ	SN:PGA_scaffold540__1_contigs__length_36898	LN:36898
skipping SAM header line:	@SQ	SN:PGA_scaffold575__1_contigs__length_36508	LN:36508
skipping SAM header line:	@SQ	SN:PGA_scaffold589__1_contigs__length_33182	LN:33182
skipping SAM header line:	@SQ	SN:PGA_scaffold594__1_contigs__length_105065	LN:105065
skipping SAM header line:	@SQ	SN:PGA_scaffold598__1_contigs__length_41658	LN:41658
skipping SAM header line:	@SQ	SN:PGA_scaffold599__1_contigs__length_32117	LN:32117
skipping SAM header line:	@SQ	SN:PGA_scaffold615__1_contigs__length_31178	LN:31178
skipping SAM header line:	@SQ	SN:PGA_scaffold628__1_contigs__length_30879	LN:30879
skipping SAM header line:	@SQ	SN:PGA_scaffold642__1_contigs__length_34464	LN:34464
skipping SAM header line:	@SQ	SN:PGA_scaffold710__1_contigs__length_48694	LN:48694
skipping SAM header line:	@SQ	SN:PGA_scaffold718__1_contigs__length_989392	LN:989392
skipping SAM header line:	@SQ	SN:PGA_scaffold810__1_contigs__length_34885	LN:34885
skipping SAM header line:	@SQ	SN:PGA_scaffold822__1_contigs__length_46947	LN:46947
skipping SAM header line:	@SQ	SN:PGA_scaffold866__1_contigs__length_31993	LN:31993
skipping SAM header line:	@SQ	SN:PGA_scaffold13207__1_contigs__length_30412	LN:30412
skipping SAM header line:	@SQ	SN:PGA_scaffold20466__1_contigs__length_31058	LN:31058
skipping SAM header line:	@SQ	SN:PGA_scaffold20487__1_contigs__length_31060	LN:31060
skipping SAM header line:	@SQ	SN:PGA_scaffold20490__1_contigs__length_34645	LN:34645
skipping SAM header line:	@SQ	SN:PGA_scaffold20505__1_contigs__length_43966	LN:43966
skipping SAM header line:	@SQ	SN:PGA_scaffold23274__1_contigs__length_30357	LN:30357
skipping SAM header line:	@SQ	SN:PGA_scaffold23393__1_contigs__length_41334	LN:41334
skipping SAM header line:	@SQ	SN:PGA_scaffold23498__1_contigs__length_34289	LN:34289
skipping SAM header line:	@SQ	SN:PGA_scaffold23717__1_contigs__length_32333	LN:32333
skipping SAM header line:	@SQ	SN:PGA_scaffold23925__1_contigs__length_34739	LN:34739
skipping SAM header line:	@SQ	SN:PGA_scaffold23979__1_contigs__length_33231	LN:33231
skipping SAM header line:	@SQ	SN:PGA_scaffold24419__1_contigs__length_30110	LN:30110
skipping SAM header line:	@SQ	SN:PGA_scaffold26405__1_contigs__length_34931	LN:34931
skipping SAM header line:	@SQ	SN:PGA_scaffold27028__1_contigs__length_34525	LN:34525
skipping SAM header line:	@SQ	SN:PGA_scaffold29133__1_contigs__length_46329	LN:46329
skipping SAM header line:	@SQ	SN:PGA_scaffold29275__1_contigs__length_41210	LN:41210
skipping SAM header line:	@SQ	SN:PGA_scaffold30719__1_contigs__length_39357	LN:39357
skipping SAM header line:	@SQ	SN:PGA_scaffold31234__1_contigs__length_38472	LN:38472
skipping SAM header line:	@SQ	SN:PGA_scaffold31642__1_contigs__length_33616	LN:33616
skipping SAM header line:	@SQ	SN:PGA_scaffold31747__1_contigs__length_34728	LN:34728
skipping SAM header line:	@SQ	SN:PGA_scaffold31751__1_contigs__length_33342	LN:33342
skipping SAM header line:	@SQ	SN:PGA_scaffold32046__1_contigs__length_31565	LN:31565
skipping SAM header line:	@SQ	SN:PGA_scaffold32514__1_contigs__length_31990	LN:31990
skipping SAM header line:	@SQ	SN:PGA_scaffold35022__1_contigs__length_52621	LN:52621
skipping SAM header line:	@SQ	SN:PGA_scaffold36484__1_contigs__length_32484	LN:32484
skipping SAM header line:	@SQ	SN:PGA_scaffold36907__1_contigs__length_32852	LN:32852
skipping SAM header line:	@SQ	SN:PGA_scaffold37613__1_contigs__length_33568	LN:33568
skipping SAM header line:	@SQ	SN:PGA_scaffold37640__1_contigs__length_36417	LN:36417
skipping SAM header line:	@SQ	SN:PGA_scaffold38417__1_contigs__length_39025	LN:39025
skipping SAM header line:	@SQ	SN:PGA_scaffold38421__1_contigs__length_31964	LN:31964
skipping SAM header line:	@SQ	SN:PGA_scaffold38637__1_contigs__length_46051	LN:46051
skipping SAM header line:	@SQ	SN:PGA_scaffold38663__1_contigs__length_38625	LN:38625
skipping SAM header line:	@SQ	SN:PGA_scaffold39043__1_contigs__length_49862	LN:49862
skipping SAM header line:	@SQ	SN:PGA_scaffold39349__1_contigs__length_30049	LN:30049
skipping SAM header line:	@SQ	SN:PGA_scaffold39386__1_contigs__length_46727	LN:46727
skipping SAM header line:	@SQ	SN:PGA_scaffold40903__1_contigs__length_36654	LN:36654
skipping SAM header line:	@SQ	SN:PGA_scaffold40909__1_contigs__length_44981	LN:44981
skipping SAM header line:	@SQ	SN:PGA_scaffold40911__1_contigs__length_35761	LN:35761
skipping SAM header line:	@SQ	SN:PGA_scaffold41096__1_contigs__length_40847	LN:40847
skipping SAM header line:	@SQ	SN:PGA_scaffold41270__1_contigs__length_55807	LN:55807
skipping SAM header line:	@SQ	SN:PGA_scaffold41708__1_contigs__length_34929	LN:34929
skipping SAM header line:	@SQ	SN:PGA_scaffold41937__1_contigs__length_32645	LN:32645
skipping SAM header line:	@SQ	SN:PGA_scaffold42052__1_contigs__length_36385	LN:36385
skipping SAM header line:	@SQ	SN:PGA_scaffold42329__1_contigs__length_34583	LN:34583
skipping SAM header line:	@SQ	SN:PGA_scaffold42779__1_contigs__length_35983	LN:35983
skipping SAM header line:	@SQ	SN:PGA_scaffold42780__1_contigs__length_33043	LN:33043
skipping SAM header line:	@SQ	SN:PGA_scaffold43063__1_contigs__length_32087	LN:32087
skipping SAM header line:	@SQ	SN:PGA_scaffold43224__1_contigs__length_38120	LN:38120
skipping SAM header line:	@SQ	SN:PGA_scaffold43893__1_contigs__length_39100	LN:39100
skipping SAM header line:	@SQ	SN:PGA_scaffold43927__1_contigs__length_31151	LN:31151
skipping SAM header line:	@SQ	SN:PGA_scaffold43938__1_contigs__length_34922	LN:34922
skipping SAM header line:	@SQ	SN:PGA_scaffold43940__1_contigs__length_31112	LN:31112
skipping SAM header line:	@SQ	SN:PGA_scaffold43956__1_contigs__length_34824	LN:34824
skipping SAM header line:	@SQ	SN:PGA_scaffold43997__1_contigs__length_84241	LN:84241
skipping SAM header line:	@SQ	SN:PGA_scaffold44004__1_contigs__length_56426	LN:56426
skipping SAM header line:	@SQ	SN:PGA_scaffold44021__1_contigs__length_51740	LN:51740
skipping SAM header line:	@SQ	SN:PGA_scaffold44022__1_contigs__length_41140	LN:41140
skipping SAM header line:	@SQ	SN:PGA_scaffold44073__1_contigs__length_36469	LN:36469
skipping SAM header line:	@SQ	SN:PGA_scaffold44113__1_contigs__length_30304	LN:30304
skipping SAM header line:	@SQ	SN:PGA_scaffold44287__1_contigs__length_54447	LN:54447
skipping SAM header line:	@SQ	SN:PGA_scaffold44969__1_contigs__length_31983	LN:31983
skipping SAM header line:	@SQ	SN:PGA_scaffold45030__1_contigs__length_42687	LN:42687
skipping SAM header line:	@SQ	SN:PGA_scaffold45039__1_contigs__length_54558	LN:54558
skipping SAM header line:	@SQ	SN:PGA_scaffold45044__1_contigs__length_42665	LN:42665
skipping SAM header line:	@SQ	SN:PGA_scaffold45169__1_contigs__length_30495	LN:30495
skipping SAM header line:	@SQ	SN:PGA_scaffold45599__1_contigs__length_33507	LN:33507
skipping SAM header line:	@SQ	SN:PGA_scaffold45621__1_contigs__length_37806	LN:37806
skipping SAM header line:	@SQ	SN:PGA_scaffold45713__1_contigs__length_33502	LN:33502
skipping SAM header line:	@SQ	SN:PGA_scaffold45732__1_contigs__length_31304	LN:31304
skipping SAM header line:	@SQ	SN:PGA_scaffold45838__1_contigs__length_39783	LN:39783
skipping SAM header line:	@SQ	SN:PGA_scaffold46006__1_contigs__length_30342	LN:30342
skipping SAM header line:	@SQ	SN:PGA_scaffold46016__1_contigs__length_47336	LN:47336
skipping SAM header line:	@SQ	SN:PGA_scaffold46017__1_contigs__length_32344	LN:32344
skipping SAM header line:	@SQ	SN:PGA_scaffold46021__1_contigs__length_31410	LN:31410
skipping SAM header line:	@SQ	SN:PGA_scaffold46073__1_contigs__length_36458	LN:36458
skipping SAM header line:	@SQ	SN:PGA_scaffold46077__1_contigs__length_35474	LN:35474
skipping SAM header line:	@SQ	SN:PGA_scaffold46091__1_contigs__length_30400	LN:30400
skipping SAM header line:	@SQ	SN:PGA_scaffold46108__1_contigs__length_30532	LN:30532
skipping SAM header line:	@SQ	SN:PGA_scaffold46139__1_contigs__length_39029	LN:39029
skipping SAM header line:	@SQ	SN:PGA_scaffold46144__1_contigs__length_30043	LN:30043
skipping SAM header line:	@SQ	SN:PGA_scaffold46228__1_contigs__length_30260	LN:30260
skipping SAM header line:	@SQ	SN:PGA_scaffold46916__1_contigs__length_36995	LN:36995
skipping SAM header line:	@SQ	SN:PGA_scaffold46924__1_contigs__length_41954	LN:41954
skipping SAM header line:	@SQ	SN:PGA_scaffold48118__1_contigs__length_30764	LN:30764
skipping SAM header line:	@SQ	SN:PGA_scaffold48491__1_contigs__length_44805	LN:44805
skipping SAM header line:	@SQ	SN:PGA_scaffold48498__1_contigs__length_32874	LN:32874
skipping SAM header line:	@SQ	SN:PGA_scaffold48627__1_contigs__length_30570	LN:30570
skipping SAM header line:	@SQ	SN:PGA_scaffold48700__1_contigs__length_41489	LN:41489
skipping SAM header line:	@SQ	SN:PGA_scaffold48890__1_contigs__length_36820	LN:36820
skipping SAM header line:	@SQ	SN:PGA_scaffold49049__1_contigs__length_44862	LN:44862
skipping SAM header line:	@SQ	SN:PGA_scaffold49052__1_contigs__length_30066	LN:30066
skipping SAM header line:	@SQ	SN:PGA_scaffold49140__1_contigs__length_41465	LN:41465
skipping SAM header line:	@SQ	SN:PGA_scaffold49269__1_contigs__length_58629	LN:58629
skipping SAM header line:	@SQ	SN:PGA_scaffold49272__1_contigs__length_48462	LN:48462
skipping SAM header line:	@SQ	SN:PGA_scaffold49286__1_contigs__length_32480	LN:32480
skipping SAM header line:	@SQ	SN:PGA_scaffold49327__1_contigs__length_31386	LN:31386
skipping SAM header line:	@SQ	SN:PGA_scaffold49337__1_contigs__length_44952	LN:44952
skipping SAM header line:	@SQ	SN:PGA_scaffold49402__1_contigs__length_32985	LN:32985
skipping SAM header line:	@SQ	SN:PGA_scaffold49433__1_contigs__length_36204	LN:36204
skipping SAM header line:	@SQ	SN:PGA_scaffold49448__1_contigs__length_40249	LN:40249
skipping SAM header line:	@SQ	SN:PGA_scaffold49600__1_contigs__length_30811	LN:30811
skipping SAM header line:	@SQ	SN:PGA_scaffold49609__1_contigs__length_30653	LN:30653
skipping SAM header line:	@SQ	SN:PGA_scaffold49622__1_contigs__length_34505	LN:34505
skipping SAM header line:	@SQ	SN:PGA_scaffold50268__1_contigs__length_48869	LN:48869
skipping SAM header line:	@SQ	SN:PGA_scaffold50335__1_contigs__length_43040	LN:43040
skipping SAM header line:	@SQ	SN:PGA_scaffold50414__1_contigs__length_43015	LN:43015
skipping SAM header line:	@SQ	SN:PGA_scaffold50424__1_contigs__length_37325	LN:37325
skipping SAM header line:	@SQ	SN:PGA_scaffold50725__1_contigs__length_39725	LN:39725
skipping SAM header line:	@SQ	SN:PGA_scaffold51021__1_contigs__length_35521	LN:35521
skipping SAM header line:	@SQ	SN:PGA_scaffold51544__1_contigs__length_32260	LN:32260
skipping SAM header line:	@SQ	SN:PGA_scaffold51684__1_contigs__length_32586	LN:32586
skipping SAM header line:	@SQ	SN:PGA_scaffold51827__1_contigs__length_44668	LN:44668
skipping SAM header line:	@SQ	SN:PGA_scaffold51925__1_contigs__length_33625	LN:33625
skipping SAM header line:	@SQ	SN:PGA_scaffold52047__1_contigs__length_52540	LN:52540
skipping SAM header line:	@SQ	SN:PGA_scaffold52050__1_contigs__length_46830	LN:46830
skipping SAM header line:	@SQ	SN:PGA_scaffold52113__1_contigs__length_31958	LN:31958
skipping SAM header line:	@SQ	SN:PGA_scaffold52128__1_contigs__length_39877	LN:39877
skipping SAM header line:	@SQ	SN:PGA_scaffold52199__1_contigs__length_32611	LN:32611
skipping SAM header line:	@SQ	SN:PGA_scaffold52211__1_contigs__length_36968	LN:36968
skipping SAM header line:	@SQ	SN:PGA_scaffold52215__1_contigs__length_42996	LN:42996
skipping SAM header line:	@SQ	SN:PGA_scaffold52222__1_contigs__length_39311	LN:39311
skipping SAM header line:	@SQ	SN:PGA_scaffold52266__1_contigs__length_35673	LN:35673
skipping SAM header line:	@SQ	SN:PGA_scaffold52328__1_contigs__length_39984	LN:39984
skipping SAM header line:	@SQ	SN:PGA_scaffold52349__1_contigs__length_37106	LN:37106
skipping SAM header line:	@SQ	SN:PGA_scaffold52350__1_contigs__length_45781	LN:45781
skipping SAM header line:	@SQ	SN:PGA_scaffold52359__1_contigs__length_33365	LN:33365
skipping SAM header line:	@SQ	SN:PGA_scaffold52387__1_contigs__length_40531	LN:40531
skipping SAM header line:	@SQ	SN:PGA_scaffold52390__1_contigs__length_35773	LN:35773
skipping SAM header line:	@SQ	SN:PGA_scaffold52392__1_contigs__length_46240	LN:46240
skipping SAM header line:	@SQ	SN:PGA_scaffold52393__1_contigs__length_36780	LN:36780
skipping SAM header line:	@SQ	SN:PGA_scaffold52394__1_contigs__length_53108	LN:53108
skipping SAM header line:	@SQ	SN:PGA_scaffold52396__1_contigs__length_36505	LN:36505
skipping SAM header line:	@SQ	SN:PGA_scaffold52869__1_contigs__length_35263	LN:35263
skipping SAM header line:	@SQ	SN:PGA_scaffold52872__1_contigs__length_34839	LN:34839
skipping SAM header line:	@SQ	SN:PGA_scaffold52892__1_contigs__length_39173	LN:39173
skipping SAM header line:	@SQ	SN:PGA_scaffold52893__1_contigs__length_36559	LN:36559
skipping SAM header line:	@SQ	SN:PGA_scaffold52914__1_contigs__length_54588	LN:54588
skipping SAM header line:	@SQ	SN:PGA_scaffold52916__1_contigs__length_30509	LN:30509
skipping SAM header line:	@SQ	SN:PGA_scaffold52973__1_contigs__length_33821	LN:33821
skipping SAM header line:	@SQ	SN:PGA_scaffold52979__1_contigs__length_30521	LN:30521
skipping SAM header line:	@SQ	SN:PGA_scaffold53021__1_contigs__length_37828	LN:37828
skipping SAM header line:	@SQ	SN:PGA_scaffold53196__1_contigs__length_30707	LN:30707
skipping SAM header line:	@SQ	SN:PGA_scaffold53343__1_contigs__length_31364	LN:31364
skipping SAM header line:	@SQ	SN:PGA_scaffold53591__1_contigs__length_57201	LN:57201
skipping SAM header line:	@SQ	SN:PGA_scaffold53633__1_contigs__length_37396	LN:37396
skipping SAM header line:	@SQ	SN:PGA_scaffold53639__1_contigs__length_33404	LN:33404
skipping SAM header line:	@SQ	SN:PGA_scaffold53645__1_contigs__length_35399	LN:35399
skipping SAM header line:	@SQ	SN:PGA_scaffold53657__1_contigs__length_30921	LN:30921
skipping SAM header line:	@SQ	SN:PGA_scaffold53658__1_contigs__length_36208	LN:36208
skipping SAM header line:	@SQ	SN:PGA_scaffold53686__1_contigs__length_33430	LN:33430
skipping SAM header line:	@SQ	SN:PGA_scaffold53691__1_contigs__length_40282	LN:40282
skipping SAM header line:	@SQ	SN:PGA_scaffold53698__1_contigs__length_43785	LN:43785
skipping SAM header line:	@SQ	SN:PGA_scaffold53725__1_contigs__length_34176	LN:34176
skipping SAM header line:	@SQ	SN:PGA_scaffold53751__1_contigs__length_33279	LN:33279
skipping SAM header line:	@SQ	SN:PGA_scaffold53762__1_contigs__length_30332	LN:30332
skipping SAM header line:	@SQ	SN:PGA_scaffold53770__1_contigs__length_45803	LN:45803
skipping SAM header line:	@SQ	SN:PGA_scaffold53989__1_contigs__length_55742	LN:55742
skipping SAM header line:	@SQ	SN:PGA_scaffold53990__1_contigs__length_50335	LN:50335
skipping SAM header line:	@SQ	SN:PGA_scaffold53991__1_contigs__length_51016	LN:51016
skipping SAM header line:	@SQ	SN:PGA_scaffold53992__1_contigs__length_30819	LN:30819
skipping SAM header line:	@SQ	SN:PGA_scaffold53994__1_contigs__length_45288	LN:45288
skipping SAM header line:	@SQ	SN:PGA_scaffold53995__1_contigs__length_36326	LN:36326
skipping SAM header line:	@SQ	SN:PGA_scaffold54015__1_contigs__length_30408	LN:30408
skipping SAM header line:	@SQ	SN:PGA_scaffold54205__1_contigs__length_38797	LN:38797
skipping SAM header line:	@SQ	SN:PGA_scaffold54342__1_contigs__length_60814	LN:60814
skipping SAM header line:	@SQ	SN:PGA_scaffold54901__1_contigs__length_37309	LN:37309
skipping SAM header line:	@SQ	SN:PGA_scaffold54965__1_contigs__length_38374	LN:38374
skipping SAM header line:	@SQ	SN:PGA_scaffold54999__1_contigs__length_31291	LN:31291
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skipping SAM header line:	@SQ	SN:PGA_scaffold55083__1_contigs__length_45318	LN:45318
skipping SAM header line:	@SQ	SN:PGA_scaffold55088__1_contigs__length_30665	LN:30665
skipping SAM header line:	@SQ	SN:PGA_scaffold55135__1_contigs__length_48442	LN:48442
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skipping SAM header line:	@SQ	SN:PGA_scaffold55278__1_contigs__length_54668	LN:54668
skipping SAM header line:	@SQ	SN:PGA_scaffold55296__1_contigs__length_51595	LN:51595
skipping SAM header line:	@SQ	SN:PGA_scaffold55314__1_contigs__length_35295	LN:35295
skipping SAM header line:	@SQ	SN:PGA_scaffold55345__1_contigs__length_69732	LN:69732
skipping SAM header line:	@SQ	SN:PGA_scaffold55359__1_contigs__length_33158	LN:33158
skipping SAM header line:	@SQ	SN:PGA_scaffold55375__1_contigs__length_51625	LN:51625
skipping SAM header line:	@SQ	SN:PGA_scaffold55378__1_contigs__length_34882	LN:34882
skipping SAM header line:	@SQ	SN:PGA_scaffold55381__1_contigs__length_30600	LN:30600
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skipping SAM header line:	@SQ	SN:PGA_scaffold55714__1_contigs__length_36372	LN:36372
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skipping SAM header line:	@SQ	SN:PGA_scaffold56620__1_contigs__length_30848	LN:30848
skipping SAM header line:	@SQ	SN:PGA_scaffold56625__1_contigs__length_66358	LN:66358
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skipping SAM header line:	@SQ	SN:PGA_scaffold56650__1_contigs__length_33575	LN:33575
skipping SAM header line:	@SQ	SN:PGA_scaffold56652__1_contigs__length_44611	LN:44611
skipping SAM header line:	@SQ	SN:PGA_scaffold56671__1_contigs__length_32469	LN:32469
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skipping SAM header line:	@SQ	SN:PGA_scaffold56722__1_contigs__length_46018	LN:46018
skipping SAM header line:	@SQ	SN:PGA_scaffold56916__1_contigs__length_32078	LN:32078
skipping SAM header line:	@SQ	SN:PGA_scaffold56946__1_contigs__length_36592	LN:36592
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skipping SAM header line:	@SQ	SN:PGA_scaffold57301__1_contigs__length_34452	LN:34452
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skipping SAM header line:	@SQ	SN:PGA_scaffold57479__1_contigs__length_34907	LN:34907
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skipping SAM header line:	@SQ	SN:PGA_scaffold57706__1_contigs__length_40854	LN:40854
skipping SAM header line:	@SQ	SN:PGA_scaffold57710__1_contigs__length_31661	LN:31661
skipping SAM header line:	@SQ	SN:PGA_scaffold57711__1_contigs__length_39713	LN:39713
skipping SAM header line:	@SQ	SN:PGA_scaffold57717__1_contigs__length_50311	LN:50311
skipping SAM header line:	@SQ	SN:PGA_scaffold57865__1_contigs__length_37453	LN:37453
skipping SAM header line:	@SQ	SN:PGA_scaffold57884__1_contigs__length_38303	LN:38303
skipping SAM header line:	@SQ	SN:PGA_scaffold57901__1_contigs__length_33405	LN:33405
skipping SAM header line:	@SQ	SN:PGA_scaffold58076__1_contigs__length_32943	LN:32943
skipping SAM header line:	@SQ	SN:PGA_scaffold58238__1_contigs__length_68373	LN:68373
skipping SAM header line:	@SQ	SN:PGA_scaffold58264__1_contigs__length_33661	LN:33661
skipping SAM header line:	@SQ	SN:PGA_scaffold58284__1_contigs__length_33826	LN:33826
skipping SAM header line:	@SQ	SN:PGA_scaffold58361__1_contigs__length_52751	LN:52751
skipping SAM header line:	@SQ	SN:PGA_scaffold58366__1_contigs__length_37326	LN:37326
skipping SAM header line:	@SQ	SN:PGA_scaffold58382__1_contigs__length_41713	LN:41713
skipping SAM header line:	@SQ	SN:PGA_scaffold58383__1_contigs__length_44366	LN:44366
skipping SAM header line:	@SQ	SN:PGA_scaffold58388__1_contigs__length_32850	LN:32850
skipping SAM header line:	@SQ	SN:PGA_scaffold58393__1_contigs__length_33434	LN:33434
skipping SAM header line:	@SQ	SN:PGA_scaffold58403__1_contigs__length_40472	LN:40472
skipping SAM header line:	@SQ	SN:PGA_scaffold58406__1_contigs__length_39981	LN:39981
skipping SAM header line:	@SQ	SN:PGA_scaffold58408__1_contigs__length_51130	LN:51130
skipping SAM header line:	@SQ	SN:PGA_scaffold58414__1_contigs__length_31140	LN:31140
skipping SAM header line:	@SQ	SN:PGA_scaffold58423__1_contigs__length_47054	LN:47054
skipping SAM header line:	@SQ	SN:PGA_scaffold58431__1_contigs__length_30555	LN:30555
skipping SAM header line:	@SQ	SN:PGA_scaffold58439__1_contigs__length_35544	LN:35544
skipping SAM header line:	@SQ	SN:PGA_scaffold58443__1_contigs__length_34264	LN:34264
skipping SAM header line:	@SQ	SN:PGA_scaffold58450__1_contigs__length_35181	LN:35181
skipping SAM header line:	@SQ	SN:PGA_scaffold58637__1_contigs__length_30774	LN:30774
skipping SAM header line:	@SQ	SN:PGA_scaffold58638__1_contigs__length_36895	LN:36895
skipping SAM header line:	@SQ	SN:PGA_scaffold58640__1_contigs__length_35005	LN:35005
skipping SAM header line:	@SQ	SN:PGA_scaffold58676__1_contigs__length_42740	LN:42740
skipping SAM header line:	@SQ	SN:PGA_scaffold58700__1_contigs__length_38161	LN:38161
skipping SAM header line:	@SQ	SN:PGA_scaffold58712__1_contigs__length_43972	LN:43972
skipping SAM header line:	@SQ	SN:PGA_scaffold58749__1_contigs__length_42553	LN:42553
skipping SAM header line:	@SQ	SN:PGA_scaffold58976__1_contigs__length_32077	LN:32077
skipping SAM header line:	@SQ	SN:PGA_scaffold58984__1_contigs__length_30766	LN:30766
skipping SAM header line:	@SQ	SN:PGA_scaffold59041__1_contigs__length_49211	LN:49211
skipping SAM header line:	@SQ	SN:PGA_scaffold59054__1_contigs__length_30586	LN:30586
skipping SAM header line:	@SQ	SN:PGA_scaffold59056__1_contigs__length_33360	LN:33360
skipping SAM header line:	@SQ	SN:PGA_scaffold59166__1_contigs__length_30875	LN:30875
skipping SAM header line:	@SQ	SN:PGA_scaffold59171__1_contigs__length_43122	LN:43122
skipping SAM header line:	@SQ	SN:PGA_scaffold59190__1_contigs__length_41883	LN:41883
skipping SAM header line:	@SQ	SN:PGA_scaffold59377__1_contigs__length_38396	LN:38396
skipping SAM header line:	@SQ	SN:PGA_scaffold59388__1_contigs__length_56034	LN:56034
skipping SAM header line:	@SQ	SN:PGA_scaffold59390__1_contigs__length_40508	LN:40508
skipping SAM header line:	@SQ	SN:PGA_scaffold59404__1_contigs__length_40337	LN:40337
skipping SAM header line:	@SQ	SN:PGA_scaffold59464__1_contigs__length_36159	LN:36159
skipping SAM header line:	@SQ	SN:PGA_scaffold59592__1_contigs__length_38404	LN:38404
skipping SAM header line:	@SQ	SN:PGA_scaffold59604__1_contigs__length_46284	LN:46284
skipping SAM header line:	@SQ	SN:PGA_scaffold59620__1_contigs__length_43279	LN:43279
skipping SAM header line:	@SQ	SN:PGA_scaffold59626__1_contigs__length_59819	LN:59819
skipping SAM header line:	@SQ	SN:PGA_scaffold59638__1_contigs__length_36226	LN:36226
skipping SAM header line:	@SQ	SN:PGA_scaffold59686__1_contigs__length_38175	LN:38175
skipping SAM header line:	@SQ	SN:PGA_scaffold59687__1_contigs__length_34469	LN:34469
skipping SAM header line:	@SQ	SN:PGA_scaffold59721__1_contigs__length_42511	LN:42511
skipping SAM header line:	@SQ	SN:PGA_scaffold59723__1_contigs__length_39806	LN:39806
skipping SAM header line:	@SQ	SN:PGA_scaffold59727__1_contigs__length_31211	LN:31211
skipping SAM header line:	@SQ	SN:PGA_scaffold59729__1_contigs__length_32301	LN:32301
skipping SAM header line:	@SQ	SN:PGA_scaffold59750__1_contigs__length_36894	LN:36894
skipping SAM header line:	@SQ	SN:PGA_scaffold59858__1_contigs__length_39712	LN:39712
skipping SAM header line:	@SQ	SN:PGA_scaffold59872__1_contigs__length_51346	LN:51346
skipping SAM header line:	@SQ	SN:PGA_scaffold59907__1_contigs__length_30865	LN:30865
skipping SAM header line:	@SQ	SN:PGA_scaffold59933__1_contigs__length_43116	LN:43116
skipping SAM header line:	@SQ	SN:PGA_scaffold59943__1_contigs__length_33685	LN:33685
skipping SAM header line:	@SQ	SN:PGA_scaffold59992__1_contigs__length_30411	LN:30411
skipping SAM header line:	@SQ	SN:PGA_scaffold60009__1_contigs__length_34709	LN:34709
skipping SAM header line:	@SQ	SN:PGA_scaffold60084__1_contigs__length_34630	LN:34630
skipping SAM header line:	@SQ	SN:PGA_scaffold60127__1_contigs__length_40895	LN:40895
skipping SAM header line:	@SQ	SN:PGA_scaffold60139__1_contigs__length_40879	LN:40879
skipping SAM header line:	@SQ	SN:PGA_scaffold60216__1_contigs__length_40599	LN:40599
skipping SAM header line:	@SQ	SN:PGA_scaffold60236__1_contigs__length_37394	LN:37394
skipping SAM header line:	@SQ	SN:PGA_scaffold60271__1_contigs__length_33335	LN:33335
skipping SAM header line:	@SQ	SN:PGA_scaffold60279__1_contigs__length_36536	LN:36536
skipping SAM header line:	@SQ	SN:PGA_scaffold60286__1_contigs__length_31103	LN:31103
skipping SAM header line:	@SQ	SN:PGA_scaffold60289__1_contigs__length_78725	LN:78725
skipping SAM header line:	@SQ	SN:PGA_scaffold60299__1_contigs__length_52400	LN:52400
skipping SAM header line:	@SQ	SN:PGA_scaffold60318__1_contigs__length_36247	LN:36247
skipping SAM header line:	@SQ	SN:PGA_scaffold60412__1_contigs__length_79597	LN:79597
skipping SAM header line:	@SQ	SN:PGA_scaffold60413__1_contigs__length_42267	LN:42267
skipping SAM header line:	@SQ	SN:PGA_scaffold60414__1_contigs__length_49107	LN:49107
skipping SAM header line:	@SQ	SN:PGA_scaffold60441__1_contigs__length_43835	LN:43835
skipping SAM header line:	@SQ	SN:PGA_scaffold60488__1_contigs__length_50761	LN:50761
skipping SAM header line:	@SQ	SN:PGA_scaffold60490__1_contigs__length_43435	LN:43435
skipping SAM header line:	@SQ	SN:PGA_scaffold60615__1_contigs__length_40286	LN:40286
skipping SAM header line:	@SQ	SN:PGA_scaffold60652__1_contigs__length_52273	LN:52273
skipping SAM header line:	@SQ	SN:PGA_scaffold60657__1_contigs__length_45209	LN:45209
skipping SAM header line:	@SQ	SN:PGA_scaffold60699__1_contigs__length_33841	LN:33841
skipping SAM header line:	@SQ	SN:PGA_scaffold60701__1_contigs__length_53170	LN:53170
skipping SAM header line:	@SQ	SN:PGA_scaffold60731__1_contigs__length_32159	LN:32159
skipping SAM header line:	@SQ	SN:PGA_scaffold60733__1_contigs__length_38523	LN:38523
skipping SAM header line:	@SQ	SN:PGA_scaffold60734__1_contigs__length_32626	LN:32626
skipping SAM header line:	@SQ	SN:PGA_scaffold60739__1_contigs__length_33797	LN:33797
skipping SAM header line:	@SQ	SN:PGA_scaffold60760__1_contigs__length_45282	LN:45282
skipping SAM header line:	@SQ	SN:PGA_scaffold60835__1_contigs__length_31290	LN:31290
skipping SAM header line:	@SQ	SN:PGA_scaffold60836__1_contigs__length_40835	LN:40835
skipping SAM header line:	@SQ	SN:PGA_scaffold60844__1_contigs__length_38798	LN:38798
skipping SAM header line:	@SQ	SN:PGA_scaffold60846__1_contigs__length_40793	LN:40793
skipping SAM header line:	@SQ	SN:PGA_scaffold60985__1_contigs__length_43490	LN:43490
skipping SAM header line:	@SQ	SN:PGA_scaffold61013__1_contigs__length_40757	LN:40757
skipping SAM header line:	@SQ	SN:PGA_scaffold61037__1_contigs__length_31360	LN:31360
skipping SAM header line:	@SQ	SN:PGA_scaffold61040__1_contigs__length_32690	LN:32690
skipping SAM header line:	@SQ	SN:PGA_scaffold61046__1_contigs__length_41502	LN:41502
skipping SAM header line:	@SQ	SN:PGA_scaffold61063__1_contigs__length_47605	LN:47605
skipping SAM header line:	@SQ	SN:PGA_scaffold61072__1_contigs__length_33361	LN:33361
skipping SAM header line:	@SQ	SN:PGA_scaffold61096__1_contigs__length_30606	LN:30606
skipping SAM header line:	@SQ	SN:PGA_scaffold61099__1_contigs__length_49058	LN:49058
skipping SAM header line:	@SQ	SN:PGA_scaffold61103__1_contigs__length_37635	LN:37635
skipping SAM header line:	@SQ	SN:PGA_scaffold61168__1_contigs__length_30806	LN:30806
skipping SAM header line:	@SQ	SN:PGA_scaffold61190__1_contigs__length_38143	LN:38143
skipping SAM header line:	@SQ	SN:PGA_scaffold61242__1_contigs__length_43427	LN:43427
skipping SAM header line:	@SQ	SN:PGA_scaffold61273__1_contigs__length_40703	LN:40703
skipping SAM header line:	@SQ	SN:PGA_scaffold61280__1_contigs__length_40374	LN:40374
skipping SAM header line:	@SQ	SN:PGA_scaffold61312__1_contigs__length_51905	LN:51905
skipping SAM header line:	@SQ	SN:PGA_scaffold61335__1_contigs__length_32633	LN:32633
skipping SAM header line:	@SQ	SN:PGA_scaffold61337__1_contigs__length_43505	LN:43505
skipping SAM header line:	@SQ	SN:PGA_scaffold61343__1_contigs__length_35738	LN:35738
skipping SAM header line:	@SQ	SN:PGA_scaffold61363__1_contigs__length_43856	LN:43856
skipping SAM header line:	@SQ	SN:PGA_scaffold61364__1_contigs__length_58674	LN:58674
skipping SAM header line:	@SQ	SN:PGA_scaffold61370__1_contigs__length_51160	LN:51160
skipping SAM header line:	@SQ	SN:PGA_scaffold61374__1_contigs__length_38921	LN:38921
skipping SAM header line:	@SQ	SN:PGA_scaffold61375__1_contigs__length_39623	LN:39623
skipping SAM header line:	@SQ	SN:PGA_scaffold61388__1_contigs__length_45689	LN:45689
skipping SAM header line:	@SQ	SN:PGA_scaffold61392__1_contigs__length_57213	LN:57213
skipping SAM header line:	@SQ	SN:PGA_scaffold61445__1_contigs__length_33748	LN:33748
skipping SAM header line:	@SQ	SN:PGA_scaffold61589__1_contigs__length_43181	LN:43181
skipping SAM header line:	@SQ	SN:PGA_scaffold61592__1_contigs__length_35695	LN:35695
skipping SAM header line:	@SQ	SN:PGA_scaffold61615__1_contigs__length_40934	LN:40934
skipping SAM header line:	@SQ	SN:PGA_scaffold61619__1_contigs__length_33825	LN:33825
skipping SAM header line:	@SQ	SN:PGA_scaffold61628__1_contigs__length_48494	LN:48494
skipping SAM header line:	@SQ	SN:PGA_scaffold61636__1_contigs__length_47931	LN:47931
skipping SAM header line:	@SQ	SN:PGA_scaffold61640__1_contigs__length_57604	LN:57604
skipping SAM header line:	@SQ	SN:PGA_scaffold61646__1_contigs__length_55250	LN:55250
skipping SAM header line:	@SQ	SN:PGA_scaffold61650__1_contigs__length_31696	LN:31696
skipping SAM header line:	@SQ	SN:PGA_scaffold61652__1_contigs__length_58886	LN:58886
skipping SAM header line:	@SQ	SN:PGA_scaffold61705__1_contigs__length_34844	LN:34844
skipping SAM header line:	@SQ	SN:PGA_scaffold61706__1_contigs__length_34820	LN:34820
skipping SAM header line:	@SQ	SN:PGA_scaffold61707__1_contigs__length_41227	LN:41227
skipping SAM header line:	@SQ	SN:PGA_scaffold61777__1_contigs__length_45224	LN:45224
skipping SAM header line:	@SQ	SN:PGA_scaffold61840__1_contigs__length_33628	LN:33628
skipping SAM header line:	@SQ	SN:PGA_scaffold61847__1_contigs__length_83310	LN:83310
skipping SAM header line:	@SQ	SN:PGA_scaffold61852__1_contigs__length_31557	LN:31557
skipping SAM header line:	@SQ	SN:PGA_scaffold61853__1_contigs__length_48778	LN:48778
skipping SAM header line:	@SQ	SN:PGA_scaffold61879__1_contigs__length_44422	LN:44422
skipping SAM header line:	@SQ	SN:PGA_scaffold61884__1_contigs__length_46735	LN:46735
skipping SAM header line:	@SQ	SN:PGA_scaffold61888__1_contigs__length_43188	LN:43188
skipping SAM header line:	@SQ	SN:PGA_scaffold61897__1_contigs__length_41371	LN:41371
skipping SAM header line:	@SQ	SN:PGA_scaffold61982__1_contigs__length_37118	LN:37118
skipping SAM header line:	@SQ	SN:PGA_scaffold62098__1_contigs__length_77920	LN:77920
skipping SAM header line:	@SQ	SN:PGA_scaffold62138__1_contigs__length_33334	LN:33334
skipping SAM header line:	@SQ	SN:PGA_scaffold62168__1_contigs__length_43227	LN:43227
skipping SAM header line:	@SQ	SN:PGA_scaffold62186__1_contigs__length_43446	LN:43446
skipping SAM header line:	@SQ	SN:PGA_scaffold62192__1_contigs__length_56278	LN:56278
skipping SAM header line:	@SQ	SN:PGA_scaffold62198__1_contigs__length_38255	LN:38255
skipping SAM header line:	@SQ	SN:PGA_scaffold62206__1_contigs__length_67303	LN:67303
skipping SAM header line:	@SQ	SN:PGA_scaffold62224__1_contigs__length_74638	LN:74638
skipping SAM header line:	@SQ	SN:PGA_scaffold62226__1_contigs__length_86027	LN:86027
skipping SAM header line:	@SQ	SN:PGA_scaffold62319__1_contigs__length_36955	LN:36955
skipping SAM header line:	@SQ	SN:PGA_scaffold62364__1_contigs__length_54322	LN:54322
skipping SAM header line:	@SQ	SN:PGA_scaffold62403__1_contigs__length_38564	LN:38564
skipping SAM header line:	@SQ	SN:PGA_scaffold62435__1_contigs__length_59037	LN:59037
skipping SAM header line:	@SQ	SN:PGA_scaffold62443__1_contigs__length_39499	LN:39499
skipping SAM header line:	@SQ	SN:PGA_scaffold62455__1_contigs__length_63754	LN:63754
skipping SAM header line:	@SQ	SN:PGA_scaffold62459__1_contigs__length_42719	LN:42719
skipping SAM header line:	@SQ	SN:PGA_scaffold62475__1_contigs__length_44394	LN:44394
skipping SAM header line:	@SQ	SN:PGA_scaffold62477__1_contigs__length_40507	LN:40507
skipping SAM header line:	@SQ	SN:PGA_scaffold62478__1_contigs__length_48273	LN:48273
skipping SAM header line:	@SQ	SN:PGA_scaffold62492__1_contigs__length_31702	LN:31702
skipping SAM header line:	@SQ	SN:PGA_scaffold62537__1_contigs__length_39343	LN:39343
skipping SAM header line:	@SQ	SN:PGA_scaffold62542__1_contigs__length_32921	LN:32921
skipping SAM header line:	@SQ	SN:PGA_scaffold62544__1_contigs__length_41829	LN:41829
skipping SAM header line:	@SQ	SN:PGA_scaffold62591__1_contigs__length_64464	LN:64464
skipping SAM header line:	@SQ	SN:PGA_scaffold62601__1_contigs__length_36053	LN:36053
skipping SAM header line:	@SQ	SN:PGA_scaffold62602__1_contigs__length_30153	LN:30153
skipping SAM header line:	@SQ	SN:PGA_scaffold62661__1_contigs__length_34648	LN:34648
skipping SAM header line:	@SQ	SN:PGA_scaffold62687__1_contigs__length_56019	LN:56019
skipping SAM header line:	@SQ	SN:PGA_scaffold62752__1_contigs__length_33202	LN:33202
skipping SAM header line:	@SQ	SN:PGA_scaffold62854__1_contigs__length_47148	LN:47148
skipping SAM header line:	@SQ	SN:PGA_scaffold62862__1_contigs__length_31728	LN:31728
skipping SAM header line:	@SQ	SN:PGA_scaffold62865__1_contigs__length_39731	LN:39731
skipping SAM header line:	@SQ	SN:PGA_scaffold62888__1_contigs__length_54043	LN:54043
skipping SAM header line:	@SQ	SN:PGA_scaffold62889__1_contigs__length_48322	LN:48322
skipping SAM header line:	@SQ	SN:PGA_scaffold62893__1_contigs__length_35424	LN:35424
skipping SAM header line:	@SQ	SN:PGA_scaffold62898__1_contigs__length_44677	LN:44677
skipping SAM header line:	@SQ	SN:PGA_scaffold62899__1_contigs__length_48738	LN:48738
skipping SAM header line:	@SQ	SN:PGA_scaffold62907__1_contigs__length_31183	LN:31183
skipping SAM header line:	@SQ	SN:PGA_scaffold62912__1_contigs__length_44717	LN:44717
skipping SAM header line:	@SQ	SN:PGA_scaffold62914__1_contigs__length_47643	LN:47643
skipping SAM header line:	@SQ	SN:PGA_scaffold62917__1_contigs__length_34646	LN:34646
skipping SAM header line:	@SQ	SN:PGA_scaffold62920__1_contigs__length_32719	LN:32719
skipping SAM header line:	@SQ	SN:PGA_scaffold62965__1_contigs__length_46983	LN:46983
skipping SAM header line:	@SQ	SN:PGA_scaffold62974__1_contigs__length_42527	LN:42527
skipping SAM header line:	@SQ	SN:PGA_scaffold62982__1_contigs__length_51892	LN:51892
skipping SAM header line:	@SQ	SN:PGA_scaffold63008__1_contigs__length_40245	LN:40245
skipping SAM header line:	@SQ	SN:PGA_scaffold63022__1_contigs__length_31832	LN:31832
skipping SAM header line:	@SQ	SN:PGA_scaffold63033__1_contigs__length_64137	LN:64137
skipping SAM header line:	@SQ	SN:PGA_scaffold63057__1_contigs__length_30046	LN:30046
skipping SAM header line:	@SQ	SN:PGA_scaffold63059__1_contigs__length_30993	LN:30993
skipping SAM header line:	@SQ	SN:PGA_scaffold63073__1_contigs__length_59843	LN:59843
skipping SAM header line:	@SQ	SN:PGA_scaffold63076__1_contigs__length_65566	LN:65566
skipping SAM header line:	@SQ	SN:PGA_scaffold63085__1_contigs__length_46291	LN:46291
skipping SAM header line:	@SQ	SN:PGA_scaffold63090__1_contigs__length_43963	LN:43963
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skipping SAM header line:	@SQ	SN:PGA_scaffold63154__1_contigs__length_40784	LN:40784
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skipping SAM header line:	@SQ	SN:PGA_scaffold63196__1_contigs__length_54760	LN:54760
skipping SAM header line:	@SQ	SN:PGA_scaffold63198__1_contigs__length_39852	LN:39852
skipping SAM header line:	@SQ	SN:PGA_scaffold63251__1_contigs__length_76351	LN:76351
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skipping SAM header line:	@SQ	SN:PGA_scaffold63295__1_contigs__length_73242	LN:73242
skipping SAM header line:	@SQ	SN:PGA_scaffold63327__1_contigs__length_41823	LN:41823
skipping SAM header line:	@SQ	SN:PGA_scaffold63330__1_contigs__length_32542	LN:32542
skipping SAM header line:	@SQ	SN:PGA_scaffold63338__1_contigs__length_30825	LN:30825
skipping SAM header line:	@SQ	SN:PGA_scaffold63480__1_contigs__length_39812	LN:39812
skipping SAM header line:	@SQ	SN:PGA_scaffold63504__1_contigs__length_83511	LN:83511
skipping SAM header line:	@SQ	SN:PGA_scaffold63543__1_contigs__length_67322	LN:67322
skipping SAM header line:	@SQ	SN:PGA_scaffold63594__1_contigs__length_42878	LN:42878
skipping SAM header line:	@SQ	SN:PGA_scaffold63635__1_contigs__length_31389	LN:31389
skipping SAM header line:	@SQ	SN:PGA_scaffold63681__1_contigs__length_35508	LN:35508
skipping SAM header line:	@SQ	SN:PGA_scaffold63729__1_contigs__length_32731	LN:32731
skipping SAM header line:	@SQ	SN:PGA_scaffold63732__1_contigs__length_50829	LN:50829
skipping SAM header line:	@SQ	SN:PGA_scaffold63734__1_contigs__length_31184	LN:31184
skipping SAM header line:	@SQ	SN:PGA_scaffold63741__1_contigs__length_36520	LN:36520
skipping SAM header line:	@SQ	SN:PGA_scaffold63748__1_contigs__length_33842	LN:33842
skipping SAM header line:	@SQ	SN:PGA_scaffold63749__1_contigs__length_42782	LN:42782
skipping SAM header line:	@SQ	SN:PGA_scaffold63751__1_contigs__length_41022	LN:41022
skipping SAM header line:	@SQ	SN:PGA_scaffold63753__1_contigs__length_33280	LN:33280
skipping SAM header line:	@SQ	SN:PGA_scaffold63754__1_contigs__length_42061	LN:42061
skipping SAM header line:	@SQ	SN:PGA_scaffold63762__1_contigs__length_32202	LN:32202
skipping SAM header line:	@SQ	SN:PGA_scaffold63788__1_contigs__length_79173	LN:79173
skipping SAM header line:	@SQ	SN:PGA_scaffold63874__1_contigs__length_36908	LN:36908
skipping SAM header line:	@SQ	SN:PGA_scaffold63883__1_contigs__length_68258	LN:68258
skipping SAM header line:	@SQ	SN:PGA_scaffold63886__1_contigs__length_33964	LN:33964
skipping SAM header line:	@SQ	SN:PGA_scaffold63901__1_contigs__length_33737	LN:33737
skipping SAM header line:	@SQ	SN:PGA_scaffold63902__1_contigs__length_30981	LN:30981
skipping SAM header line:	@SQ	SN:PGA_scaffold63904__1_contigs__length_56940	LN:56940
skipping SAM header line:	@SQ	SN:PGA_scaffold63956__1_contigs__length_32393	LN:32393
skipping SAM header line:	@SQ	SN:PGA_scaffold63976__1_contigs__length_45677	LN:45677
skipping SAM header line:	@SQ	SN:PGA_scaffold63999__1_contigs__length_42041	LN:42041
skipping SAM header line:	@SQ	SN:PGA_scaffold64025__1_contigs__length_40125	LN:40125
skipping SAM header line:	@SQ	SN:PGA_scaffold64049__1_contigs__length_45875	LN:45875
skipping SAM header line:	@SQ	SN:PGA_scaffold64054__1_contigs__length_70679	LN:70679
skipping SAM header line:	@SQ	SN:PGA_scaffold64073__1_contigs__length_36128	LN:36128
skipping SAM header line:	@SQ	SN:PGA_scaffold64074__1_contigs__length_54897	LN:54897
skipping SAM header line:	@SQ	SN:PGA_scaffold64084__1_contigs__length_71263	LN:71263
skipping SAM header line:	@SQ	SN:PGA_scaffold64113__1_contigs__length_37629	LN:37629
skipping SAM header line:	@SQ	SN:PGA_scaffold64144__1_contigs__length_53004	LN:53004
skipping SAM header line:	@SQ	SN:PGA_scaffold64157__1_contigs__length_31528	LN:31528
skipping SAM header line:	@SQ	SN:PGA_scaffold64179__1_contigs__length_31562	LN:31562
skipping SAM header line:	@SQ	SN:PGA_scaffold64197__1_contigs__length_34579	LN:34579
skipping SAM header line:	@SQ	SN:PGA_scaffold64208__1_contigs__length_45484	LN:45484
skipping SAM header line:	@SQ	SN:PGA_scaffold64277__1_contigs__length_37318	LN:37318
skipping SAM header line:	@SQ	SN:PGA_scaffold64339__1_contigs__length_32767	LN:32767
skipping SAM header line:	@SQ	SN:PGA_scaffold64352__1_contigs__length_40037	LN:40037
skipping SAM header line:	@SQ	SN:PGA_scaffold64383__1_contigs__length_88001	LN:88001
skipping SAM header line:	@SQ	SN:PGA_scaffold64394__1_contigs__length_33404	LN:33404
skipping SAM header line:	@SQ	SN:PGA_scaffold64426__1_contigs__length_49077	LN:49077
skipping SAM header line:	@SQ	SN:PGA_scaffold64456__1_contigs__length_38607	LN:38607
skipping SAM header line:	@SQ	SN:PGA_scaffold64462__1_contigs__length_30068	LN:30068
skipping SAM header line:	@SQ	SN:PGA_scaffold64465__1_contigs__length_42085	LN:42085
skipping SAM header line:	@SQ	SN:PGA_scaffold64466__1_contigs__length_38330	LN:38330
skipping SAM header line:	@SQ	SN:PGA_scaffold64470__1_contigs__length_48847	LN:48847
skipping SAM header line:	@SQ	SN:PGA_scaffold64471__1_contigs__length_34271	LN:34271
skipping SAM header line:	@SQ	SN:PGA_scaffold64473__1_contigs__length_33437	LN:33437
skipping SAM header line:	@SQ	SN:PGA_scaffold64529__1_contigs__length_33564	LN:33564
skipping SAM header line:	@SQ	SN:PGA_scaffold64530__1_contigs__length_30567	LN:30567
skipping SAM header line:	@SQ	SN:PGA_scaffold64574__1_contigs__length_46667	LN:46667
skipping SAM header line:	@SQ	SN:PGA_scaffold64593__1_contigs__length_38604	LN:38604
skipping SAM header line:	@SQ	SN:PGA_scaffold64604__1_contigs__length_30801	LN:30801
skipping SAM header line:	@SQ	SN:PGA_scaffold64606__1_contigs__length_35651	LN:35651
skipping SAM header line:	@SQ	SN:PGA_scaffold64607__1_contigs__length_70013	LN:70013
skipping SAM header line:	@SQ	SN:PGA_scaffold64608__1_contigs__length_49602	LN:49602
skipping SAM header line:	@SQ	SN:PGA_scaffold64613__1_contigs__length_42419	LN:42419
skipping SAM header line:	@SQ	SN:PGA_scaffold64639__1_contigs__length_35410	LN:35410
skipping SAM header line:	@SQ	SN:PGA_scaffold64660__1_contigs__length_45703	LN:45703
skipping SAM header line:	@SQ	SN:PGA_scaffold64695__1_contigs__length_70541	LN:70541
skipping SAM header line:	@SQ	SN:PGA_scaffold64697__1_contigs__length_43204	LN:43204
skipping SAM header line:	@SQ	SN:PGA_scaffold64699__1_contigs__length_32242	LN:32242
skipping SAM header line:	@SQ	SN:PGA_scaffold64701__1_contigs__length_57865	LN:57865
skipping SAM header line:	@SQ	SN:PGA_scaffold64702__1_contigs__length_30546	LN:30546
skipping SAM header line:	@SQ	SN:PGA_scaffold64737__1_contigs__length_40853	LN:40853
skipping SAM header line:	@SQ	SN:PGA_scaffold64742__1_contigs__length_65506	LN:65506
skipping SAM header line:	@SQ	SN:PGA_scaffold64773__1_contigs__length_73184	LN:73184
skipping SAM header line:	@SQ	SN:PGA_scaffold64789__1_contigs__length_47691	LN:47691
skipping SAM header line:	@SQ	SN:PGA_scaffold64790__1_contigs__length_34222	LN:34222
skipping SAM header line:	@SQ	SN:PGA_scaffold64825__1_contigs__length_54777	LN:54777
skipping SAM header line:	@SQ	SN:PGA_scaffold64826__1_contigs__length_30214	LN:30214
skipping SAM header line:	@SQ	SN:PGA_scaffold64882__1_contigs__length_39867	LN:39867
skipping SAM header line:	@SQ	SN:PGA_scaffold64903__1_contigs__length_42771	LN:42771
skipping SAM header line:	@SQ	SN:PGA_scaffold64931__1_contigs__length_44617	LN:44617
skipping SAM header line:	@SQ	SN:PGA_scaffold64934__1_contigs__length_30286	LN:30286
skipping SAM header line:	@SQ	SN:PGA_scaffold64954__1_contigs__length_35731	LN:35731
skipping SAM header line:	@SQ	SN:PGA_scaffold64964__1_contigs__length_54048	LN:54048
skipping SAM header line:	@SQ	SN:PGA_scaffold64971__1_contigs__length_96233	LN:96233
skipping SAM header line:	@SQ	SN:PGA_scaffold65021__1_contigs__length_40132	LN:40132
skipping SAM header line:	@SQ	SN:PGA_scaffold65031__1_contigs__length_52072	LN:52072
skipping SAM header line:	@SQ	SN:PGA_scaffold65077__1_contigs__length_78086	LN:78086
skipping SAM header line:	@SQ	SN:PGA_scaffold65079__1_contigs__length_38850	LN:38850
skipping SAM header line:	@SQ	SN:PGA_scaffold65086__1_contigs__length_44941	LN:44941
skipping SAM header line:	@SQ	SN:PGA_scaffold65089__1_contigs__length_56911	LN:56911
skipping SAM header line:	@SQ	SN:PGA_scaffold65091__1_contigs__length_44371	LN:44371
skipping SAM header line:	@SQ	SN:PGA_scaffold65116__1_contigs__length_38844	LN:38844
skipping SAM header line:	@SQ	SN:PGA_scaffold65119__1_contigs__length_57101	LN:57101
skipping SAM header line:	@SQ	SN:PGA_scaffold65171__1_contigs__length_46480	LN:46480
skipping SAM header line:	@SQ	SN:PGA_scaffold65174__1_contigs__length_38341	LN:38341
skipping SAM header line:	@SQ	SN:PGA_scaffold65186__1_contigs__length_41412	LN:41412
skipping SAM header line:	@SQ	SN:PGA_scaffold65198__1_contigs__length_44989	LN:44989
skipping SAM header line:	@SQ	SN:PGA_scaffold65255__1_contigs__length_59866	LN:59866
skipping SAM header line:	@SQ	SN:PGA_scaffold65278__1_contigs__length_62003	LN:62003
skipping SAM header line:	@SQ	SN:PGA_scaffold65284__1_contigs__length_50840	LN:50840
skipping SAM header line:	@SQ	SN:PGA_scaffold65305__1_contigs__length_40067	LN:40067
skipping SAM header line:	@SQ	SN:PGA_scaffold65307__1_contigs__length_57187	LN:57187
skipping SAM header line:	@SQ	SN:PGA_scaffold65313__1_contigs__length_38893	LN:38893
skipping SAM header line:	@SQ	SN:PGA_scaffold65329__1_contigs__length_30096	LN:30096
skipping SAM header line:	@SQ	SN:PGA_scaffold65356__1_contigs__length_44587	LN:44587
skipping SAM header line:	@SQ	SN:PGA_scaffold65398__1_contigs__length_63537	LN:63537
skipping SAM header line:	@SQ	SN:PGA_scaffold65399__1_contigs__length_61838	LN:61838
skipping SAM header line:	@SQ	SN:PGA_scaffold65461__1_contigs__length_37665	LN:37665
skipping SAM header line:	@SQ	SN:PGA_scaffold65465__1_contigs__length_31799	LN:31799
skipping SAM header line:	@SQ	SN:PGA_scaffold65505__1_contigs__length_41126	LN:41126
skipping SAM header line:	@SQ	SN:PGA_scaffold65585__1_contigs__length_31567	LN:31567
skipping SAM header line:	@SQ	SN:PGA_scaffold65600__1_contigs__length_32016	LN:32016
skipping SAM header line:	@SQ	SN:PGA_scaffold65653__1_contigs__length_32424	LN:32424
skipping SAM header line:	@SQ	SN:PGA_scaffold65693__1_contigs__length_34648	LN:34648
skipping SAM header line:	@SQ	SN:PGA_scaffold65737__1_contigs__length_37231	LN:37231
skipping SAM header line:	@SQ	SN:PGA_scaffold65765__1_contigs__length_39217	LN:39217
skipping SAM header line:	@SQ	SN:PGA_scaffold65777__1_contigs__length_32724	LN:32724
skipping SAM header line:	@SQ	SN:PGA_scaffold65781__1_contigs__length_42302	LN:42302
skipping SAM header line:	@SQ	SN:PGA_scaffold65786__1_contigs__length_56597	LN:56597
skipping SAM header line:	@SQ	SN:PGA_scaffold65807__1_contigs__length_35379	LN:35379
skipping SAM header line:	@SQ	SN:PGA_scaffold65809__1_contigs__length_36632	LN:36632
skipping SAM header line:	@SQ	SN:PGA_scaffold65815__1_contigs__length_49308	LN:49308
skipping SAM header line:	@SQ	SN:PGA_scaffold65846__1_contigs__length_33986	LN:33986
skipping SAM header line:	@SQ	SN:PGA_scaffold65851__1_contigs__length_44621	LN:44621
skipping SAM header line:	@SQ	SN:PGA_scaffold65866__1_contigs__length_90471	LN:90471
skipping SAM header line:	@SQ	SN:PGA_scaffold65911__1_contigs__length_48303	LN:48303
skipping SAM header line:	@SQ	SN:PGA_scaffold65912__1_contigs__length_34561	LN:34561
skipping SAM header line:	@SQ	SN:PGA_scaffold65945__1_contigs__length_40559	LN:40559
skipping SAM header line:	@SQ	SN:PGA_scaffold65949__1_contigs__length_35336	LN:35336
skipping SAM header line:	@SQ	SN:PGA_scaffold65954__1_contigs__length_39725	LN:39725
skipping SAM header line:	@SQ	SN:PGA_scaffold65967__1_contigs__length_36096	LN:36096
skipping SAM header line:	@SQ	SN:PGA_scaffold65987__1_contigs__length_52560	LN:52560
skipping SAM header line:	@SQ	SN:PGA_scaffold66001__1_contigs__length_39013	LN:39013
skipping SAM header line:	@SQ	SN:PGA_scaffold66037__1_contigs__length_37904	LN:37904
skipping SAM header line:	@SQ	SN:PGA_scaffold66060__1_contigs__length_47051	LN:47051
skipping SAM header line:	@SQ	SN:PGA_scaffold66062__1_contigs__length_35720	LN:35720
skipping SAM header line:	@SQ	SN:PGA_scaffold66079__1_contigs__length_37644	LN:37644
skipping SAM header line:	@SQ	SN:PGA_scaffold66102__1_contigs__length_38669	LN:38669
skipping SAM header line:	@SQ	SN:PGA_scaffold66132__1_contigs__length_39192	LN:39192
skipping SAM header line:	@SQ	SN:PGA_scaffold66172__1_contigs__length_62844	LN:62844
skipping SAM header line:	@SQ	SN:PGA_scaffold66173__1_contigs__length_34319	LN:34319
skipping SAM header line:	@SQ	SN:PGA_scaffold66178__1_contigs__length_49601	LN:49601
skipping SAM header line:	@SQ	SN:PGA_scaffold66186__1_contigs__length_45928	LN:45928
skipping SAM header line:	@SQ	SN:PGA_scaffold66196__1_contigs__length_53841	LN:53841
skipping SAM header line:	@SQ	SN:PGA_scaffold66212__1_contigs__length_32503	LN:32503
skipping SAM header line:	@SQ	SN:PGA_scaffold66276__1_contigs__length_39820	LN:39820
skipping SAM header line:	@SQ	SN:PGA_scaffold66293__1_contigs__length_33304	LN:33304
skipping SAM header line:	@SQ	SN:PGA_scaffold66318__1_contigs__length_45619	LN:45619
skipping SAM header line:	@SQ	SN:PGA_scaffold66338__1_contigs__length_30756	LN:30756
skipping SAM header line:	@SQ	SN:PGA_scaffold66399__1_contigs__length_42456	LN:42456
skipping SAM header line:	@SQ	SN:PGA_scaffold66419__1_contigs__length_49715	LN:49715
skipping SAM header line:	@SQ	SN:PGA_scaffold66434__1_contigs__length_46589	LN:46589
skipping SAM header line:	@SQ	SN:PGA_scaffold66452__1_contigs__length_42482	LN:42482
skipping SAM header line:	@SQ	SN:PGA_scaffold66481__1_contigs__length_32127	LN:32127
skipping SAM header line:	@SQ	SN:PGA_scaffold66513__1_contigs__length_33853	LN:33853
skipping SAM header line:	@SQ	SN:PGA_scaffold66519__1_contigs__length_33851	LN:33851
skipping SAM header line:	@SQ	SN:PGA_scaffold66554__1_contigs__length_46378	LN:46378
skipping SAM header line:	@SQ	SN:PGA_scaffold66557__1_contigs__length_39298	LN:39298
skipping SAM header line:	@SQ	SN:PGA_scaffold66594__1_contigs__length_45007	LN:45007
skipping SAM header line:	@SQ	SN:PGA_scaffold66641__1_contigs__length_41123	LN:41123
skipping SAM header line:	@SQ	SN:PGA_scaffold66642__1_contigs__length_33139	LN:33139
skipping SAM header line:	@SQ	SN:PGA_scaffold66656__1_contigs__length_57103	LN:57103
skipping SAM header line:	@SQ	SN:PGA_scaffold66666__1_contigs__length_58206	LN:58206
skipping SAM header line:	@SQ	SN:PGA_scaffold66674__1_contigs__length_30853	LN:30853
skipping SAM header line:	@SQ	SN:PGA_scaffold66682__1_contigs__length_34382	LN:34382
skipping SAM header line:	@SQ	SN:PGA_scaffold66713__1_contigs__length_84867	LN:84867
skipping SAM header line:	@SQ	SN:PGA_scaffold66717__1_contigs__length_43668	LN:43668
skipping SAM header line:	@SQ	SN:PGA_scaffold66721__1_contigs__length_30932	LN:30932
skipping SAM header line:	@SQ	SN:PGA_scaffold66729__1_contigs__length_32971	LN:32971
skipping SAM header line:	@SQ	SN:PGA_scaffold66737__1_contigs__length_35128	LN:35128
skipping SAM header line:	@SQ	SN:PGA_scaffold66767__1_contigs__length_30996	LN:30996
skipping SAM header line:	@SQ	SN:PGA_scaffold66795__1_contigs__length_33697	LN:33697
skipping SAM header line:	@SQ	SN:PGA_scaffold66797__1_contigs__length_36926	LN:36926
skipping SAM header line:	@SQ	SN:PGA_scaffold66804__1_contigs__length_31229	LN:31229
skipping SAM header line:	@SQ	SN:PGA_scaffold66854__1_contigs__length_42887	LN:42887
skipping SAM header line:	@SQ	SN:PGA_scaffold66861__1_contigs__length_33604	LN:33604
skipping SAM header line:	@SQ	SN:PGA_scaffold66907__1_contigs__length_30664	LN:30664
skipping SAM header line:	@SQ	SN:PGA_scaffold66932__1_contigs__length_31539	LN:31539
skipping SAM header line:	@SQ	SN:PGA_scaffold67057__1_contigs__length_30266	LN:30266
skipping SAM header line:	@SQ	SN:PGA_scaffold67070__1_contigs__length_50493	LN:50493
skipping SAM header line:	@SQ	SN:PGA_scaffold67145__1_contigs__length_36418	LN:36418
skipping SAM header line:	@SQ	SN:PGA_scaffold67154__1_contigs__length_38445	LN:38445
skipping SAM header line:	@SQ	SN:PGA_scaffold67214__1_contigs__length_49673	LN:49673
skipping SAM header line:	@SQ	SN:PGA_scaffold67280__1_contigs__length_31885	LN:31885
skipping SAM header line:	@SQ	SN:PGA_scaffold67294__1_contigs__length_50832	LN:50832
skipping SAM header line:	@SQ	SN:PGA_scaffold67337__1_contigs__length_52553	LN:52553
skipping SAM header line:	@SQ	SN:PGA_scaffold67346__1_contigs__length_32090	LN:32090
skipping SAM header line:	@SQ	SN:PGA_scaffold67399__1_contigs__length_33211	LN:33211
skipping SAM header line:	@SQ	SN:PGA_scaffold67407__1_contigs__length_73205	LN:73205
skipping SAM header line:	@SQ	SN:PGA_scaffold67409__1_contigs__length_30272	LN:30272
skipping SAM header line:	@SQ	SN:PGA_scaffold67460__1_contigs__length_63707	LN:63707
skipping SAM header line:	@SQ	SN:PGA_scaffold67469__1_contigs__length_34100	LN:34100
skipping SAM header line:	@SQ	SN:PGA_scaffold67491__1_contigs__length_36666	LN:36666
skipping SAM header line:	@SQ	SN:PGA_scaffold67492__1_contigs__length_32377	LN:32377
skipping SAM header line:	@SQ	SN:PGA_scaffold67500__1_contigs__length_32321	LN:32321
skipping SAM header line:	@SQ	SN:PGA_scaffold67501__1_contigs__length_45282	LN:45282
skipping SAM header line:	@SQ	SN:PGA_scaffold67506__1_contigs__length_34916	LN:34916
skipping SAM header line:	@SQ	SN:PGA_scaffold67532__1_contigs__length_45886	LN:45886
skipping SAM header line:	@SQ	SN:PGA_scaffold67555__1_contigs__length_42738	LN:42738
skipping SAM header line:	@SQ	SN:PGA_scaffold67566__1_contigs__length_131359	LN:131359
skipping SAM header line:	@SQ	SN:PGA_scaffold67576__1_contigs__length_71513	LN:71513
skipping SAM header line:	@SQ	SN:PGA_scaffold67579__1_contigs__length_30606	LN:30606
skipping SAM header line:	@SQ	SN:PGA_scaffold67604__1_contigs__length_30533	LN:30533
skipping SAM header line:	@SQ	SN:PGA_scaffold67614__1_contigs__length_45881	LN:45881
skipping SAM header line:	@SQ	SN:PGA_scaffold67629__1_contigs__length_41418	LN:41418
skipping SAM header line:	@SQ	SN:PGA_scaffold67633__1_contigs__length_49909	LN:49909
skipping SAM header line:	@SQ	SN:PGA_scaffold67641__1_contigs__length_35654	LN:35654
skipping SAM header line:	@SQ	SN:PGA_scaffold67666__1_contigs__length_32329	LN:32329
skipping SAM header line:	@SQ	SN:PGA_scaffold67687__1_contigs__length_62665	LN:62665
skipping SAM header line:	@SQ	SN:PGA_scaffold67702__1_contigs__length_30259	LN:30259
skipping SAM header line:	@SQ	SN:PGA_scaffold67709__1_contigs__length_32364	LN:32364
skipping SAM header line:	@SQ	SN:PGA_scaffold67745__1_contigs__length_41387	LN:41387
skipping SAM header line:	@SQ	SN:PGA_scaffold67754__1_contigs__length_46865	LN:46865
skipping SAM header line:	@SQ	SN:PGA_scaffold67781__1_contigs__length_42225	LN:42225
skipping SAM header line:	@SQ	SN:PGA_scaffold67782__1_contigs__length_31631	LN:31631
skipping SAM header line:	@SQ	SN:PGA_scaffold67794__1_contigs__length_36514	LN:36514
skipping SAM header line:	@SQ	SN:PGA_scaffold67874__1_contigs__length_35874	LN:35874
skipping SAM header line:	@SQ	SN:PGA_scaffold67908__1_contigs__length_39573	LN:39573
skipping SAM header line:	@SQ	SN:PGA_scaffold67909__1_contigs__length_30059	LN:30059
skipping SAM header line:	@SQ	SN:PGA_scaffold67921__1_contigs__length_42945	LN:42945
skipping SAM header line:	@SQ	SN:PGA_scaffold67942__1_contigs__length_32835	LN:32835
skipping SAM header line:	@SQ	SN:PGA_scaffold67967__1_contigs__length_40481	LN:40481
skipping SAM header line:	@SQ	SN:PGA_scaffold67981__1_contigs__length_35686	LN:35686
skipping SAM header line:	@SQ	SN:PGA_scaffold68035__1_contigs__length_42103	LN:42103
skipping SAM header line:	@SQ	SN:PGA_scaffold68039__1_contigs__length_32241	LN:32241
skipping SAM header line:	@SQ	SN:PGA_scaffold68042__1_contigs__length_43179	LN:43179
skipping SAM header line:	@SQ	SN:PGA_scaffold68044__1_contigs__length_31992	LN:31992
skipping SAM header line:	@SQ	SN:PGA_scaffold68049__1_contigs__length_34344	LN:34344
skipping SAM header line:	@SQ	SN:PGA_scaffold68053__1_contigs__length_31000	LN:31000
skipping SAM header line:	@SQ	SN:PGA_scaffold68092__1_contigs__length_33414	LN:33414
skipping SAM header line:	@SQ	SN:PGA_scaffold68150__1_contigs__length_50783	LN:50783
skipping SAM header line:	@SQ	SN:PGA_scaffold68157__1_contigs__length_34106	LN:34106
skipping SAM header line:	@SQ	SN:PGA_scaffold68184__1_contigs__length_41355	LN:41355
skipping SAM header line:	@SQ	SN:PGA_scaffold68193__1_contigs__length_46031	LN:46031
skipping SAM header line:	@SQ	SN:PGA_scaffold68205__1_contigs__length_30954	LN:30954
skipping SAM header line:	@SQ	SN:PGA_scaffold68252__1_contigs__length_37078	LN:37078
skipping SAM header line:	@SQ	SN:PGA_scaffold68273__1_contigs__length_46075	LN:46075
skipping SAM header line:	@SQ	SN:PGA_scaffold68274__1_contigs__length_63866	LN:63866
skipping SAM header line:	@SQ	SN:PGA_scaffold68332__1_contigs__length_52891	LN:52891
skipping SAM header line:	@SQ	SN:PGA_scaffold68355__1_contigs__length_44244	LN:44244
skipping SAM header line:	@SQ	SN:PGA_scaffold68382__1_contigs__length_35256	LN:35256
skipping SAM header line:	@SQ	SN:PGA_scaffold68387__1_contigs__length_39768	LN:39768
skipping SAM header line:	@SQ	SN:PGA_scaffold68394__1_contigs__length_31191	LN:31191
skipping SAM header line:	@SQ	SN:PGA_scaffold68395__1_contigs__length_45596	LN:45596
skipping SAM header line:	@SQ	SN:PGA_scaffold68397__1_contigs__length_46584	LN:46584
skipping SAM header line:	@SQ	SN:PGA_scaffold68425__1_contigs__length_32148	LN:32148
skipping SAM header line:	@SQ	SN:PGA_scaffold68455__1_contigs__length_49171	LN:49171
skipping SAM header line:	@SQ	SN:PGA_scaffold68463__1_contigs__length_36019	LN:36019
skipping SAM header line:	@SQ	SN:PGA_scaffold68476__1_contigs__length_31493	LN:31493
skipping SAM header line:	@SQ	SN:PGA_scaffold68483__1_contigs__length_57370	LN:57370
skipping SAM header line:	@SQ	SN:PGA_scaffold68484__1_contigs__length_47467	LN:47467
skipping SAM header line:	@SQ	SN:PGA_scaffold68495__1_contigs__length_36431	LN:36431
skipping SAM header line:	@SQ	SN:PGA_scaffold68498__1_contigs__length_33054	LN:33054
skipping SAM header line:	@SQ	SN:PGA_scaffold68529__1_contigs__length_45929	LN:45929
skipping SAM header line:	@SQ	SN:PGA_scaffold68536__1_contigs__length_53547	LN:53547
skipping SAM header line:	@SQ	SN:PGA_scaffold68576__1_contigs__length_34428	LN:34428
skipping SAM header line:	@SQ	SN:PGA_scaffold68613__1_contigs__length_44262	LN:44262
skipping SAM header line:	@SQ	SN:PGA_scaffold68674__1_contigs__length_32423	LN:32423
skipping SAM header line:	@SQ	SN:PGA_scaffold68721__1_contigs__length_42259	LN:42259
skipping SAM header line:	@SQ	SN:PGA_scaffold68747__1_contigs__length_49906	LN:49906
skipping SAM header line:	@SQ	SN:PGA_scaffold68765__1_contigs__length_40132	LN:40132
skipping SAM header line:	@SQ	SN:PGA_scaffold68777__1_contigs__length_38286	LN:38286
skipping SAM header line:	@SQ	SN:PGA_scaffold68795__1_contigs__length_49952	LN:49952
skipping SAM header line:	@SQ	SN:PGA_scaffold68798__1_contigs__length_41851	LN:41851
skipping SAM header line:	@SQ	SN:PGA_scaffold68816__1_contigs__length_39953	LN:39953
skipping SAM header line:	@SQ	SN:PGA_scaffold68822__1_contigs__length_40525	LN:40525
skipping SAM header line:	@SQ	SN:PGA_scaffold68849__1_contigs__length_42390	LN:42390
skipping SAM header line:	@SQ	SN:PGA_scaffold68855__1_contigs__length_38462	LN:38462
skipping SAM header line:	@SQ	SN:PGA_scaffold68858__1_contigs__length_37103	LN:37103
skipping SAM header line:	@SQ	SN:PGA_scaffold68888__1_contigs__length_30760	LN:30760
skipping SAM header line:	@SQ	SN:PGA_scaffold68902__1_contigs__length_32565	LN:32565
skipping SAM header line:	@SQ	SN:PGA_scaffold68916__1_contigs__length_32130	LN:32130
skipping SAM header line:	@SQ	SN:PGA_scaffold68959__1_contigs__length_34473	LN:34473
skipping SAM header line:	@SQ	SN:PGA_scaffold68980__1_contigs__length_31650	LN:31650
skipping SAM header line:	@SQ	SN:PGA_scaffold69000__1_contigs__length_31325	LN:31325
skipping SAM header line:	@SQ	SN:PGA_scaffold69031__1_contigs__length_49096	LN:49096
skipping SAM header line:	@SQ	SN:PGA_scaffold69064__1_contigs__length_30263	LN:30263
skipping SAM header line:	@SQ	SN:PGA_scaffold69066__1_contigs__length_41967	LN:41967
skipping SAM header line:	@SQ	SN:PGA_scaffold69075__1_contigs__length_43631	LN:43631
skipping SAM header line:	@SQ	SN:PGA_scaffold69088__1_contigs__length_46450	LN:46450
skipping SAM header line:	@SQ	SN:PGA_scaffold69098__1_contigs__length_35440	LN:35440
skipping SAM header line:	@SQ	SN:PGA_scaffold69099__1_contigs__length_56136	LN:56136
skipping SAM header line:	@SQ	SN:PGA_scaffold69107__1_contigs__length_36690	LN:36690
skipping SAM header line:	@SQ	SN:PGA_scaffold69130__1_contigs__length_52115	LN:52115
skipping SAM header line:	@SQ	SN:PGA_scaffold69149__1_contigs__length_34885	LN:34885
skipping SAM header line:	@SQ	SN:PGA_scaffold69173__1_contigs__length_31383	LN:31383
skipping SAM header line:	@SQ	SN:PGA_scaffold69251__1_contigs__length_36385	LN:36385
skipping SAM header line:	@SQ	SN:PGA_scaffold69286__1_contigs__length_32034	LN:32034
skipping SAM header line:	@SQ	SN:PGA_scaffold69294__1_contigs__length_33022	LN:33022
skipping SAM header line:	@SQ	SN:PGA_scaffold69311__1_contigs__length_34239	LN:34239
skipping SAM header line:	@SQ	SN:PGA_scaffold69332__1_contigs__length_37657	LN:37657
skipping SAM header line:	@SQ	SN:PGA_scaffold69353__1_contigs__length_32912	LN:32912
skipping SAM header line:	@SQ	SN:PGA_scaffold69354__1_contigs__length_42598	LN:42598
skipping SAM header line:	@SQ	SN:PGA_scaffold69362__1_contigs__length_32911	LN:32911
skipping SAM header line:	@SQ	SN:PGA_scaffold69376__1_contigs__length_34929	LN:34929
skipping SAM header line:	@SQ	SN:PGA_scaffold69388__1_contigs__length_51830	LN:51830
skipping SAM header line:	@SQ	SN:PGA_scaffold69435__1_contigs__length_57426	LN:57426
skipping SAM header line:	@SQ	SN:PGA_scaffold69439__1_contigs__length_41542	LN:41542
skipping SAM header line:	@SQ	SN:PGA_scaffold69451__1_contigs__length_39160	LN:39160
skipping SAM header line:	@SQ	SN:PGA_scaffold69459__1_contigs__length_45501	LN:45501
skipping SAM header line:	@SQ	SN:PGA_scaffold69477__1_contigs__length_38210	LN:38210
skipping SAM header line:	@SQ	SN:PGA_scaffold69479__1_contigs__length_32808	LN:32808
skipping SAM header line:	@SQ	SN:PGA_scaffold69484__1_contigs__length_31150	LN:31150
skipping SAM header line:	@SQ	SN:PGA_scaffold69495__1_contigs__length_53052	LN:53052
skipping SAM header line:	@SQ	SN:PGA_scaffold69529__1_contigs__length_33639	LN:33639
skipping SAM header line:	@SQ	SN:PGA_scaffold69555__1_contigs__length_42966	LN:42966
skipping SAM header line:	@SQ	SN:PGA_scaffold69556__1_contigs__length_33961	LN:33961
skipping SAM header line:	@SQ	SN:PGA_scaffold69619__1_contigs__length_30388	LN:30388
skipping SAM header line:	@SQ	SN:PGA_scaffold69621__1_contigs__length_30422	LN:30422
skipping SAM header line:	@SQ	SN:PGA_scaffold69622__1_contigs__length_37660	LN:37660
skipping SAM header line:	@SQ	SN:PGA_scaffold69631__1_contigs__length_44909	LN:44909
skipping SAM header line:	@SQ	SN:PGA_scaffold69645__1_contigs__length_46339	LN:46339
skipping SAM header line:	@SQ	SN:PGA_scaffold69669__1_contigs__length_34799	LN:34799
skipping SAM header line:	@SQ	SN:PGA_scaffold69683__1_contigs__length_40360	LN:40360
skipping SAM header line:	@SQ	SN:PGA_scaffold69711__1_contigs__length_31728	LN:31728
skipping SAM header line:	@SQ	SN:PGA_scaffold69724__1_contigs__length_36238	LN:36238
skipping SAM header line:	@SQ	SN:PGA_scaffold69769__1_contigs__length_67326	LN:67326
skipping SAM header line:	@SQ	SN:PGA_scaffold69780__1_contigs__length_36085	LN:36085
skipping SAM header line:	@SQ	SN:PGA_scaffold69798__1_contigs__length_44809	LN:44809
skipping SAM header line:	@SQ	SN:PGA_scaffold69800__1_contigs__length_33144	LN:33144
skipping SAM header line:	@SQ	SN:PGA_scaffold69807__1_contigs__length_45521	LN:45521
skipping SAM header line:	@SQ	SN:PGA_scaffold69829__1_contigs__length_34810	LN:34810
skipping SAM header line:	@SQ	SN:PGA_scaffold69869__1_contigs__length_52996	LN:52996
skipping SAM header line:	@SQ	SN:PGA_scaffold69890__1_contigs__length_34157	LN:34157
skipping SAM header line:	@SQ	SN:PGA_scaffold69901__1_contigs__length_33452	LN:33452
skipping SAM header line:	@SQ	SN:PGA_scaffold69924__1_contigs__length_44446	LN:44446
skipping SAM header line:	@SQ	SN:PGA_scaffold69935__1_contigs__length_32162	LN:32162
skipping SAM header line:	@SQ	SN:PGA_scaffold69949__1_contigs__length_34320	LN:34320
skipping SAM header line:	@SQ	SN:PGA_scaffold69958__1_contigs__length_74035	LN:74035
skipping SAM header line:	@SQ	SN:PGA_scaffold69967__1_contigs__length_33074	LN:33074
skipping SAM header line:	@SQ	SN:PGA_scaffold69970__1_contigs__length_36785	LN:36785
skipping SAM header line:	@SQ	SN:PGA_scaffold69984__1_contigs__length_60451	LN:60451
skipping SAM header line:	@SQ	SN:PGA_scaffold70035__1_contigs__length_36658	LN:36658
skipping SAM header line:	@SQ	SN:PGA_scaffold70070__1_contigs__length_49697	LN:49697
skipping SAM header line:	@SQ	SN:PGA_scaffold70086__1_contigs__length_42850	LN:42850
skipping SAM header line:	@SQ	SN:PGA_scaffold70089__1_contigs__length_30721	LN:30721
skipping SAM header line:	@SQ	SN:PGA_scaffold70108__1_contigs__length_34192	LN:34192
skipping SAM header line:	@SQ	SN:PGA_scaffold70142__1_contigs__length_30446	LN:30446
skipping SAM header line:	@SQ	SN:PGA_scaffold70148__1_contigs__length_34259	LN:34259
skipping SAM header line:	@SQ	SN:PGA_scaffold70159__1_contigs__length_39306	LN:39306
skipping SAM header line:	@SQ	SN:PGA_scaffold70172__1_contigs__length_32250	LN:32250
skipping SAM header line:	@SQ	SN:PGA_scaffold70187__1_contigs__length_37612	LN:37612
skipping SAM header line:	@SQ	SN:PGA_scaffold70197__1_contigs__length_58642	LN:58642
skipping SAM header line:	@SQ	SN:PGA_scaffold70204__1_contigs__length_36625	LN:36625
skipping SAM header line:	@SQ	SN:PGA_scaffold70218__1_contigs__length_31585	LN:31585
skipping SAM header line:	@SQ	SN:PGA_scaffold70228__1_contigs__length_47471	LN:47471
skipping SAM header line:	@SQ	SN:PGA_scaffold70241__1_contigs__length_36884	LN:36884
skipping SAM header line:	@SQ	SN:PGA_scaffold70287__1_contigs__length_50534	LN:50534
skipping SAM header line:	@SQ	SN:PGA_scaffold70301__1_contigs__length_33670	LN:33670
skipping SAM header line:	@SQ	SN:PGA_scaffold70359__1_contigs__length_31823	LN:31823
skipping SAM header line:	@SQ	SN:PGA_scaffold70409__1_contigs__length_30379	LN:30379
skipping SAM header line:	@SQ	SN:PGA_scaffold70448__1_contigs__length_39500	LN:39500
skipping SAM header line:	@SQ	SN:PGA_scaffold70468__1_contigs__length_51685	LN:51685
skipping SAM header line:	@SQ	SN:PGA_scaffold70474__1_contigs__length_50365	LN:50365
skipping SAM header line:	@SQ	SN:PGA_scaffold70476__1_contigs__length_49360	LN:49360
skipping SAM header line:	@SQ	SN:PGA_scaffold70489__1_contigs__length_43424	LN:43424
skipping SAM header line:	@SQ	SN:PGA_scaffold70492__1_contigs__length_45967	LN:45967
skipping SAM header line:	@SQ	SN:PGA_scaffold70506__1_contigs__length_45721	LN:45721
skipping SAM header line:	@SQ	SN:PGA_scaffold70524__1_contigs__length_38508	LN:38508
skipping SAM header line:	@SQ	SN:PGA_scaffold70527__1_contigs__length_47656	LN:47656
skipping SAM header line:	@SQ	SN:PGA_scaffold70530__1_contigs__length_39511	LN:39511
skipping SAM header line:	@SQ	SN:PGA_scaffold70597__1_contigs__length_32895	LN:32895
skipping SAM header line:	@SQ	SN:PGA_scaffold70628__1_contigs__length_97563	LN:97563
skipping SAM header line:	@SQ	SN:PGA_scaffold70637__1_contigs__length_38808	LN:38808
skipping SAM header line:	@SQ	SN:PGA_scaffold70639__1_contigs__length_30384	LN:30384
skipping SAM header line:	@SQ	SN:PGA_scaffold70640__1_contigs__length_30940	LN:30940
skipping SAM header line:	@SQ	SN:PGA_scaffold70650__1_contigs__length_36340	LN:36340
skipping SAM header line:	@SQ	SN:PGA_scaffold70652__1_contigs__length_42814	LN:42814
skipping SAM header line:	@SQ	SN:PGA_scaffold70653__1_contigs__length_42188	LN:42188
skipping SAM header line:	@SQ	SN:PGA_scaffold70667__1_contigs__length_31073	LN:31073
skipping SAM header line:	@SQ	SN:PGA_scaffold70744__1_contigs__length_41353	LN:41353
skipping SAM header line:	@SQ	SN:PGA_scaffold70751__1_contigs__length_35732	LN:35732
skipping SAM header line:	@SQ	SN:PGA_scaffold70770__1_contigs__length_37647	LN:37647
skipping SAM header line:	@SQ	SN:PGA_scaffold70785__1_contigs__length_35848	LN:35848
skipping SAM header line:	@SQ	SN:PGA_scaffold70788__1_contigs__length_34232	LN:34232
skipping SAM header line:	@SQ	SN:PGA_scaffold70791__1_contigs__length_36664	LN:36664
skipping SAM header line:	@SQ	SN:PGA_scaffold70793__1_contigs__length_31797	LN:31797
skipping SAM header line:	@SQ	SN:PGA_scaffold70795__1_contigs__length_35890	LN:35890
skipping SAM header line:	@SQ	SN:PGA_scaffold70814__1_contigs__length_47056	LN:47056
skipping SAM header line:	@SQ	SN:PGA_scaffold70837__1_contigs__length_33454	LN:33454
skipping SAM header line:	@SQ	SN:PGA_scaffold70839__1_contigs__length_41296	LN:41296
skipping SAM header line:	@SQ	SN:PGA_scaffold70880__1_contigs__length_31372	LN:31372
skipping SAM header line:	@SQ	SN:PGA_scaffold70894__1_contigs__length_47158	LN:47158
skipping SAM header line:	@SQ	SN:PGA_scaffold70911__1_contigs__length_31781	LN:31781
skipping SAM header line:	@SQ	SN:PGA_scaffold70919__1_contigs__length_35080	LN:35080
skipping SAM header line:	@SQ	SN:PGA_scaffold70967__1_contigs__length_30258	LN:30258
skipping SAM header line:	@SQ	SN:PGA_scaffold70990__1_contigs__length_44272	LN:44272
skipping SAM header line:	@SQ	SN:PGA_scaffold71003__1_contigs__length_32258	LN:32258
skipping SAM header line:	@SQ	SN:PGA_scaffold71016__1_contigs__length_52719	LN:52719
skipping SAM header line:	@SQ	SN:PGA_scaffold71023__1_contigs__length_42297	LN:42297
skipping SAM header line:	@SQ	SN:PGA_scaffold71024__1_contigs__length_37906	LN:37906
skipping SAM header line:	@SQ	SN:PGA_scaffold71080__1_contigs__length_35132	LN:35132
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skipping SAM header line:	@SQ	SN:PGA_scaffold71091__1_contigs__length_33646	LN:33646
skipping SAM header line:	@SQ	SN:PGA_scaffold71150__1_contigs__length_30573	LN:30573
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skipping SAM header line:	@SQ	SN:PGA_scaffold71157__1_contigs__length_46861	LN:46861
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skipping SAM header line:	@SQ	SN:PGA_scaffold71207__1_contigs__length_51143	LN:51143
skipping SAM header line:	@SQ	SN:PGA_scaffold71213__1_contigs__length_30215	LN:30215
skipping SAM header line:	@SQ	SN:PGA_scaffold71232__1_contigs__length_34336	LN:34336
skipping SAM header line:	@SQ	SN:PGA_scaffold71242__1_contigs__length_41800	LN:41800
skipping SAM header line:	@SQ	SN:PGA_scaffold71274__1_contigs__length_40536	LN:40536
skipping SAM header line:	@SQ	SN:PGA_scaffold71303__1_contigs__length_45292	LN:45292
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skipping SAM header line:	@SQ	SN:PGA_scaffold71307__1_contigs__length_42784	LN:42784
skipping SAM header line:	@SQ	SN:PGA_scaffold71310__1_contigs__length_31572	LN:31572
skipping SAM header line:	@SQ	SN:PGA_scaffold71339__1_contigs__length_31076	LN:31076
skipping SAM header line:	@SQ	SN:PGA_scaffold71346__1_contigs__length_42813	LN:42813
skipping SAM header line:	@SQ	SN:PGA_scaffold71395__1_contigs__length_38671	LN:38671
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skipping SAM header line:	@SQ	SN:PGA_scaffold71488__1_contigs__length_33569	LN:33569
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skipping SAM header line:	@SQ	SN:PGA_scaffold71579__1_contigs__length_45677	LN:45677
skipping SAM header line:	@SQ	SN:PGA_scaffold71639__1_contigs__length_32497	LN:32497
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skipping SAM header line:	@SQ	SN:PGA_scaffold71779__1_contigs__length_40693	LN:40693
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skipping SAM header line:	@SQ	SN:PGA_scaffold71834__1_contigs__length_41452	LN:41452
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skipping SAM header line:	@SQ	SN:PGA_scaffold71870__1_contigs__length_62386	LN:62386
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skipping SAM header line:	@SQ	SN:PGA_scaffold71897__1_contigs__length_31037	LN:31037
skipping SAM header line:	@SQ	SN:PGA_scaffold71912__1_contigs__length_30188	LN:30188
skipping SAM header line:	@SQ	SN:PGA_scaffold71942__1_contigs__length_31503	LN:31503
skipping SAM header line:	@SQ	SN:PGA_scaffold71943__1_contigs__length_31970	LN:31970
skipping SAM header line:	@SQ	SN:PGA_scaffold71993__1_contigs__length_39379	LN:39379
skipping SAM header line:	@SQ	SN:PGA_scaffold72048__1_contigs__length_41282	LN:41282
skipping SAM header line:	@SQ	SN:PGA_scaffold72054__1_contigs__length_45500	LN:45500
skipping SAM header line:	@SQ	SN:PGA_scaffold72055__1_contigs__length_38448	LN:38448
skipping SAM header line:	@SQ	SN:PGA_scaffold72064__1_contigs__length_49224	LN:49224
skipping SAM header line:	@SQ	SN:PGA_scaffold72068__1_contigs__length_34189	LN:34189
skipping SAM header line:	@SQ	SN:PGA_scaffold72069__1_contigs__length_33571	LN:33571
skipping SAM header line:	@SQ	SN:PGA_scaffold72098__1_contigs__length_32300	LN:32300
skipping SAM header line:	@SQ	SN:PGA_scaffold72102__1_contigs__length_48320	LN:48320
skipping SAM header line:	@SQ	SN:PGA_scaffold72124__1_contigs__length_40033	LN:40033
skipping SAM header line:	@SQ	SN:PGA_scaffold72126__1_contigs__length_39352	LN:39352
skipping SAM header line:	@SQ	SN:PGA_scaffold72140__1_contigs__length_32759	LN:32759
skipping SAM header line:	@SQ	SN:PGA_scaffold72146__1_contigs__length_30253	LN:30253
skipping SAM header line:	@SQ	SN:PGA_scaffold72158__1_contigs__length_30030	LN:30030
skipping SAM header line:	@SQ	SN:PGA_scaffold72192__1_contigs__length_36706	LN:36706
skipping SAM header line:	@SQ	SN:PGA_scaffold72203__1_contigs__length_32495	LN:32495
skipping SAM header line:	@SQ	SN:PGA_scaffold72213__1_contigs__length_50541	LN:50541
skipping SAM header line:	@SQ	SN:PGA_scaffold72225__1_contigs__length_34829	LN:34829
skipping SAM header line:	@SQ	SN:PGA_scaffold72252__1_contigs__length_37979	LN:37979
skipping SAM header line:	@SQ	SN:PGA_scaffold72282__1_contigs__length_53999	LN:53999
skipping SAM header line:	@SQ	SN:PGA_scaffold72348__1_contigs__length_34970	LN:34970
skipping SAM header line:	@SQ	SN:PGA_scaffold72363__1_contigs__length_51108	LN:51108
skipping SAM header line:	@SQ	SN:PGA_scaffold72392__1_contigs__length_64631	LN:64631
skipping SAM header line:	@SQ	SN:PGA_scaffold72407__1_contigs__length_43790	LN:43790
skipping SAM header line:	@SQ	SN:PGA_scaffold72408__1_contigs__length_33946	LN:33946
skipping SAM header line:	@SQ	SN:PGA_scaffold72417__1_contigs__length_30564	LN:30564
skipping SAM header line:	@SQ	SN:PGA_scaffold72453__1_contigs__length_31506	LN:31506
skipping SAM header line:	@SQ	SN:PGA_scaffold72480__1_contigs__length_68331	LN:68331
skipping SAM header line:	@SQ	SN:PGA_scaffold72481__1_contigs__length_33703	LN:33703
skipping SAM header line:	@SQ	SN:PGA_scaffold72488__1_contigs__length_34233	LN:34233
skipping SAM header line:	@SQ	SN:PGA_scaffold72564__1_contigs__length_73514	LN:73514
skipping SAM header line:	@SQ	SN:PGA_scaffold72616__1_contigs__length_45338	LN:45338
skipping SAM header line:	@SQ	SN:PGA_scaffold72628__1_contigs__length_62046	LN:62046
skipping SAM header line:	@SQ	SN:PGA_scaffold72633__1_contigs__length_32334	LN:32334
skipping SAM header line:	@SQ	SN:PGA_scaffold72646__1_contigs__length_42408	LN:42408
skipping SAM header line:	@SQ	SN:PGA_scaffold72695__1_contigs__length_45668	LN:45668
skipping SAM header line:	@SQ	SN:PGA_scaffold72750__1_contigs__length_35341	LN:35341
skipping SAM header line:	@SQ	SN:PGA_scaffold72771__1_contigs__length_32509	LN:32509
skipping SAM header line:	@SQ	SN:PGA_scaffold72781__1_contigs__length_40297	LN:40297
skipping SAM header line:	@SQ	SN:PGA_scaffold72853__1_contigs__length_44414	LN:44414
skipping SAM header line:	@SQ	SN:PGA_scaffold72971__1_contigs__length_35934	LN:35934
skipping SAM header line:	@SQ	SN:PGA_scaffold73010__1_contigs__length_40655	LN:40655
skipping SAM header line:	@SQ	SN:PGA_scaffold73051__1_contigs__length_30566	LN:30566
skipping SAM header line:	@SQ	SN:PGA_scaffold73063__1_contigs__length_31134	LN:31134
skipping SAM header line:	@SQ	SN:PGA_scaffold73106__1_contigs__length_43715	LN:43715
skipping SAM header line:	@SQ	SN:PGA_scaffold73248__1_contigs__length_33079	LN:33079
skipping SAM header line:	@SQ	SN:PGA_scaffold73249__1_contigs__length_30228	LN:30228
skipping SAM header line:	@SQ	SN:PGA_scaffold73264__1_contigs__length_37818	LN:37818
skipping SAM header line:	@SQ	SN:PGA_scaffold74017__1_contigs__length_32278	LN:32278
skipping SAM header line:	@SQ	SN:PGA_scaffold74018__1_contigs__length_32278	LN:32278
skipping SAM header line:	@SQ	SN:PGA_scaffold76166__1_contigs__length_39785	LN:39785
skipping SAM header line:	@SQ	SN:PGA_scaffold76167__1_contigs__length_39785	LN:39785
skipping SAM header line:	@SQ	SN:PGA_scaffold76168__1_contigs__length_39717	LN:39717
skipping SAM header line:	@SQ	SN:PGA_scaffold76169__1_contigs__length_39717	LN:39717
skipping SAM header line:	@SQ	SN:PGA_scaffold79402__1_contigs__length_47506	LN:47506
skipping SAM header line:	@SQ	SN:PGA_scaffold79403__1_contigs__length_47506	LN:47506
skipping SAM header line:	@SQ	SN:PGA_scaffold79404__1_contigs__length_47487	LN:47487
skipping SAM header line:	@SQ	SN:PGA_scaffold79405__1_contigs__length_47487	LN:47487
skipping SAM header line:	@SQ	SN:PGA_scaffold81198__1_contigs__length_30077	LN:30077
skipping SAM header line:	@SQ	SN:PGA_scaffold81199__1_contigs__length_30077	LN:30077
skipping SAM header line:	@SQ	SN:PGA_scaffold82842__1_contigs__length_39037	LN:39037
skipping SAM header line:	@SQ	SN:PGA_scaffold82843__1_contigs__length_39038	LN:39038
skipping SAM header line:	@SQ	SN:PGA_scaffold82844__1_contigs__length_39037	LN:39037
skipping SAM header line:	@SQ	SN:PGA_scaffold82845__1_contigs__length_39038	LN:39038
skipping SAM header line:	@SQ	SN:PGA_scaffold82846__1_contigs__length_30206	LN:30206
skipping SAM header line:	@SQ	SN:PGA_scaffold82847__1_contigs__length_30206	LN:30206
skipping SAM header line:	@SQ	SN:PGA_scaffold83718__1_contigs__length_30091	LN:30091
skipping SAM header line:	@SQ	SN:PGA_scaffold83719__1_contigs__length_30091	LN:30091
skipping SAM header line:	@SQ	SN:PGA_scaffold83732__1_contigs__length_30091	LN:30091
skipping SAM header line:	@SQ	SN:PGA_scaffold83733__1_contigs__length_30091	LN:30091
skipping SAM header line:	@SQ	SN:PGA_scaffold84570__1_contigs__length_34138	LN:34138
skipping SAM header line:	@SQ	SN:PGA_scaffold84571__1_contigs__length_34138	LN:34138
skipping SAM header line:	@SQ	SN:PGA_scaffold86623__1_contigs__length_31971	LN:31971
skipping SAM header line:	@SQ	SN:PGA_scaffold86624__1_contigs__length_31971	LN:31971
skipping SAM header line:	@SQ	SN:PGA_scaffold86625__1_contigs__length_31971	LN:31971
skipping SAM header line:	@SQ	SN:PGA_scaffold86626__1_contigs__length_31971	LN:31971
skipping SAM header line:	@SQ	SN:PGA_scaffold86671__1_contigs__length_30077	LN:30077
skipping SAM header line:	@SQ	SN:PGA_scaffold86672__1_contigs__length_30077	LN:30077
skipping SAM header line:	@SQ	SN:PGA_scaffold87729__1_contigs__length_32896	LN:32896
skipping SAM header line:	@SQ	SN:PGA_scaffold87730__1_contigs__length_32896	LN:32896
skipping SAM header line:	@SQ	SN:PGA_scaffold87737__1_contigs__length_32896	LN:32896
skipping SAM header line:	@SQ	SN:PGA_scaffold87738__1_contigs__length_32896	LN:32896
skipping SAM header line:	@SQ	SN:PGA_scaffold87931__1_contigs__length_38482	LN:38482
skipping SAM header line:	@SQ	SN:PGA_scaffold87935__1_contigs__length_38482	LN:38482
skipping SAM header line:	@SQ	SN:PGA_scaffold92389__1_contigs__length_30012	LN:30012
skipping SAM header line:	@SQ	SN:PGA_scaffold92391__1_contigs__length_30012	LN:30012
skipping SAM header line:	@SQ	SN:PGA_scaffold97179__1_contigs__length_37332	LN:37332
skipping SAM header line:	@SQ	SN:PGA_scaffold97181__1_contigs__length_41673	LN:41673
skipping SAM header line:	@SQ	SN:PGA_scaffold97182__1_contigs__length_37332	LN:37332
skipping SAM header line:	@SQ	SN:PGA_scaffold97184__1_contigs__length_41673	LN:41673
skipping SAM header line:	@SQ	SN:PGA_scaffold99123__1_contigs__length_38482	LN:38482
skipping SAM header line:	@SQ	SN:PGA_scaffold99127__1_contigs__length_38482	LN:38482
skipping SAM header line:	@SQ	SN:PGA_scaffold99731__1_contigs__length_75786	LN:75786
skipping SAM header line:	@SQ	SN:PGA_scaffold99732__1_contigs__length_75786	LN:75786
skipping SAM header line:	@SQ	SN:PGA_scaffold99735__1_contigs__length_75899	LN:75899
skipping SAM header line:	@SQ	SN:PGA_scaffold99736__1_contigs__length_75899	LN:75899
skipping SAM header line:	@SQ	SN:PGA_scaffold101565__1_contigs__length_30499	LN:30499
skipping SAM header line:	@SQ	SN:PGA_scaffold101566__1_contigs__length_30495	LN:30495
skipping SAM header line:	@SQ	SN:PGA_scaffold101567__1_contigs__length_30499	LN:30499
skipping SAM header line:	@SQ	SN:PGA_scaffold101568__1_contigs__length_30495	LN:30495
skipping SAM header line:	@SQ	SN:PGA_scaffold106923__1_contigs__length_30932	LN:30932
skipping SAM header line:	@SQ	SN:PGA_scaffold106925__1_contigs__length_30932	LN:30932
skipping SAM header line:	@SQ	SN:PGA_scaffold108272__1_contigs__length_30942	LN:30942
skipping SAM header line:	@SQ	SN:PGA_scaffold108273__1_contigs__length_30942	LN:30942
skipping SAM header line:	@SQ	SN:PGA_scaffold117375__1_contigs__length_30942	LN:30942
skipping SAM header line:	@SQ	SN:PGA_scaffold117376__1_contigs__length_30942	LN:30942
skipping SAM header line:	@SQ	SN:PGA_scaffold119737__1_contigs__length_33110	LN:33110
skipping SAM header line:	@SQ	SN:PGA_scaffold119738__1_contigs__length_33110	LN:33110
skipping SAM header line:	@SQ	SN:PGA_scaffold119739__1_contigs__length_31617	LN:31617
skipping SAM header line:	@SQ	SN:PGA_scaffold119740__1_contigs__length_31617	LN:31617
skipping SAM header line:	@SQ	SN:PGA_scaffold120239__1_contigs__length_36781	LN:36781
skipping SAM header line:	@SQ	SN:PGA_scaffold120240__1_contigs__length_36781	LN:36781
skipping SAM header line:	@SQ	SN:PGA_scaffold120241__1_contigs__length_36781	LN:36781
skipping SAM header line:	@SQ	SN:PGA_scaffold120242__1_contigs__length_36781	LN:36781
skipping SAM header line:	@SQ	SN:PGA_scaffold120243__1_contigs__length_49726	LN:49726
skipping SAM header line:	@SQ	SN:PGA_scaffold120244__1_contigs__length_49726	LN:49726
skipping SAM header line:	@SQ	SN:PGA_scaffold120245__1_contigs__length_49726	LN:49726
skipping SAM header line:	@SQ	SN:PGA_scaffold120246__1_contigs__length_49726	LN:49726
skipping SAM header line:	@SQ	SN:PGA_scaffold154514__1_contigs__length_32931	LN:32931
skipping SAM header line:	@SQ	SN:PGA_scaffold154515__1_contigs__length_33776	LN:33776
skipping SAM header line:	@SQ	SN:PGA_scaffold154516__1_contigs__length_32931	LN:32931
skipping SAM header line:	@SQ	SN:PGA_scaffold154517__1_contigs__length_33776	LN:33776
skipping SAM header line:	@SQ	SN:PGA_scaffold171090__1_contigs__length_40008	LN:40008
skipping SAM header line:	@SQ	SN:PGA_scaffold171093__1_contigs__length_36014	LN:36014
skipping SAM header line:	@SQ	SN:PGA_scaffold171096__1_contigs__length_40008	LN:40008
skipping SAM header line:	@SQ	SN:PGA_scaffold171099__1_contigs__length_36014	LN:36014
skipping SAM header line:	@SQ	SN:PGA_scaffold178416__1_contigs__length_31685	LN:31685
skipping SAM header line:	@SQ	SN:PGA_scaffold178417__1_contigs__length_31685	LN:31685
skipping SAM header line:	@SQ	SN:PGA_scaffold194554__1_contigs__length_31716	LN:31716
skipping SAM header line:	@SQ	SN:PGA_scaffold194555__1_contigs__length_30975	LN:30975
skipping SAM header line:	@SQ	SN:PGA_scaffold194556__1_contigs__length_31716	LN:31716
skipping SAM header line:	@SQ	SN:PGA_scaffold194557__1_contigs__length_30975	LN:30975
skipping SAM header line:	@SQ	SN:PGA_scaffold255542__1_contigs__length_50114	LN:50114
skipping SAM header line:	@SQ	SN:PGA_scaffold255543__1_contigs__length_50117	LN:50117
skipping SAM header line:	@SQ	SN:PGA_scaffold255904__1_contigs__length_46780	LN:46780
skipping SAM header line:	@SQ	SN:PGA_scaffold255905__1_contigs__length_46780	LN:46780
skipping SAM header line:	@SQ	SN:PGA_scaffold256026__1_contigs__length_46675	LN:46675
skipping SAM header line:	@SQ	SN:PGA_scaffold256027__1_contigs__length_46675	LN:46675
skipping SAM header line:	@SQ	SN:PGA_scaffold256724__1_contigs__length_33824	LN:33824
skipping SAM header line:	@SQ	SN:PGA_scaffold256725__1_contigs__length_34249	LN:34249
skipping SAM header line:	@SQ	SN:PGA_scaffold256956__1_contigs__length_49629	LN:49629
skipping SAM header line:	@SQ	SN:PGA_scaffold256957__1_contigs__length_49632	LN:49632
skipping SAM header line:	@SQ	SN:PGA_scaffold259441__1_contigs__length_35838	LN:35838
skipping SAM header line:	@SQ	SN:PGA_scaffold259445__1_contigs__length_35838	LN:35838
skipping SAM header line:	@SQ	SN:PGA_scaffold260227__1_contigs__length_34249	LN:34249
skipping SAM header line:	@SQ	SN:PGA_scaffold260228__1_contigs__length_33824	LN:33824
skipping SAM header line:	@SQ	SN:PGA_scaffold263124__1_contigs__length_40816	LN:40816
skipping SAM header line:	@SQ	SN:PGA_scaffold263125__1_contigs__length_40816	LN:40816
skipping SAM header line:	@SQ	SN:PGA_scaffold263614__1_contigs__length_54943	LN:54943
skipping SAM header line:	@SQ	SN:PGA_scaffold263615__1_contigs__length_54943	LN:54943
skipping SAM header line:	@SQ	SN:PGA_scaffold263616__1_contigs__length_54622	LN:54622
skipping SAM header line:	@SQ	SN:PGA_scaffold263617__1_contigs__length_54622	LN:54622
skipping SAM header line:	@SQ	SN:PGA_scaffold263622__1_contigs__length_39587	LN:39587
skipping SAM header line:	@SQ	SN:PGA_scaffold263623__1_contigs__length_39587	LN:39587
skipping SAM header line:	@SQ	SN:PGA_scaffold263624__1_contigs__length_40134	LN:40134
skipping SAM header line:	@SQ	SN:PGA_scaffold263625__1_contigs__length_40134	LN:40134
skipping SAM header line:	@SQ	SN:PGA_scaffold268914__1_contigs__length_31931	LN:31931
skipping SAM header line:	@SQ	SN:PGA_scaffold268915__1_contigs__length_31931	LN:31931
skipping SAM header line:	@SQ	SN:PGA_scaffold271760__1_contigs__length_33464	LN:33464
skipping SAM header line:	@SQ	SN:PGA_scaffold271761__1_contigs__length_33464	LN:33464
skipping SAM header line:	@SQ	SN:PGA_scaffold272940__1_contigs__length_35972	LN:35972
skipping SAM header line:	@SQ	SN:PGA_scaffold272941__1_contigs__length_35972	LN:35972
skipping SAM header line:	@SQ	SN:PGA_scaffold272956__1_contigs__length_35996	LN:35996
skipping SAM header line:	@SQ	SN:PGA_scaffold272959__1_contigs__length_35996	LN:35996
skipping SAM header line:	@SQ	SN:PGA_scaffold273988__1_contigs__length_31624	LN:31624
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skipping SAM header line:	@SQ	SN:PGA_scaffold278163__1_contigs__length_30222	LN:30222
skipping SAM header line:	@SQ	SN:PGA_scaffold278180__1_contigs__length_33717	LN:33717
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skipping SAM header line:	@SQ	SN:PGA_scaffold279345__1_contigs__length_30179	LN:30179
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skipping SAM header line:	@SQ	SN:PGA_scaffold290063__1_contigs__length_48647	LN:48647
skipping SAM header line:	@SQ	SN:PGA_scaffold290128__1_contigs__length_40039	LN:40039
skipping SAM header line:	@SQ	SN:PGA_scaffold290129__1_contigs__length_40036	LN:40036
skipping SAM header line:	@SQ	SN:PGA_scaffold290130__1_contigs__length_40039	LN:40039
skipping SAM header line:	@SQ	SN:PGA_scaffold290131__1_contigs__length_40036	LN:40036
skipping SAM header line:	@SQ	SN:PGA_scaffold290350__1_contigs__length_46122	LN:46122
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skipping SAM header line:	@SQ	SN:PGA_scaffold292612__1_contigs__length_51603	LN:51603
skipping SAM header line:	@SQ	SN:PGA_scaffold292613__1_contigs__length_51603	LN:51603
skipping SAM header line:	@SQ	SN:PGA_scaffold292818__1_contigs__length_41015	LN:41015
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skipping SAM header line:	@PG	ID:Bismark	VN:v0.19.0	CL:"bismark --path_to_bowtie /gscratch/srlab/programs/bowtie2-2.3.4.1-linux-x86_64 --samtools_path /gscratch/srlab/programs/samtools-1.9 --score_min L,0,-1.2 -I 60 -p 28 --genome /gscratch/srlab/strigg/data/Pgenr/Pgenr_070_30K/ -1 /gscratch/srlab/strigg/data/Pgenr/FASTQS/data_for_genome_comparison/EPI-111_S29_L005_R1_001_val_1.fq.gz -2 /gscratch/srlab/strigg/data/Pgenr/FASTQS/data_for_genome_comparison/EPI-111_S29_L005_R2_001_val_2.fq.gz -o /gscratch/srlab/strigg/analyses/20190214_30K"
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Merging individual splitting reports into overall report: '/gscratch/srlab/strigg/analyses/20190214_30K/EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated_splitting_report.txt'
Merging from these individual files:

Processed 12876786 lines in total
Total number of methylation call strings processed: 25753572

Final Cytosine Methylation Report
=================================
Total number of C's analysed:	291449034

Total methylated C's in CpG context:	10034961
Total methylated C's in CHG context:	1469857
Total methylated C's in CHH context:	3341240

Total C to T conversions in CpG context:	29496188
Total C to T conversions in CHG context:	58867342
Total C to T conversions in CHH context:	188239446

C methylated in CpG context:	25.4%
C methylated in CHG context:	2.4%
C methylated in CHH context:	1.7%



Merging individual M-bias reports into overall M-bias statistics from these 28 individual files:
Determining maximum read lengths for M-Bias plots
Maximum read length of Read 1: 101
Maximum read length of Read 2: 99

Perl module GD::Graph::lines is not installed, skipping drawing M-bias plots (only writing out M-bias plot table)
Determining maximum read lengths for M-Bias plots
Maximum read length of Read 1: 101
Maximum read length of Read 2: 99

Perl module GD::Graph::lines is not installed, skipping drawing M-bias plots (only writing out M-bias plot table)
Deleting unused files ...

/gscratch/srlab/strigg/analyses/20190214_30K/CpG_OT_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt contains data ->	kept
/gscratch/srlab/strigg/analyses/20190214_30K/CpG_CTOT_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt was empty ->	deleted
/gscratch/srlab/strigg/analyses/20190214_30K/CpG_CTOB_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt was empty ->	deleted
/gscratch/srlab/strigg/analyses/20190214_30K/CpG_OB_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt contains data ->	kept
/gscratch/srlab/strigg/analyses/20190214_30K/CHG_OT_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt contains data ->	kept
/gscratch/srlab/strigg/analyses/20190214_30K/CHG_CTOT_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt was empty ->	deleted
/gscratch/srlab/strigg/analyses/20190214_30K/CHG_CTOB_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt was empty ->	deleted
/gscratch/srlab/strigg/analyses/20190214_30K/CHG_OB_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt contains data ->	kept
/gscratch/srlab/strigg/analyses/20190214_30K/CHH_OT_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt contains data ->	kept
/gscratch/srlab/strigg/analyses/20190214_30K/CHH_CTOT_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt was empty ->	deleted
/gscratch/srlab/strigg/analyses/20190214_30K/CHH_CTOB_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt was empty ->	deleted
/gscratch/srlab/strigg/analyses/20190214_30K/CHH_OB_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt contains data ->	kept


Using these input files: /gscratch/srlab/strigg/analyses/20190214_30K/CpG_OT_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt /gscratch/srlab/strigg/analyses/20190214_30K/CpG_OB_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt /gscratch/srlab/strigg/analyses/20190214_30K/CHG_OT_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt /gscratch/srlab/strigg/analyses/20190214_30K/CHG_OB_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt /gscratch/srlab/strigg/analyses/20190214_30K/CHH_OT_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt /gscratch/srlab/strigg/analyses/20190214_30K/CHH_OB_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt

Summary of parameters for bismark2bedGraph conversion:
======================================================
bedGraph output:		EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bedGraph.gz
output directory:		>/gscratch/srlab/strigg/analyses/20190214_30K/<
remove whitespaces:		no
CX context:			no (CpG context only, default)
No-header selected:		no
Sorting method:			Unix sort-based (smaller memory footprint, but slower)
Sort buffer size:		2G
Coverage threshold:		1
=============================================================================
Methylation information will now be written into a bedGraph and coverage file
=============================================================================

Using the following files as Input:
Writing bedGraph to file: EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bedGraph.gz
Also writing out a coverage file including counts methylated and unmethylated residues to file: EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bismark.cov.gz

Changed directory to /gscratch/srlab/strigg/analyses/20190214_30K/
The genome of interest was specified to contain gazillions of chromosomes or scaffolds. Merging all input files and sorting everything in memory instead of writing out individual chromosome files...
Writing all merged methylation calls to temp file EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bedGraph.gz.methylation_calls.merged

Finished writing methylation calls from CpG_OT_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt to merged temp file
Finished writing methylation calls from CpG_OB_EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt to merged temp file
Sorting input file EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bedGraph.gz.methylation_calls.merged by positions (using -S of 2G)
Successfully deleted the temporary input file EPI-111_S29_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bedGraph.gz.methylation_calls.merged

Finished BedGraph conversion ...

Checking file >>/gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam<< for signs of file truncation...

...passed!
Writing result file containing methylation information for C in CpG context from the original top strand to /gscratch/srlab/strigg/analyses/20190214_30K/CpG_OT_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CpG context from the complementary to original top strand to /gscratch/srlab/strigg/analyses/20190214_30K/CpG_CTOT_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CpG context from the complementary to original bottom strand to /gscratch/srlab/strigg/analyses/20190214_30K/CpG_CTOB_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CpG context from the original bottom strand to /gscratch/srlab/strigg/analyses/20190214_30K/CpG_OB_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt

Writing result file containing methylation information for C in CHG context from the original top strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHG_OT_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CHG context from the complementary to original top strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHG_CTOT_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CHG context from the complementary to original bottom strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHG_CTOB_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CHG context from the original bottom strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHG_OB_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt

Writing result file containing methylation information for C in CHH context from the original top strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHH_OT_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CHH context from the complementary to original top strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHH_CTOT_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CHH context from the complementary to original bottom strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHH_CTOB_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CHH context from the original bottom strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHH_OB_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam
Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.
Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.
skipping SAM header line:	@HD	VN:1.0	SO:unsorted
skipping SAM header line:	@SQ	SN:PGA_scaffold1__77_contigs__length_89643857	LN:89643857
skipping SAM header line:	@SQ	SN:PGA_scaffold2__36_contigs__length_69596280	LN:69596280
skipping SAM header line:	@SQ	SN:PGA_scaffold3__111_contigs__length_57743597	LN:57743597
skipping SAM header line:	@SQ	SN:PGA_scaffold4__129_contigs__length_65288255	LN:65288255
skipping SAM header line:	@SQ	SN:PGA_scaffold5__109_contigs__length_67248332	LN:67248332
skipping SAM header line:	@SQ	SN:PGA_scaffold6__104_contigs__length_61759565	LN:61759565
skipping SAM header line:	@SQ	SN:PGA_scaffold7__69_contigs__length_43120122	LN:43120122
skipping SAM header line:	@SQ	SN:PGA_scaffold8__63_contigs__length_61151155	LN:61151155
skipping SAM header line:	@SQ	SN:PGA_scaffold9__45_contigs__length_38581958	LN:38581958
skipping SAM header line:	@SQ	SN:PGA_scaffold10__49_contigs__length_53961475	LN:53961475
skipping SAM header line:	@SQ	SN:PGA_scaffold11__79_contigs__length_51449921	LN:51449921
skipping SAM header line:	@SQ	SN:PGA_scaffold12__71_contigs__length_50438331	LN:50438331
skipping SAM header line:	@SQ	SN:PGA_scaffold13__52_contigs__length_44396874	LN:44396874
skipping SAM header line:	@SQ	SN:PGA_scaffold14__91_contigs__length_45393038	LN:45393038
skipping SAM header line:	@SQ	SN:PGA_scaffold15__101_contigs__length_47938513	LN:47938513
skipping SAM header line:	@SQ	SN:PGA_scaffold16__33_contigs__length_31980953	LN:31980953
skipping SAM header line:	@SQ	SN:PGA_scaffold17__51_contigs__length_34923512	LN:34923512
skipping SAM header line:	@SQ	SN:PGA_scaffold18__69_contigs__length_27737463	LN:27737463
skipping SAM header line:	@SQ	SN:PGA_scaffold100__1_contigs__length_37850	LN:37850
skipping SAM header line:	@SQ	SN:PGA_scaffold101__1_contigs__length_30584	LN:30584
skipping SAM header line:	@SQ	SN:PGA_scaffold102__1_contigs__length_45787	LN:45787
skipping SAM header line:	@SQ	SN:PGA_scaffold104__1_contigs__length_44353	LN:44353
skipping SAM header line:	@SQ	SN:PGA_scaffold105__1_contigs__length_50812	LN:50812
skipping SAM header line:	@SQ	SN:PGA_scaffold108__1_contigs__length_37373	LN:37373
skipping SAM header line:	@SQ	SN:PGA_scaffold109__1_contigs__length_31266	LN:31266
skipping SAM header line:	@SQ	SN:PGA_scaffold117__1_contigs__length_33965	LN:33965
skipping SAM header line:	@SQ	SN:PGA_scaffold118__1_contigs__length_78741	LN:78741
skipping SAM header line:	@SQ	SN:PGA_scaffold120__1_contigs__length_36635	LN:36635
skipping SAM header line:	@SQ	SN:PGA_scaffold122__1_contigs__length_44468	LN:44468
skipping SAM header line:	@SQ	SN:PGA_scaffold123__1_contigs__length_30311	LN:30311
skipping SAM header line:	@SQ	SN:PGA_scaffold124__1_contigs__length_35932	LN:35932
skipping SAM header line:	@SQ	SN:PGA_scaffold126__1_contigs__length_40575	LN:40575
skipping SAM header line:	@SQ	SN:PGA_scaffold130__1_contigs__length_89923	LN:89923
skipping SAM header line:	@SQ	SN:PGA_scaffold142__1_contigs__length_38690	LN:38690
skipping SAM header line:	@SQ	SN:PGA_scaffold143__1_contigs__length_40513	LN:40513
skipping SAM header line:	@SQ	SN:PGA_scaffold149__1_contigs__length_50731	LN:50731
skipping SAM header line:	@SQ	SN:PGA_scaffold156__1_contigs__length_34729	LN:34729
skipping SAM header line:	@SQ	SN:PGA_scaffold160__1_contigs__length_78292	LN:78292
skipping SAM header line:	@SQ	SN:PGA_scaffold162__1_contigs__length_44264	LN:44264
skipping SAM header line:	@SQ	SN:PGA_scaffold169__1_contigs__length_31898	LN:31898
skipping SAM header line:	@SQ	SN:PGA_scaffold170__1_contigs__length_35798	LN:35798
skipping SAM header line:	@SQ	SN:PGA_scaffold176__1_contigs__length_36388	LN:36388
skipping SAM header line:	@SQ	SN:PGA_scaffold183__1_contigs__length_41623	LN:41623
skipping SAM header line:	@SQ	SN:PGA_scaffold187__1_contigs__length_34318	LN:34318
skipping SAM header line:	@SQ	SN:PGA_scaffold192__1_contigs__length_44989	LN:44989
skipping SAM header line:	@SQ	SN:PGA_scaffold195__1_contigs__length_32961	LN:32961
skipping SAM header line:	@SQ	SN:PGA_scaffold198__1_contigs__length_42303	LN:42303
skipping SAM header line:	@SQ	SN:PGA_scaffold204__1_contigs__length_55275	LN:55275
skipping SAM header line:	@SQ	SN:PGA_scaffold208__1_contigs__length_57345	LN:57345
skipping SAM header line:	@SQ	SN:PGA_scaffold210__1_contigs__length_33808	LN:33808
skipping SAM header line:	@SQ	SN:PGA_scaffold218__1_contigs__length_46309	LN:46309
skipping SAM header line:	@SQ	SN:PGA_scaffold219__1_contigs__length_36659	LN:36659
skipping SAM header line:	@SQ	SN:PGA_scaffold222__1_contigs__length_32402	LN:32402
skipping SAM header line:	@SQ	SN:PGA_scaffold224__1_contigs__length_62707	LN:62707
skipping SAM header line:	@SQ	SN:PGA_scaffold227__1_contigs__length_76686	LN:76686
skipping SAM header line:	@SQ	SN:PGA_scaffold232__1_contigs__length_52758	LN:52758
skipping SAM header line:	@SQ	SN:PGA_scaffold233__1_contigs__length_37710	LN:37710
skipping SAM header line:	@SQ	SN:PGA_scaffold241__1_contigs__length_58227	LN:58227
skipping SAM header line:	@SQ	SN:PGA_scaffold248__1_contigs__length_42538	LN:42538
skipping SAM header line:	@SQ	SN:PGA_scaffold250__1_contigs__length_58865	LN:58865
skipping SAM header line:	@SQ	SN:PGA_scaffold252__1_contigs__length_58739	LN:58739
skipping SAM header line:	@SQ	SN:PGA_scaffold258__1_contigs__length_1101056	LN:1101056
skipping SAM header line:	@SQ	SN:PGA_scaffold263__1_contigs__length_39634	LN:39634
skipping SAM header line:	@SQ	SN:PGA_scaffold266__1_contigs__length_45904	LN:45904
skipping SAM header line:	@SQ	SN:PGA_scaffold271__1_contigs__length_30650	LN:30650
skipping SAM header line:	@SQ	SN:PGA_scaffold278__1_contigs__length_30505	LN:30505
skipping SAM header line:	@SQ	SN:PGA_scaffold298__1_contigs__length_47389	LN:47389
skipping SAM header line:	@SQ	SN:PGA_scaffold302__1_contigs__length_34996	LN:34996
skipping SAM header line:	@SQ	SN:PGA_scaffold312__1_contigs__length_71876	LN:71876
skipping SAM header line:	@SQ	SN:PGA_scaffold314__1_contigs__length_44723	LN:44723
skipping SAM header line:	@SQ	SN:PGA_scaffold323__1_contigs__length_1799026	LN:1799026
skipping SAM header line:	@SQ	SN:PGA_scaffold331__1_contigs__length_34410	LN:34410
skipping SAM header line:	@SQ	SN:PGA_scaffold335__1_contigs__length_41679	LN:41679
skipping SAM header line:	@SQ	SN:PGA_scaffold358__1_contigs__length_61761	LN:61761
skipping SAM header line:	@SQ	SN:PGA_scaffold362__1_contigs__length_32622	LN:32622
skipping SAM header line:	@SQ	SN:PGA_scaffold365__1_contigs__length_48417	LN:48417
skipping SAM header line:	@SQ	SN:PGA_scaffold366__1_contigs__length_31395	LN:31395
skipping SAM header line:	@SQ	SN:PGA_scaffold373__1_contigs__length_38341	LN:38341
skipping SAM header line:	@SQ	SN:PGA_scaffold390__1_contigs__length_33430	LN:33430
skipping SAM header line:	@SQ	SN:PGA_scaffold391__1_contigs__length_51723	LN:51723
skipping SAM header line:	@SQ	SN:PGA_scaffold396__1_contigs__length_39796	LN:39796
skipping SAM header line:	@SQ	SN:PGA_scaffold401__1_contigs__length_32839	LN:32839
skipping SAM header line:	@SQ	SN:PGA_scaffold407__1_contigs__length_92797	LN:92797
skipping SAM header line:	@SQ	SN:PGA_scaffold410__1_contigs__length_34202	LN:34202
skipping SAM header line:	@SQ	SN:PGA_scaffold413__1_contigs__length_35409	LN:35409
skipping SAM header line:	@SQ	SN:PGA_scaffold414__1_contigs__length_32258	LN:32258
skipping SAM header line:	@SQ	SN:PGA_scaffold416__1_contigs__length_69472	LN:69472
skipping SAM header line:	@SQ	SN:PGA_scaffold419__1_contigs__length_39080	LN:39080
skipping SAM header line:	@SQ	SN:PGA_scaffold420__1_contigs__length_38263	LN:38263
skipping SAM header line:	@SQ	SN:PGA_scaffold421__1_contigs__length_46195	LN:46195
skipping SAM header line:	@SQ	SN:PGA_scaffold427__1_contigs__length_35190	LN:35190
skipping SAM header line:	@SQ	SN:PGA_scaffold430__1_contigs__length_75279	LN:75279
skipping SAM header line:	@SQ	SN:PGA_scaffold434__1_contigs__length_41015	LN:41015
skipping SAM header line:	@SQ	SN:PGA_scaffold436__1_contigs__length_43688	LN:43688
skipping SAM header line:	@SQ	SN:PGA_scaffold443__1_contigs__length_72424	LN:72424
skipping SAM header line:	@SQ	SN:PGA_scaffold447__1_contigs__length_52487	LN:52487
skipping SAM header line:	@SQ	SN:PGA_scaffold448__1_contigs__length_63737	LN:63737
skipping SAM header line:	@SQ	SN:PGA_scaffold449__1_contigs__length_39915	LN:39915
skipping SAM header line:	@SQ	SN:PGA_scaffold451__1_contigs__length_35032	LN:35032
skipping SAM header line:	@SQ	SN:PGA_scaffold456__1_contigs__length_65608	LN:65608
skipping SAM header line:	@SQ	SN:PGA_scaffold460__1_contigs__length_33778	LN:33778
skipping SAM header line:	@SQ	SN:PGA_scaffold462__1_contigs__length_40118	LN:40118
skipping SAM header line:	@SQ	SN:PGA_scaffold464__1_contigs__length_37366	LN:37366
skipping SAM header line:	@SQ	SN:PGA_scaffold466__1_contigs__length_54285	LN:54285
skipping SAM header line:	@SQ	SN:PGA_scaffold474__1_contigs__length_53531	LN:53531
skipping SAM header line:	@SQ	SN:PGA_scaffold477__1_contigs__length_34283	LN:34283
skipping SAM header line:	@SQ	SN:PGA_scaffold490__1_contigs__length_38803	LN:38803
skipping SAM header line:	@SQ	SN:PGA_scaffold492__1_contigs__length_55775	LN:55775
skipping SAM header line:	@SQ	SN:PGA_scaffold497__1_contigs__length_30850	LN:30850
skipping SAM header line:	@SQ	SN:PGA_scaffold499__1_contigs__length_33044	LN:33044
skipping SAM header line:	@SQ	SN:PGA_scaffold500__1_contigs__length_54033	LN:54033
skipping SAM header line:	@SQ	SN:PGA_scaffold505__1_contigs__length_53330	LN:53330
skipping SAM header line:	@SQ	SN:PGA_scaffold508__1_contigs__length_47880	LN:47880
skipping SAM header line:	@SQ	SN:PGA_scaffold510__1_contigs__length_35714	LN:35714
skipping SAM header line:	@SQ	SN:PGA_scaffold512__1_contigs__length_43118	LN:43118
skipping SAM header line:	@SQ	SN:PGA_scaffold513__1_contigs__length_104957	LN:104957
skipping SAM header line:	@SQ	SN:PGA_scaffold536__1_contigs__length_43921	LN:43921
skipping SAM header line:	@SQ	SN:PGA_scaffold537__1_contigs__length_41859	LN:41859
skipping SAM header line:	@SQ	SN:PGA_scaffold540__1_contigs__length_36898	LN:36898
skipping SAM header line:	@SQ	SN:PGA_scaffold575__1_contigs__length_36508	LN:36508
skipping SAM header line:	@SQ	SN:PGA_scaffold589__1_contigs__length_33182	LN:33182
skipping SAM header line:	@SQ	SN:PGA_scaffold594__1_contigs__length_105065	LN:105065
skipping SAM header line:	@SQ	SN:PGA_scaffold598__1_contigs__length_41658	LN:41658
skipping SAM header line:	@SQ	SN:PGA_scaffold599__1_contigs__length_32117	LN:32117
skipping SAM header line:	@SQ	SN:PGA_scaffold615__1_contigs__length_31178	LN:31178
skipping SAM header line:	@SQ	SN:PGA_scaffold628__1_contigs__length_30879	LN:30879
skipping SAM header line:	@SQ	SN:PGA_scaffold642__1_contigs__length_34464	LN:34464
skipping SAM header line:	@SQ	SN:PGA_scaffold710__1_contigs__length_48694	LN:48694
skipping SAM header line:	@SQ	SN:PGA_scaffold718__1_contigs__length_989392	LN:989392
skipping SAM header line:	@SQ	SN:PGA_scaffold810__1_contigs__length_34885	LN:34885
skipping SAM header line:	@SQ	SN:PGA_scaffold822__1_contigs__length_46947	LN:46947
skipping SAM header line:	@SQ	SN:PGA_scaffold866__1_contigs__length_31993	LN:31993
skipping SAM header line:	@SQ	SN:PGA_scaffold13207__1_contigs__length_30412	LN:30412
skipping SAM header line:	@SQ	SN:PGA_scaffold20466__1_contigs__length_31058	LN:31058
skipping SAM header line:	@SQ	SN:PGA_scaffold20487__1_contigs__length_31060	LN:31060
skipping SAM header line:	@SQ	SN:PGA_scaffold20490__1_contigs__length_34645	LN:34645
skipping SAM header line:	@SQ	SN:PGA_scaffold20505__1_contigs__length_43966	LN:43966
skipping SAM header line:	@SQ	SN:PGA_scaffold23274__1_contigs__length_30357	LN:30357
skipping SAM header line:	@SQ	SN:PGA_scaffold23393__1_contigs__length_41334	LN:41334
skipping SAM header line:	@SQ	SN:PGA_scaffold23498__1_contigs__length_34289	LN:34289
skipping SAM header line:	@SQ	SN:PGA_scaffold23717__1_contigs__length_32333	LN:32333
skipping SAM header line:	@SQ	SN:PGA_scaffold23925__1_contigs__length_34739	LN:34739
skipping SAM header line:	@SQ	SN:PGA_scaffold23979__1_contigs__length_33231	LN:33231
skipping SAM header line:	@SQ	SN:PGA_scaffold24419__1_contigs__length_30110	LN:30110
skipping SAM header line:	@SQ	SN:PGA_scaffold26405__1_contigs__length_34931	LN:34931
skipping SAM header line:	@SQ	SN:PGA_scaffold27028__1_contigs__length_34525	LN:34525
skipping SAM header line:	@SQ	SN:PGA_scaffold29133__1_contigs__length_46329	LN:46329
skipping SAM header line:	@SQ	SN:PGA_scaffold29275__1_contigs__length_41210	LN:41210
skipping SAM header line:	@SQ	SN:PGA_scaffold30719__1_contigs__length_39357	LN:39357
skipping SAM header line:	@SQ	SN:PGA_scaffold31234__1_contigs__length_38472	LN:38472
skipping SAM header line:	@SQ	SN:PGA_scaffold31642__1_contigs__length_33616	LN:33616
skipping SAM header line:	@SQ	SN:PGA_scaffold31747__1_contigs__length_34728	LN:34728
skipping SAM header line:	@SQ	SN:PGA_scaffold31751__1_contigs__length_33342	LN:33342
skipping SAM header line:	@SQ	SN:PGA_scaffold32046__1_contigs__length_31565	LN:31565
skipping SAM header line:	@SQ	SN:PGA_scaffold32514__1_contigs__length_31990	LN:31990
skipping SAM header line:	@SQ	SN:PGA_scaffold35022__1_contigs__length_52621	LN:52621
skipping SAM header line:	@SQ	SN:PGA_scaffold36484__1_contigs__length_32484	LN:32484
skipping SAM header line:	@SQ	SN:PGA_scaffold36907__1_contigs__length_32852	LN:32852
skipping SAM header line:	@SQ	SN:PGA_scaffold37613__1_contigs__length_33568	LN:33568
skipping SAM header line:	@SQ	SN:PGA_scaffold37640__1_contigs__length_36417	LN:36417
skipping SAM header line:	@SQ	SN:PGA_scaffold38417__1_contigs__length_39025	LN:39025
skipping SAM header line:	@SQ	SN:PGA_scaffold38421__1_contigs__length_31964	LN:31964
skipping SAM header line:	@SQ	SN:PGA_scaffold38637__1_contigs__length_46051	LN:46051
skipping SAM header line:	@SQ	SN:PGA_scaffold38663__1_contigs__length_38625	LN:38625
skipping SAM header line:	@SQ	SN:PGA_scaffold39043__1_contigs__length_49862	LN:49862
skipping SAM header line:	@SQ	SN:PGA_scaffold39349__1_contigs__length_30049	LN:30049
skipping SAM header line:	@SQ	SN:PGA_scaffold39386__1_contigs__length_46727	LN:46727
skipping SAM header line:	@SQ	SN:PGA_scaffold40903__1_contigs__length_36654	LN:36654
skipping SAM header line:	@SQ	SN:PGA_scaffold40909__1_contigs__length_44981	LN:44981
skipping SAM header line:	@SQ	SN:PGA_scaffold40911__1_contigs__length_35761	LN:35761
skipping SAM header line:	@SQ	SN:PGA_scaffold41096__1_contigs__length_40847	LN:40847
skipping SAM header line:	@SQ	SN:PGA_scaffold41270__1_contigs__length_55807	LN:55807
skipping SAM header line:	@SQ	SN:PGA_scaffold41708__1_contigs__length_34929	LN:34929
skipping SAM header line:	@SQ	SN:PGA_scaffold41937__1_contigs__length_32645	LN:32645
skipping SAM header line:	@SQ	SN:PGA_scaffold42052__1_contigs__length_36385	LN:36385
skipping SAM header line:	@SQ	SN:PGA_scaffold42329__1_contigs__length_34583	LN:34583
skipping SAM header line:	@SQ	SN:PGA_scaffold42779__1_contigs__length_35983	LN:35983
skipping SAM header line:	@SQ	SN:PGA_scaffold42780__1_contigs__length_33043	LN:33043
skipping SAM header line:	@SQ	SN:PGA_scaffold43063__1_contigs__length_32087	LN:32087
skipping SAM header line:	@SQ	SN:PGA_scaffold43224__1_contigs__length_38120	LN:38120
skipping SAM header line:	@SQ	SN:PGA_scaffold43893__1_contigs__length_39100	LN:39100
skipping SAM header line:	@SQ	SN:PGA_scaffold43927__1_contigs__length_31151	LN:31151
skipping SAM header line:	@SQ	SN:PGA_scaffold43938__1_contigs__length_34922	LN:34922
skipping SAM header line:	@SQ	SN:PGA_scaffold43940__1_contigs__length_31112	LN:31112
skipping SAM header line:	@SQ	SN:PGA_scaffold43956__1_contigs__length_34824	LN:34824
skipping SAM header line:	@SQ	SN:PGA_scaffold43997__1_contigs__length_84241	LN:84241
skipping SAM header line:	@SQ	SN:PGA_scaffold44004__1_contigs__length_56426	LN:56426
skipping SAM header line:	@SQ	SN:PGA_scaffold44021__1_contigs__length_51740	LN:51740
skipping SAM header line:	@SQ	SN:PGA_scaffold44022__1_contigs__length_41140	LN:41140
skipping SAM header line:	@SQ	SN:PGA_scaffold44073__1_contigs__length_36469	LN:36469
skipping SAM header line:	@SQ	SN:PGA_scaffold44113__1_contigs__length_30304	LN:30304
skipping SAM header line:	@SQ	SN:PGA_scaffold44287__1_contigs__length_54447	LN:54447
skipping SAM header line:	@SQ	SN:PGA_scaffold44969__1_contigs__length_31983	LN:31983
skipping SAM header line:	@SQ	SN:PGA_scaffold45030__1_contigs__length_42687	LN:42687
skipping SAM header line:	@SQ	SN:PGA_scaffold45039__1_contigs__length_54558	LN:54558
skipping SAM header line:	@SQ	SN:PGA_scaffold45044__1_contigs__length_42665	LN:42665
skipping SAM header line:	@SQ	SN:PGA_scaffold45169__1_contigs__length_30495	LN:30495
skipping SAM header line:	@SQ	SN:PGA_scaffold45599__1_contigs__length_33507	LN:33507
skipping SAM header line:	@SQ	SN:PGA_scaffold45621__1_contigs__length_37806	LN:37806
skipping SAM header line:	@SQ	SN:PGA_scaffold45713__1_contigs__length_33502	LN:33502
skipping SAM header line:	@SQ	SN:PGA_scaffold45732__1_contigs__length_31304	LN:31304
skipping SAM header line:	@SQ	SN:PGA_scaffold45838__1_contigs__length_39783	LN:39783
skipping SAM header line:	@SQ	SN:PGA_scaffold46006__1_contigs__length_30342	LN:30342
skipping SAM header line:	@SQ	SN:PGA_scaffold46016__1_contigs__length_47336	LN:47336
skipping SAM header line:	@SQ	SN:PGA_scaffold46017__1_contigs__length_32344	LN:32344
skipping SAM header line:	@SQ	SN:PGA_scaffold46021__1_contigs__length_31410	LN:31410
skipping SAM header line:	@SQ	SN:PGA_scaffold46073__1_contigs__length_36458	LN:36458
skipping SAM header line:	@SQ	SN:PGA_scaffold46077__1_contigs__length_35474	LN:35474
skipping SAM header line:	@SQ	SN:PGA_scaffold46091__1_contigs__length_30400	LN:30400
skipping SAM header line:	@SQ	SN:PGA_scaffold46108__1_contigs__length_30532	LN:30532
skipping SAM header line:	@SQ	SN:PGA_scaffold46139__1_contigs__length_39029	LN:39029
skipping SAM header line:	@SQ	SN:PGA_scaffold46144__1_contigs__length_30043	LN:30043
skipping SAM header line:	@SQ	SN:PGA_scaffold46228__1_contigs__length_30260	LN:30260
skipping SAM header line:	@SQ	SN:PGA_scaffold46916__1_contigs__length_36995	LN:36995
skipping SAM header line:	@SQ	SN:PGA_scaffold46924__1_contigs__length_41954	LN:41954
skipping SAM header line:	@SQ	SN:PGA_scaffold48118__1_contigs__length_30764	LN:30764
skipping SAM header line:	@SQ	SN:PGA_scaffold48491__1_contigs__length_44805	LN:44805
skipping SAM header line:	@SQ	SN:PGA_scaffold48498__1_contigs__length_32874	LN:32874
skipping SAM header line:	@SQ	SN:PGA_scaffold48627__1_contigs__length_30570	LN:30570
skipping SAM header line:	@SQ	SN:PGA_scaffold48700__1_contigs__length_41489	LN:41489
skipping SAM header line:	@SQ	SN:PGA_scaffold48890__1_contigs__length_36820	LN:36820
skipping SAM header line:	@SQ	SN:PGA_scaffold49049__1_contigs__length_44862	LN:44862
skipping SAM header line:	@SQ	SN:PGA_scaffold49052__1_contigs__length_30066	LN:30066
skipping SAM header line:	@SQ	SN:PGA_scaffold49140__1_contigs__length_41465	LN:41465
skipping SAM header line:	@SQ	SN:PGA_scaffold49269__1_contigs__length_58629	LN:58629
skipping SAM header line:	@SQ	SN:PGA_scaffold49272__1_contigs__length_48462	LN:48462
skipping SAM header line:	@SQ	SN:PGA_scaffold49286__1_contigs__length_32480	LN:32480
skipping SAM header line:	@SQ	SN:PGA_scaffold49327__1_contigs__length_31386	LN:31386
skipping SAM header line:	@SQ	SN:PGA_scaffold49337__1_contigs__length_44952	LN:44952
skipping SAM header line:	@SQ	SN:PGA_scaffold49402__1_contigs__length_32985	LN:32985
skipping SAM header line:	@SQ	SN:PGA_scaffold49433__1_contigs__length_36204	LN:36204
skipping SAM header line:	@SQ	SN:PGA_scaffold49448__1_contigs__length_40249	LN:40249
skipping SAM header line:	@SQ	SN:PGA_scaffold49600__1_contigs__length_30811	LN:30811
skipping SAM header line:	@SQ	SN:PGA_scaffold49609__1_contigs__length_30653	LN:30653
skipping SAM header line:	@SQ	SN:PGA_scaffold49622__1_contigs__length_34505	LN:34505
skipping SAM header line:	@SQ	SN:PGA_scaffold50268__1_contigs__length_48869	LN:48869
skipping SAM header line:	@SQ	SN:PGA_scaffold50335__1_contigs__length_43040	LN:43040
skipping SAM header line:	@SQ	SN:PGA_scaffold50414__1_contigs__length_43015	LN:43015
skipping SAM header line:	@SQ	SN:PGA_scaffold50424__1_contigs__length_37325	LN:37325
skipping SAM header line:	@SQ	SN:PGA_scaffold50725__1_contigs__length_39725	LN:39725
skipping SAM header line:	@SQ	SN:PGA_scaffold51021__1_contigs__length_35521	LN:35521
skipping SAM header line:	@SQ	SN:PGA_scaffold51544__1_contigs__length_32260	LN:32260
skipping SAM header line:	@SQ	SN:PGA_scaffold51684__1_contigs__length_32586	LN:32586
skipping SAM header line:	@SQ	SN:PGA_scaffold51827__1_contigs__length_44668	LN:44668
skipping SAM header line:	@SQ	SN:PGA_scaffold51925__1_contigs__length_33625	LN:33625
skipping SAM header line:	@SQ	SN:PGA_scaffold52047__1_contigs__length_52540	LN:52540
skipping SAM header line:	@SQ	SN:PGA_scaffold52050__1_contigs__length_46830	LN:46830
skipping SAM header line:	@SQ	SN:PGA_scaffold52113__1_contigs__length_31958	LN:31958
skipping SAM header line:	@SQ	SN:PGA_scaffold52128__1_contigs__length_39877	LN:39877
skipping SAM header line:	@SQ	SN:PGA_scaffold52199__1_contigs__length_32611	LN:32611
skipping SAM header line:	@SQ	SN:PGA_scaffold52211__1_contigs__length_36968	LN:36968
skipping SAM header line:	@SQ	SN:PGA_scaffold52215__1_contigs__length_42996	LN:42996
skipping SAM header line:	@SQ	SN:PGA_scaffold52222__1_contigs__length_39311	LN:39311
skipping SAM header line:	@SQ	SN:PGA_scaffold52266__1_contigs__length_35673	LN:35673
skipping SAM header line:	@SQ	SN:PGA_scaffold52328__1_contigs__length_39984	LN:39984
skipping SAM header line:	@SQ	SN:PGA_scaffold52349__1_contigs__length_37106	LN:37106
skipping SAM header line:	@SQ	SN:PGA_scaffold52350__1_contigs__length_45781	LN:45781
skipping SAM header line:	@SQ	SN:PGA_scaffold52359__1_contigs__length_33365	LN:33365
skipping SAM header line:	@SQ	SN:PGA_scaffold52387__1_contigs__length_40531	LN:40531
skipping SAM header line:	@SQ	SN:PGA_scaffold52390__1_contigs__length_35773	LN:35773
skipping SAM header line:	@SQ	SN:PGA_scaffold52392__1_contigs__length_46240	LN:46240
skipping SAM header line:	@SQ	SN:PGA_scaffold52393__1_contigs__length_36780	LN:36780
skipping SAM header line:	@SQ	SN:PGA_scaffold52394__1_contigs__length_53108	LN:53108
skipping SAM header line:	@SQ	SN:PGA_scaffold52396__1_contigs__length_36505	LN:36505
skipping SAM header line:	@SQ	SN:PGA_scaffold52869__1_contigs__length_35263	LN:35263
skipping SAM header line:	@SQ	SN:PGA_scaffold52872__1_contigs__length_34839	LN:34839
skipping SAM header line:	@SQ	SN:PGA_scaffold52892__1_contigs__length_39173	LN:39173
skipping SAM header line:	@SQ	SN:PGA_scaffold52893__1_contigs__length_36559	LN:36559
skipping SAM header line:	@SQ	SN:PGA_scaffold52914__1_contigs__length_54588	LN:54588
skipping SAM header line:	@SQ	SN:PGA_scaffold52916__1_contigs__length_30509	LN:30509
skipping SAM header line:	@SQ	SN:PGA_scaffold52973__1_contigs__length_33821	LN:33821
skipping SAM header line:	@SQ	SN:PGA_scaffold52979__1_contigs__length_30521	LN:30521
skipping SAM header line:	@SQ	SN:PGA_scaffold53021__1_contigs__length_37828	LN:37828
skipping SAM header line:	@SQ	SN:PGA_scaffold53196__1_contigs__length_30707	LN:30707
skipping SAM header line:	@SQ	SN:PGA_scaffold53343__1_contigs__length_31364	LN:31364
skipping SAM header line:	@SQ	SN:PGA_scaffold53591__1_contigs__length_57201	LN:57201
skipping SAM header line:	@SQ	SN:PGA_scaffold53633__1_contigs__length_37396	LN:37396
skipping SAM header line:	@SQ	SN:PGA_scaffold53639__1_contigs__length_33404	LN:33404
skipping SAM header line:	@SQ	SN:PGA_scaffold53645__1_contigs__length_35399	LN:35399
skipping SAM header line:	@SQ	SN:PGA_scaffold53657__1_contigs__length_30921	LN:30921
skipping SAM header line:	@SQ	SN:PGA_scaffold53658__1_contigs__length_36208	LN:36208
skipping SAM header line:	@SQ	SN:PGA_scaffold53686__1_contigs__length_33430	LN:33430
skipping SAM header line:	@SQ	SN:PGA_scaffold53691__1_contigs__length_40282	LN:40282
skipping SAM header line:	@SQ	SN:PGA_scaffold53698__1_contigs__length_43785	LN:43785
skipping SAM header line:	@SQ	SN:PGA_scaffold53725__1_contigs__length_34176	LN:34176
skipping SAM header line:	@SQ	SN:PGA_scaffold53751__1_contigs__length_33279	LN:33279
skipping SAM header line:	@SQ	SN:PGA_scaffold53762__1_contigs__length_30332	LN:30332
skipping SAM header line:	@SQ	SN:PGA_scaffold53770__1_contigs__length_45803	LN:45803
skipping SAM header line:	@SQ	SN:PGA_scaffold53989__1_contigs__length_55742	LN:55742
skipping SAM header line:	@SQ	SN:PGA_scaffold53990__1_contigs__length_50335	LN:50335
skipping SAM header line:	@SQ	SN:PGA_scaffold53991__1_contigs__length_51016	LN:51016
skipping SAM header line:	@SQ	SN:PGA_scaffold53992__1_contigs__length_30819	LN:30819
skipping SAM header line:	@SQ	SN:PGA_scaffold53994__1_contigs__length_45288	LN:45288
skipping SAM header line:	@SQ	SN:PGA_scaffold53995__1_contigs__length_36326	LN:36326
skipping SAM header line:	@SQ	SN:PGA_scaffold54015__1_contigs__length_30408	LN:30408
skipping SAM header line:	@SQ	SN:PGA_scaffold54205__1_contigs__length_38797	LN:38797
skipping SAM header line:	@SQ	SN:PGA_scaffold54342__1_contigs__length_60814	LN:60814
skipping SAM header line:	@SQ	SN:PGA_scaffold54901__1_contigs__length_37309	LN:37309
skipping SAM header line:	@SQ	SN:PGA_scaffold54965__1_contigs__length_38374	LN:38374
skipping SAM header line:	@SQ	SN:PGA_scaffold54999__1_contigs__length_31291	LN:31291
skipping SAM header line:	@SQ	SN:PGA_scaffold55037__1_contigs__length_32580	LN:32580
skipping SAM header line:	@SQ	SN:PGA_scaffold55083__1_contigs__length_45318	LN:45318
skipping SAM header line:	@SQ	SN:PGA_scaffold55088__1_contigs__length_30665	LN:30665
skipping SAM header line:	@SQ	SN:PGA_scaffold55135__1_contigs__length_48442	LN:48442
skipping SAM header line:	@SQ	SN:PGA_scaffold55199__1_contigs__length_37150	LN:37150
skipping SAM header line:	@SQ	SN:PGA_scaffold55265__1_contigs__length_43075	LN:43075
skipping SAM header line:	@SQ	SN:PGA_scaffold55278__1_contigs__length_54668	LN:54668
skipping SAM header line:	@SQ	SN:PGA_scaffold55296__1_contigs__length_51595	LN:51595
skipping SAM header line:	@SQ	SN:PGA_scaffold55314__1_contigs__length_35295	LN:35295
skipping SAM header line:	@SQ	SN:PGA_scaffold55345__1_contigs__length_69732	LN:69732
skipping SAM header line:	@SQ	SN:PGA_scaffold55359__1_contigs__length_33158	LN:33158
skipping SAM header line:	@SQ	SN:PGA_scaffold55375__1_contigs__length_51625	LN:51625
skipping SAM header line:	@SQ	SN:PGA_scaffold55378__1_contigs__length_34882	LN:34882
skipping SAM header line:	@SQ	SN:PGA_scaffold55381__1_contigs__length_30600	LN:30600
skipping SAM header line:	@SQ	SN:PGA_scaffold55711__1_contigs__length_39787	LN:39787
skipping SAM header line:	@SQ	SN:PGA_scaffold55714__1_contigs__length_36372	LN:36372
skipping SAM header line:	@SQ	SN:PGA_scaffold55745__1_contigs__length_39718	LN:39718
skipping SAM header line:	@SQ	SN:PGA_scaffold55747__1_contigs__length_42692	LN:42692
skipping SAM header line:	@SQ	SN:PGA_scaffold55855__1_contigs__length_34489	LN:34489
skipping SAM header line:	@SQ	SN:PGA_scaffold55860__1_contigs__length_50662	LN:50662
skipping SAM header line:	@SQ	SN:PGA_scaffold55979__1_contigs__length_33616	LN:33616
skipping SAM header line:	@SQ	SN:PGA_scaffold56091__1_contigs__length_39544	LN:39544
skipping SAM header line:	@SQ	SN:PGA_scaffold56365__1_contigs__length_56315	LN:56315
skipping SAM header line:	@SQ	SN:PGA_scaffold56375__1_contigs__length_33113	LN:33113
skipping SAM header line:	@SQ	SN:PGA_scaffold56620__1_contigs__length_30848	LN:30848
skipping SAM header line:	@SQ	SN:PGA_scaffold56625__1_contigs__length_66358	LN:66358
skipping SAM header line:	@SQ	SN:PGA_scaffold56635__1_contigs__length_34227	LN:34227
skipping SAM header line:	@SQ	SN:PGA_scaffold56650__1_contigs__length_33575	LN:33575
skipping SAM header line:	@SQ	SN:PGA_scaffold56652__1_contigs__length_44611	LN:44611
skipping SAM header line:	@SQ	SN:PGA_scaffold56671__1_contigs__length_32469	LN:32469
skipping SAM header line:	@SQ	SN:PGA_scaffold56691__1_contigs__length_31095	LN:31095
skipping SAM header line:	@SQ	SN:PGA_scaffold56720__1_contigs__length_40419	LN:40419
skipping SAM header line:	@SQ	SN:PGA_scaffold56722__1_contigs__length_46018	LN:46018
skipping SAM header line:	@SQ	SN:PGA_scaffold56916__1_contigs__length_32078	LN:32078
skipping SAM header line:	@SQ	SN:PGA_scaffold56946__1_contigs__length_36592	LN:36592
skipping SAM header line:	@SQ	SN:PGA_scaffold57070__1_contigs__length_35859	LN:35859
skipping SAM header line:	@SQ	SN:PGA_scaffold57215__1_contigs__length_43048	LN:43048
skipping SAM header line:	@SQ	SN:PGA_scaffold57298__1_contigs__length_31957	LN:31957
skipping SAM header line:	@SQ	SN:PGA_scaffold57301__1_contigs__length_34452	LN:34452
skipping SAM header line:	@SQ	SN:PGA_scaffold57398__1_contigs__length_30770	LN:30770
skipping SAM header line:	@SQ	SN:PGA_scaffold57419__1_contigs__length_56657	LN:56657
skipping SAM header line:	@SQ	SN:PGA_scaffold57435__1_contigs__length_39348	LN:39348
skipping SAM header line:	@SQ	SN:PGA_scaffold57479__1_contigs__length_34907	LN:34907
skipping SAM header line:	@SQ	SN:PGA_scaffold57490__1_contigs__length_31663	LN:31663
skipping SAM header line:	@SQ	SN:PGA_scaffold57492__1_contigs__length_41689	LN:41689
skipping SAM header line:	@SQ	SN:PGA_scaffold57510__1_contigs__length_39178	LN:39178
skipping SAM header line:	@SQ	SN:PGA_scaffold57520__1_contigs__length_56780	LN:56780
skipping SAM header line:	@SQ	SN:PGA_scaffold57524__1_contigs__length_36257	LN:36257
skipping SAM header line:	@SQ	SN:PGA_scaffold57529__1_contigs__length_33001	LN:33001
skipping SAM header line:	@SQ	SN:PGA_scaffold57546__1_contigs__length_35410	LN:35410
skipping SAM header line:	@SQ	SN:PGA_scaffold57558__1_contigs__length_35635	LN:35635
skipping SAM header line:	@SQ	SN:PGA_scaffold57561__1_contigs__length_35319	LN:35319
skipping SAM header line:	@SQ	SN:PGA_scaffold57706__1_contigs__length_40854	LN:40854
skipping SAM header line:	@SQ	SN:PGA_scaffold57710__1_contigs__length_31661	LN:31661
skipping SAM header line:	@SQ	SN:PGA_scaffold57711__1_contigs__length_39713	LN:39713
skipping SAM header line:	@SQ	SN:PGA_scaffold57717__1_contigs__length_50311	LN:50311
skipping SAM header line:	@SQ	SN:PGA_scaffold57865__1_contigs__length_37453	LN:37453
skipping SAM header line:	@SQ	SN:PGA_scaffold57884__1_contigs__length_38303	LN:38303
skipping SAM header line:	@SQ	SN:PGA_scaffold57901__1_contigs__length_33405	LN:33405
skipping SAM header line:	@SQ	SN:PGA_scaffold58076__1_contigs__length_32943	LN:32943
skipping SAM header line:	@SQ	SN:PGA_scaffold58238__1_contigs__length_68373	LN:68373
skipping SAM header line:	@SQ	SN:PGA_scaffold58264__1_contigs__length_33661	LN:33661
skipping SAM header line:	@SQ	SN:PGA_scaffold58284__1_contigs__length_33826	LN:33826
skipping SAM header line:	@SQ	SN:PGA_scaffold58361__1_contigs__length_52751	LN:52751
skipping SAM header line:	@SQ	SN:PGA_scaffold58366__1_contigs__length_37326	LN:37326
skipping SAM header line:	@SQ	SN:PGA_scaffold58382__1_contigs__length_41713	LN:41713
skipping SAM header line:	@SQ	SN:PGA_scaffold58383__1_contigs__length_44366	LN:44366
skipping SAM header line:	@SQ	SN:PGA_scaffold58388__1_contigs__length_32850	LN:32850
skipping SAM header line:	@SQ	SN:PGA_scaffold58393__1_contigs__length_33434	LN:33434
skipping SAM header line:	@SQ	SN:PGA_scaffold58403__1_contigs__length_40472	LN:40472
skipping SAM header line:	@SQ	SN:PGA_scaffold58406__1_contigs__length_39981	LN:39981
skipping SAM header line:	@SQ	SN:PGA_scaffold58408__1_contigs__length_51130	LN:51130
skipping SAM header line:	@SQ	SN:PGA_scaffold58414__1_contigs__length_31140	LN:31140
skipping SAM header line:	@SQ	SN:PGA_scaffold58423__1_contigs__length_47054	LN:47054
skipping SAM header line:	@SQ	SN:PGA_scaffold58431__1_contigs__length_30555	LN:30555
skipping SAM header line:	@SQ	SN:PGA_scaffold58439__1_contigs__length_35544	LN:35544
skipping SAM header line:	@SQ	SN:PGA_scaffold58443__1_contigs__length_34264	LN:34264
skipping SAM header line:	@SQ	SN:PGA_scaffold58450__1_contigs__length_35181	LN:35181
skipping SAM header line:	@SQ	SN:PGA_scaffold58637__1_contigs__length_30774	LN:30774
skipping SAM header line:	@SQ	SN:PGA_scaffold58638__1_contigs__length_36895	LN:36895
skipping SAM header line:	@SQ	SN:PGA_scaffold58640__1_contigs__length_35005	LN:35005
skipping SAM header line:	@SQ	SN:PGA_scaffold58676__1_contigs__length_42740	LN:42740
skipping SAM header line:	@SQ	SN:PGA_scaffold58700__1_contigs__length_38161	LN:38161
skipping SAM header line:	@SQ	SN:PGA_scaffold58712__1_contigs__length_43972	LN:43972
skipping SAM header line:	@SQ	SN:PGA_scaffold58749__1_contigs__length_42553	LN:42553
skipping SAM header line:	@SQ	SN:PGA_scaffold58976__1_contigs__length_32077	LN:32077
skipping SAM header line:	@SQ	SN:PGA_scaffold58984__1_contigs__length_30766	LN:30766
skipping SAM header line:	@SQ	SN:PGA_scaffold59041__1_contigs__length_49211	LN:49211
skipping SAM header line:	@SQ	SN:PGA_scaffold59054__1_contigs__length_30586	LN:30586
skipping SAM header line:	@SQ	SN:PGA_scaffold59056__1_contigs__length_33360	LN:33360
skipping SAM header line:	@SQ	SN:PGA_scaffold59166__1_contigs__length_30875	LN:30875
skipping SAM header line:	@SQ	SN:PGA_scaffold59171__1_contigs__length_43122	LN:43122
skipping SAM header line:	@SQ	SN:PGA_scaffold59190__1_contigs__length_41883	LN:41883
skipping SAM header line:	@SQ	SN:PGA_scaffold59377__1_contigs__length_38396	LN:38396
skipping SAM header line:	@SQ	SN:PGA_scaffold59388__1_contigs__length_56034	LN:56034
skipping SAM header line:	@SQ	SN:PGA_scaffold59390__1_contigs__length_40508	LN:40508
skipping SAM header line:	@SQ	SN:PGA_scaffold59404__1_contigs__length_40337	LN:40337
skipping SAM header line:	@SQ	SN:PGA_scaffold59464__1_contigs__length_36159	LN:36159
skipping SAM header line:	@SQ	SN:PGA_scaffold59592__1_contigs__length_38404	LN:38404
skipping SAM header line:	@SQ	SN:PGA_scaffold59604__1_contigs__length_46284	LN:46284
skipping SAM header line:	@SQ	SN:PGA_scaffold59620__1_contigs__length_43279	LN:43279
skipping SAM header line:	@SQ	SN:PGA_scaffold59626__1_contigs__length_59819	LN:59819
skipping SAM header line:	@SQ	SN:PGA_scaffold59638__1_contigs__length_36226	LN:36226
skipping SAM header line:	@SQ	SN:PGA_scaffold59686__1_contigs__length_38175	LN:38175
skipping SAM header line:	@SQ	SN:PGA_scaffold59687__1_contigs__length_34469	LN:34469
skipping SAM header line:	@SQ	SN:PGA_scaffold59721__1_contigs__length_42511	LN:42511
skipping SAM header line:	@SQ	SN:PGA_scaffold59723__1_contigs__length_39806	LN:39806
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skipping SAM header line:	@SQ	SN:PGA_scaffold59872__1_contigs__length_51346	LN:51346
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skipping SAM header line:	@SQ	SN:PGA_scaffold59933__1_contigs__length_43116	LN:43116
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skipping SAM header line:	@SQ	SN:PGA_scaffold59992__1_contigs__length_30411	LN:30411
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skipping SAM header line:	@SQ	SN:PGA_scaffold60139__1_contigs__length_40879	LN:40879
skipping SAM header line:	@SQ	SN:PGA_scaffold60216__1_contigs__length_40599	LN:40599
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skipping SAM header line:	@SQ	SN:PGA_scaffold60279__1_contigs__length_36536	LN:36536
skipping SAM header line:	@SQ	SN:PGA_scaffold60286__1_contigs__length_31103	LN:31103
skipping SAM header line:	@SQ	SN:PGA_scaffold60289__1_contigs__length_78725	LN:78725
skipping SAM header line:	@SQ	SN:PGA_scaffold60299__1_contigs__length_52400	LN:52400
skipping SAM header line:	@SQ	SN:PGA_scaffold60318__1_contigs__length_36247	LN:36247
skipping SAM header line:	@SQ	SN:PGA_scaffold60412__1_contigs__length_79597	LN:79597
skipping SAM header line:	@SQ	SN:PGA_scaffold60413__1_contigs__length_42267	LN:42267
skipping SAM header line:	@SQ	SN:PGA_scaffold60414__1_contigs__length_49107	LN:49107
skipping SAM header line:	@SQ	SN:PGA_scaffold60441__1_contigs__length_43835	LN:43835
skipping SAM header line:	@SQ	SN:PGA_scaffold60488__1_contigs__length_50761	LN:50761
skipping SAM header line:	@SQ	SN:PGA_scaffold60490__1_contigs__length_43435	LN:43435
skipping SAM header line:	@SQ	SN:PGA_scaffold60615__1_contigs__length_40286	LN:40286
skipping SAM header line:	@SQ	SN:PGA_scaffold60652__1_contigs__length_52273	LN:52273
skipping SAM header line:	@SQ	SN:PGA_scaffold60657__1_contigs__length_45209	LN:45209
skipping SAM header line:	@SQ	SN:PGA_scaffold60699__1_contigs__length_33841	LN:33841
skipping SAM header line:	@SQ	SN:PGA_scaffold60701__1_contigs__length_53170	LN:53170
skipping SAM header line:	@SQ	SN:PGA_scaffold60731__1_contigs__length_32159	LN:32159
skipping SAM header line:	@SQ	SN:PGA_scaffold60733__1_contigs__length_38523	LN:38523
skipping SAM header line:	@SQ	SN:PGA_scaffold60734__1_contigs__length_32626	LN:32626
skipping SAM header line:	@SQ	SN:PGA_scaffold60739__1_contigs__length_33797	LN:33797
skipping SAM header line:	@SQ	SN:PGA_scaffold60760__1_contigs__length_45282	LN:45282
skipping SAM header line:	@SQ	SN:PGA_scaffold60835__1_contigs__length_31290	LN:31290
skipping SAM header line:	@SQ	SN:PGA_scaffold60836__1_contigs__length_40835	LN:40835
skipping SAM header line:	@SQ	SN:PGA_scaffold60844__1_contigs__length_38798	LN:38798
skipping SAM header line:	@SQ	SN:PGA_scaffold60846__1_contigs__length_40793	LN:40793
skipping SAM header line:	@SQ	SN:PGA_scaffold60985__1_contigs__length_43490	LN:43490
skipping SAM header line:	@SQ	SN:PGA_scaffold61013__1_contigs__length_40757	LN:40757
skipping SAM header line:	@SQ	SN:PGA_scaffold61037__1_contigs__length_31360	LN:31360
skipping SAM header line:	@SQ	SN:PGA_scaffold61040__1_contigs__length_32690	LN:32690
skipping SAM header line:	@SQ	SN:PGA_scaffold61046__1_contigs__length_41502	LN:41502
skipping SAM header line:	@SQ	SN:PGA_scaffold61063__1_contigs__length_47605	LN:47605
skipping SAM header line:	@SQ	SN:PGA_scaffold61072__1_contigs__length_33361	LN:33361
skipping SAM header line:	@SQ	SN:PGA_scaffold61096__1_contigs__length_30606	LN:30606
skipping SAM header line:	@SQ	SN:PGA_scaffold61099__1_contigs__length_49058	LN:49058
skipping SAM header line:	@SQ	SN:PGA_scaffold61103__1_contigs__length_37635	LN:37635
skipping SAM header line:	@SQ	SN:PGA_scaffold61168__1_contigs__length_30806	LN:30806
skipping SAM header line:	@SQ	SN:PGA_scaffold61190__1_contigs__length_38143	LN:38143
skipping SAM header line:	@SQ	SN:PGA_scaffold61242__1_contigs__length_43427	LN:43427
skipping SAM header line:	@SQ	SN:PGA_scaffold61273__1_contigs__length_40703	LN:40703
skipping SAM header line:	@SQ	SN:PGA_scaffold61280__1_contigs__length_40374	LN:40374
skipping SAM header line:	@SQ	SN:PGA_scaffold61312__1_contigs__length_51905	LN:51905
skipping SAM header line:	@SQ	SN:PGA_scaffold61335__1_contigs__length_32633	LN:32633
skipping SAM header line:	@SQ	SN:PGA_scaffold61337__1_contigs__length_43505	LN:43505
skipping SAM header line:	@SQ	SN:PGA_scaffold61343__1_contigs__length_35738	LN:35738
skipping SAM header line:	@SQ	SN:PGA_scaffold61363__1_contigs__length_43856	LN:43856
skipping SAM header line:	@SQ	SN:PGA_scaffold61364__1_contigs__length_58674	LN:58674
skipping SAM header line:	@SQ	SN:PGA_scaffold61370__1_contigs__length_51160	LN:51160
skipping SAM header line:	@SQ	SN:PGA_scaffold61374__1_contigs__length_38921	LN:38921
skipping SAM header line:	@SQ	SN:PGA_scaffold61375__1_contigs__length_39623	LN:39623
skipping SAM header line:	@SQ	SN:PGA_scaffold61388__1_contigs__length_45689	LN:45689
skipping SAM header line:	@SQ	SN:PGA_scaffold61392__1_contigs__length_57213	LN:57213
skipping SAM header line:	@SQ	SN:PGA_scaffold61445__1_contigs__length_33748	LN:33748
skipping SAM header line:	@SQ	SN:PGA_scaffold61589__1_contigs__length_43181	LN:43181
skipping SAM header line:	@SQ	SN:PGA_scaffold61592__1_contigs__length_35695	LN:35695
skipping SAM header line:	@SQ	SN:PGA_scaffold61615__1_contigs__length_40934	LN:40934
skipping SAM header line:	@SQ	SN:PGA_scaffold61619__1_contigs__length_33825	LN:33825
skipping SAM header line:	@SQ	SN:PGA_scaffold61628__1_contigs__length_48494	LN:48494
skipping SAM header line:	@SQ	SN:PGA_scaffold61636__1_contigs__length_47931	LN:47931
skipping SAM header line:	@SQ	SN:PGA_scaffold61640__1_contigs__length_57604	LN:57604
skipping SAM header line:	@SQ	SN:PGA_scaffold61646__1_contigs__length_55250	LN:55250
skipping SAM header line:	@SQ	SN:PGA_scaffold61650__1_contigs__length_31696	LN:31696
skipping SAM header line:	@SQ	SN:PGA_scaffold61652__1_contigs__length_58886	LN:58886
skipping SAM header line:	@SQ	SN:PGA_scaffold61705__1_contigs__length_34844	LN:34844
skipping SAM header line:	@SQ	SN:PGA_scaffold61706__1_contigs__length_34820	LN:34820
skipping SAM header line:	@SQ	SN:PGA_scaffold61707__1_contigs__length_41227	LN:41227
skipping SAM header line:	@SQ	SN:PGA_scaffold61777__1_contigs__length_45224	LN:45224
skipping SAM header line:	@SQ	SN:PGA_scaffold61840__1_contigs__length_33628	LN:33628
skipping SAM header line:	@SQ	SN:PGA_scaffold61847__1_contigs__length_83310	LN:83310
skipping SAM header line:	@SQ	SN:PGA_scaffold61852__1_contigs__length_31557	LN:31557
skipping SAM header line:	@SQ	SN:PGA_scaffold61853__1_contigs__length_48778	LN:48778
skipping SAM header line:	@SQ	SN:PGA_scaffold61879__1_contigs__length_44422	LN:44422
skipping SAM header line:	@SQ	SN:PGA_scaffold61884__1_contigs__length_46735	LN:46735
skipping SAM header line:	@SQ	SN:PGA_scaffold61888__1_contigs__length_43188	LN:43188
skipping SAM header line:	@SQ	SN:PGA_scaffold61897__1_contigs__length_41371	LN:41371
skipping SAM header line:	@SQ	SN:PGA_scaffold61982__1_contigs__length_37118	LN:37118
skipping SAM header line:	@SQ	SN:PGA_scaffold62098__1_contigs__length_77920	LN:77920
skipping SAM header line:	@SQ	SN:PGA_scaffold62138__1_contigs__length_33334	LN:33334
skipping SAM header line:	@SQ	SN:PGA_scaffold62168__1_contigs__length_43227	LN:43227
skipping SAM header line:	@SQ	SN:PGA_scaffold62186__1_contigs__length_43446	LN:43446
skipping SAM header line:	@SQ	SN:PGA_scaffold62192__1_contigs__length_56278	LN:56278
skipping SAM header line:	@SQ	SN:PGA_scaffold62198__1_contigs__length_38255	LN:38255
skipping SAM header line:	@SQ	SN:PGA_scaffold62206__1_contigs__length_67303	LN:67303
skipping SAM header line:	@SQ	SN:PGA_scaffold62224__1_contigs__length_74638	LN:74638
skipping SAM header line:	@SQ	SN:PGA_scaffold62226__1_contigs__length_86027	LN:86027
skipping SAM header line:	@SQ	SN:PGA_scaffold62319__1_contigs__length_36955	LN:36955
skipping SAM header line:	@SQ	SN:PGA_scaffold62364__1_contigs__length_54322	LN:54322
skipping SAM header line:	@SQ	SN:PGA_scaffold62403__1_contigs__length_38564	LN:38564
skipping SAM header line:	@SQ	SN:PGA_scaffold62435__1_contigs__length_59037	LN:59037
skipping SAM header line:	@SQ	SN:PGA_scaffold62443__1_contigs__length_39499	LN:39499
skipping SAM header line:	@SQ	SN:PGA_scaffold62455__1_contigs__length_63754	LN:63754
skipping SAM header line:	@SQ	SN:PGA_scaffold62459__1_contigs__length_42719	LN:42719
skipping SAM header line:	@SQ	SN:PGA_scaffold62475__1_contigs__length_44394	LN:44394
skipping SAM header line:	@SQ	SN:PGA_scaffold62477__1_contigs__length_40507	LN:40507
skipping SAM header line:	@SQ	SN:PGA_scaffold62478__1_contigs__length_48273	LN:48273
skipping SAM header line:	@SQ	SN:PGA_scaffold62492__1_contigs__length_31702	LN:31702
skipping SAM header line:	@SQ	SN:PGA_scaffold62537__1_contigs__length_39343	LN:39343
skipping SAM header line:	@SQ	SN:PGA_scaffold62542__1_contigs__length_32921	LN:32921
skipping SAM header line:	@SQ	SN:PGA_scaffold62544__1_contigs__length_41829	LN:41829
skipping SAM header line:	@SQ	SN:PGA_scaffold62591__1_contigs__length_64464	LN:64464
skipping SAM header line:	@SQ	SN:PGA_scaffold62601__1_contigs__length_36053	LN:36053
skipping SAM header line:	@SQ	SN:PGA_scaffold62602__1_contigs__length_30153	LN:30153
skipping SAM header line:	@SQ	SN:PGA_scaffold62661__1_contigs__length_34648	LN:34648
skipping SAM header line:	@SQ	SN:PGA_scaffold62687__1_contigs__length_56019	LN:56019
skipping SAM header line:	@SQ	SN:PGA_scaffold62752__1_contigs__length_33202	LN:33202
skipping SAM header line:	@SQ	SN:PGA_scaffold62854__1_contigs__length_47148	LN:47148
skipping SAM header line:	@SQ	SN:PGA_scaffold62862__1_contigs__length_31728	LN:31728
skipping SAM header line:	@SQ	SN:PGA_scaffold62865__1_contigs__length_39731	LN:39731
skipping SAM header line:	@SQ	SN:PGA_scaffold62888__1_contigs__length_54043	LN:54043
skipping SAM header line:	@SQ	SN:PGA_scaffold62889__1_contigs__length_48322	LN:48322
skipping SAM header line:	@SQ	SN:PGA_scaffold62893__1_contigs__length_35424	LN:35424
skipping SAM header line:	@SQ	SN:PGA_scaffold62898__1_contigs__length_44677	LN:44677
skipping SAM header line:	@SQ	SN:PGA_scaffold62899__1_contigs__length_48738	LN:48738
skipping SAM header line:	@SQ	SN:PGA_scaffold62907__1_contigs__length_31183	LN:31183
skipping SAM header line:	@SQ	SN:PGA_scaffold62912__1_contigs__length_44717	LN:44717
skipping SAM header line:	@SQ	SN:PGA_scaffold62914__1_contigs__length_47643	LN:47643
skipping SAM header line:	@SQ	SN:PGA_scaffold62917__1_contigs__length_34646	LN:34646
skipping SAM header line:	@SQ	SN:PGA_scaffold62920__1_contigs__length_32719	LN:32719
skipping SAM header line:	@SQ	SN:PGA_scaffold62965__1_contigs__length_46983	LN:46983
skipping SAM header line:	@SQ	SN:PGA_scaffold62974__1_contigs__length_42527	LN:42527
skipping SAM header line:	@SQ	SN:PGA_scaffold62982__1_contigs__length_51892	LN:51892
skipping SAM header line:	@SQ	SN:PGA_scaffold63008__1_contigs__length_40245	LN:40245
skipping SAM header line:	@SQ	SN:PGA_scaffold63022__1_contigs__length_31832	LN:31832
skipping SAM header line:	@SQ	SN:PGA_scaffold63033__1_contigs__length_64137	LN:64137
skipping SAM header line:	@SQ	SN:PGA_scaffold63057__1_contigs__length_30046	LN:30046
skipping SAM header line:	@SQ	SN:PGA_scaffold63059__1_contigs__length_30993	LN:30993
skipping SAM header line:	@SQ	SN:PGA_scaffold63073__1_contigs__length_59843	LN:59843
skipping SAM header line:	@SQ	SN:PGA_scaffold63076__1_contigs__length_65566	LN:65566
skipping SAM header line:	@SQ	SN:PGA_scaffold63085__1_contigs__length_46291	LN:46291
skipping SAM header line:	@SQ	SN:PGA_scaffold63090__1_contigs__length_43963	LN:43963
skipping SAM header line:	@SQ	SN:PGA_scaffold63101__1_contigs__length_45043	LN:45043
skipping SAM header line:	@SQ	SN:PGA_scaffold63115__1_contigs__length_32288	LN:32288
skipping SAM header line:	@SQ	SN:PGA_scaffold63140__1_contigs__length_32392	LN:32392
skipping SAM header line:	@SQ	SN:PGA_scaffold63144__1_contigs__length_70359	LN:70359
skipping SAM header line:	@SQ	SN:PGA_scaffold63154__1_contigs__length_40784	LN:40784
skipping SAM header line:	@SQ	SN:PGA_scaffold63158__1_contigs__length_32781	LN:32781
skipping SAM header line:	@SQ	SN:PGA_scaffold63175__1_contigs__length_32817	LN:32817
skipping SAM header line:	@SQ	SN:PGA_scaffold63196__1_contigs__length_54760	LN:54760
skipping SAM header line:	@SQ	SN:PGA_scaffold63198__1_contigs__length_39852	LN:39852
skipping SAM header line:	@SQ	SN:PGA_scaffold63251__1_contigs__length_76351	LN:76351
skipping SAM header line:	@SQ	SN:PGA_scaffold63277__1_contigs__length_43210	LN:43210
skipping SAM header line:	@SQ	SN:PGA_scaffold63280__1_contigs__length_78184	LN:78184
skipping SAM header line:	@SQ	SN:PGA_scaffold63282__1_contigs__length_48451	LN:48451
skipping SAM header line:	@SQ	SN:PGA_scaffold63286__1_contigs__length_64799	LN:64799
skipping SAM header line:	@SQ	SN:PGA_scaffold63295__1_contigs__length_73242	LN:73242
skipping SAM header line:	@SQ	SN:PGA_scaffold63327__1_contigs__length_41823	LN:41823
skipping SAM header line:	@SQ	SN:PGA_scaffold63330__1_contigs__length_32542	LN:32542
skipping SAM header line:	@SQ	SN:PGA_scaffold63338__1_contigs__length_30825	LN:30825
skipping SAM header line:	@SQ	SN:PGA_scaffold63480__1_contigs__length_39812	LN:39812
skipping SAM header line:	@SQ	SN:PGA_scaffold63504__1_contigs__length_83511	LN:83511
skipping SAM header line:	@SQ	SN:PGA_scaffold63543__1_contigs__length_67322	LN:67322
skipping SAM header line:	@SQ	SN:PGA_scaffold63594__1_contigs__length_42878	LN:42878
skipping SAM header line:	@SQ	SN:PGA_scaffold63635__1_contigs__length_31389	LN:31389
skipping SAM header line:	@SQ	SN:PGA_scaffold63681__1_contigs__length_35508	LN:35508
skipping SAM header line:	@SQ	SN:PGA_scaffold63729__1_contigs__length_32731	LN:32731
skipping SAM header line:	@SQ	SN:PGA_scaffold63732__1_contigs__length_50829	LN:50829
skipping SAM header line:	@SQ	SN:PGA_scaffold63734__1_contigs__length_31184	LN:31184
skipping SAM header line:	@SQ	SN:PGA_scaffold63741__1_contigs__length_36520	LN:36520
skipping SAM header line:	@SQ	SN:PGA_scaffold63748__1_contigs__length_33842	LN:33842
skipping SAM header line:	@SQ	SN:PGA_scaffold63749__1_contigs__length_42782	LN:42782
skipping SAM header line:	@SQ	SN:PGA_scaffold63751__1_contigs__length_41022	LN:41022
skipping SAM header line:	@SQ	SN:PGA_scaffold63753__1_contigs__length_33280	LN:33280
skipping SAM header line:	@SQ	SN:PGA_scaffold63754__1_contigs__length_42061	LN:42061
skipping SAM header line:	@SQ	SN:PGA_scaffold63762__1_contigs__length_32202	LN:32202
skipping SAM header line:	@SQ	SN:PGA_scaffold63788__1_contigs__length_79173	LN:79173
skipping SAM header line:	@SQ	SN:PGA_scaffold63874__1_contigs__length_36908	LN:36908
skipping SAM header line:	@SQ	SN:PGA_scaffold63883__1_contigs__length_68258	LN:68258
skipping SAM header line:	@SQ	SN:PGA_scaffold63886__1_contigs__length_33964	LN:33964
skipping SAM header line:	@SQ	SN:PGA_scaffold63901__1_contigs__length_33737	LN:33737
skipping SAM header line:	@SQ	SN:PGA_scaffold63902__1_contigs__length_30981	LN:30981
skipping SAM header line:	@SQ	SN:PGA_scaffold63904__1_contigs__length_56940	LN:56940
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skipping SAM header line:	@SQ	SN:PGA_scaffold63976__1_contigs__length_45677	LN:45677
skipping SAM header line:	@SQ	SN:PGA_scaffold63999__1_contigs__length_42041	LN:42041
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skipping SAM header line:	@SQ	SN:PGA_scaffold64049__1_contigs__length_45875	LN:45875
skipping SAM header line:	@SQ	SN:PGA_scaffold64054__1_contigs__length_70679	LN:70679
skipping SAM header line:	@SQ	SN:PGA_scaffold64073__1_contigs__length_36128	LN:36128
skipping SAM header line:	@SQ	SN:PGA_scaffold64074__1_contigs__length_54897	LN:54897
skipping SAM header line:	@SQ	SN:PGA_scaffold64084__1_contigs__length_71263	LN:71263
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skipping SAM header line:	@SQ	SN:PGA_scaffold64144__1_contigs__length_53004	LN:53004
skipping SAM header line:	@SQ	SN:PGA_scaffold64157__1_contigs__length_31528	LN:31528
skipping SAM header line:	@SQ	SN:PGA_scaffold64179__1_contigs__length_31562	LN:31562
skipping SAM header line:	@SQ	SN:PGA_scaffold64197__1_contigs__length_34579	LN:34579
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skipping SAM header line:	@SQ	SN:PGA_scaffold64352__1_contigs__length_40037	LN:40037
skipping SAM header line:	@SQ	SN:PGA_scaffold64383__1_contigs__length_88001	LN:88001
skipping SAM header line:	@SQ	SN:PGA_scaffold64394__1_contigs__length_33404	LN:33404
skipping SAM header line:	@SQ	SN:PGA_scaffold64426__1_contigs__length_49077	LN:49077
skipping SAM header line:	@SQ	SN:PGA_scaffold64456__1_contigs__length_38607	LN:38607
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skipping SAM header line:	@SQ	SN:PGA_scaffold64466__1_contigs__length_38330	LN:38330
skipping SAM header line:	@SQ	SN:PGA_scaffold64470__1_contigs__length_48847	LN:48847
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skipping SAM header line:	@SQ	SN:PGA_scaffold64574__1_contigs__length_46667	LN:46667
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skipping SAM header line:	@SQ	SN:PGA_scaffold64826__1_contigs__length_30214	LN:30214
skipping SAM header line:	@SQ	SN:PGA_scaffold64882__1_contigs__length_39867	LN:39867
skipping SAM header line:	@SQ	SN:PGA_scaffold64903__1_contigs__length_42771	LN:42771
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skipping SAM header line:	@SQ	SN:PGA_scaffold64934__1_contigs__length_30286	LN:30286
skipping SAM header line:	@SQ	SN:PGA_scaffold64954__1_contigs__length_35731	LN:35731
skipping SAM header line:	@SQ	SN:PGA_scaffold64964__1_contigs__length_54048	LN:54048
skipping SAM header line:	@SQ	SN:PGA_scaffold64971__1_contigs__length_96233	LN:96233
skipping SAM header line:	@SQ	SN:PGA_scaffold65021__1_contigs__length_40132	LN:40132
skipping SAM header line:	@SQ	SN:PGA_scaffold65031__1_contigs__length_52072	LN:52072
skipping SAM header line:	@SQ	SN:PGA_scaffold65077__1_contigs__length_78086	LN:78086
skipping SAM header line:	@SQ	SN:PGA_scaffold65079__1_contigs__length_38850	LN:38850
skipping SAM header line:	@SQ	SN:PGA_scaffold65086__1_contigs__length_44941	LN:44941
skipping SAM header line:	@SQ	SN:PGA_scaffold65089__1_contigs__length_56911	LN:56911
skipping SAM header line:	@SQ	SN:PGA_scaffold65091__1_contigs__length_44371	LN:44371
skipping SAM header line:	@SQ	SN:PGA_scaffold65116__1_contigs__length_38844	LN:38844
skipping SAM header line:	@SQ	SN:PGA_scaffold65119__1_contigs__length_57101	LN:57101
skipping SAM header line:	@SQ	SN:PGA_scaffold65171__1_contigs__length_46480	LN:46480
skipping SAM header line:	@SQ	SN:PGA_scaffold65174__1_contigs__length_38341	LN:38341
skipping SAM header line:	@SQ	SN:PGA_scaffold65186__1_contigs__length_41412	LN:41412
skipping SAM header line:	@SQ	SN:PGA_scaffold65198__1_contigs__length_44989	LN:44989
skipping SAM header line:	@SQ	SN:PGA_scaffold65255__1_contigs__length_59866	LN:59866
skipping SAM header line:	@SQ	SN:PGA_scaffold65278__1_contigs__length_62003	LN:62003
skipping SAM header line:	@SQ	SN:PGA_scaffold65284__1_contigs__length_50840	LN:50840
skipping SAM header line:	@SQ	SN:PGA_scaffold65305__1_contigs__length_40067	LN:40067
skipping SAM header line:	@SQ	SN:PGA_scaffold65307__1_contigs__length_57187	LN:57187
skipping SAM header line:	@SQ	SN:PGA_scaffold65313__1_contigs__length_38893	LN:38893
skipping SAM header line:	@SQ	SN:PGA_scaffold65329__1_contigs__length_30096	LN:30096
skipping SAM header line:	@SQ	SN:PGA_scaffold65356__1_contigs__length_44587	LN:44587
skipping SAM header line:	@SQ	SN:PGA_scaffold65398__1_contigs__length_63537	LN:63537
skipping SAM header line:	@SQ	SN:PGA_scaffold65399__1_contigs__length_61838	LN:61838
skipping SAM header line:	@SQ	SN:PGA_scaffold65461__1_contigs__length_37665	LN:37665
skipping SAM header line:	@SQ	SN:PGA_scaffold65465__1_contigs__length_31799	LN:31799
skipping SAM header line:	@SQ	SN:PGA_scaffold65505__1_contigs__length_41126	LN:41126
skipping SAM header line:	@SQ	SN:PGA_scaffold65585__1_contigs__length_31567	LN:31567
skipping SAM header line:	@SQ	SN:PGA_scaffold65600__1_contigs__length_32016	LN:32016
skipping SAM header line:	@SQ	SN:PGA_scaffold65653__1_contigs__length_32424	LN:32424
skipping SAM header line:	@SQ	SN:PGA_scaffold65693__1_contigs__length_34648	LN:34648
skipping SAM header line:	@SQ	SN:PGA_scaffold65737__1_contigs__length_37231	LN:37231
skipping SAM header line:	@SQ	SN:PGA_scaffold65765__1_contigs__length_39217	LN:39217
skipping SAM header line:	@SQ	SN:PGA_scaffold65777__1_contigs__length_32724	LN:32724
skipping SAM header line:	@SQ	SN:PGA_scaffold65781__1_contigs__length_42302	LN:42302
skipping SAM header line:	@SQ	SN:PGA_scaffold65786__1_contigs__length_56597	LN:56597
skipping SAM header line:	@SQ	SN:PGA_scaffold65807__1_contigs__length_35379	LN:35379
skipping SAM header line:	@SQ	SN:PGA_scaffold65809__1_contigs__length_36632	LN:36632
skipping SAM header line:	@SQ	SN:PGA_scaffold65815__1_contigs__length_49308	LN:49308
skipping SAM header line:	@SQ	SN:PGA_scaffold65846__1_contigs__length_33986	LN:33986
skipping SAM header line:	@SQ	SN:PGA_scaffold65851__1_contigs__length_44621	LN:44621
skipping SAM header line:	@SQ	SN:PGA_scaffold65866__1_contigs__length_90471	LN:90471
skipping SAM header line:	@SQ	SN:PGA_scaffold65911__1_contigs__length_48303	LN:48303
skipping SAM header line:	@SQ	SN:PGA_scaffold65912__1_contigs__length_34561	LN:34561
skipping SAM header line:	@SQ	SN:PGA_scaffold65945__1_contigs__length_40559	LN:40559
skipping SAM header line:	@SQ	SN:PGA_scaffold65949__1_contigs__length_35336	LN:35336
skipping SAM header line:	@SQ	SN:PGA_scaffold65954__1_contigs__length_39725	LN:39725
skipping SAM header line:	@SQ	SN:PGA_scaffold65967__1_contigs__length_36096	LN:36096
skipping SAM header line:	@SQ	SN:PGA_scaffold65987__1_contigs__length_52560	LN:52560
skipping SAM header line:	@SQ	SN:PGA_scaffold66001__1_contigs__length_39013	LN:39013
skipping SAM header line:	@SQ	SN:PGA_scaffold66037__1_contigs__length_37904	LN:37904
skipping SAM header line:	@SQ	SN:PGA_scaffold66060__1_contigs__length_47051	LN:47051
skipping SAM header line:	@SQ	SN:PGA_scaffold66062__1_contigs__length_35720	LN:35720
skipping SAM header line:	@SQ	SN:PGA_scaffold66079__1_contigs__length_37644	LN:37644
skipping SAM header line:	@SQ	SN:PGA_scaffold66102__1_contigs__length_38669	LN:38669
skipping SAM header line:	@SQ	SN:PGA_scaffold66132__1_contigs__length_39192	LN:39192
skipping SAM header line:	@SQ	SN:PGA_scaffold66172__1_contigs__length_62844	LN:62844
skipping SAM header line:	@SQ	SN:PGA_scaffold66173__1_contigs__length_34319	LN:34319
skipping SAM header line:	@SQ	SN:PGA_scaffold66178__1_contigs__length_49601	LN:49601
skipping SAM header line:	@SQ	SN:PGA_scaffold66186__1_contigs__length_45928	LN:45928
skipping SAM header line:	@SQ	SN:PGA_scaffold66196__1_contigs__length_53841	LN:53841
skipping SAM header line:	@SQ	SN:PGA_scaffold66212__1_contigs__length_32503	LN:32503
skipping SAM header line:	@SQ	SN:PGA_scaffold66276__1_contigs__length_39820	LN:39820
skipping SAM header line:	@SQ	SN:PGA_scaffold66293__1_contigs__length_33304	LN:33304
skipping SAM header line:	@SQ	SN:PGA_scaffold66318__1_contigs__length_45619	LN:45619
skipping SAM header line:	@SQ	SN:PGA_scaffold66338__1_contigs__length_30756	LN:30756
skipping SAM header line:	@SQ	SN:PGA_scaffold66399__1_contigs__length_42456	LN:42456
skipping SAM header line:	@SQ	SN:PGA_scaffold66419__1_contigs__length_49715	LN:49715
skipping SAM header line:	@SQ	SN:PGA_scaffold66434__1_contigs__length_46589	LN:46589
skipping SAM header line:	@SQ	SN:PGA_scaffold66452__1_contigs__length_42482	LN:42482
skipping SAM header line:	@SQ	SN:PGA_scaffold66481__1_contigs__length_32127	LN:32127
skipping SAM header line:	@SQ	SN:PGA_scaffold66513__1_contigs__length_33853	LN:33853
skipping SAM header line:	@SQ	SN:PGA_scaffold66519__1_contigs__length_33851	LN:33851
skipping SAM header line:	@SQ	SN:PGA_scaffold66554__1_contigs__length_46378	LN:46378
skipping SAM header line:	@SQ	SN:PGA_scaffold66557__1_contigs__length_39298	LN:39298
skipping SAM header line:	@SQ	SN:PGA_scaffold66594__1_contigs__length_45007	LN:45007
skipping SAM header line:	@SQ	SN:PGA_scaffold66641__1_contigs__length_41123	LN:41123
skipping SAM header line:	@SQ	SN:PGA_scaffold66642__1_contigs__length_33139	LN:33139
skipping SAM header line:	@SQ	SN:PGA_scaffold66656__1_contigs__length_57103	LN:57103
skipping SAM header line:	@SQ	SN:PGA_scaffold66666__1_contigs__length_58206	LN:58206
skipping SAM header line:	@SQ	SN:PGA_scaffold66674__1_contigs__length_30853	LN:30853
skipping SAM header line:	@SQ	SN:PGA_scaffold66682__1_contigs__length_34382	LN:34382
skipping SAM header line:	@SQ	SN:PGA_scaffold66713__1_contigs__length_84867	LN:84867
skipping SAM header line:	@SQ	SN:PGA_scaffold66717__1_contigs__length_43668	LN:43668
skipping SAM header line:	@SQ	SN:PGA_scaffold66721__1_contigs__length_30932	LN:30932
skipping SAM header line:	@SQ	SN:PGA_scaffold66729__1_contigs__length_32971	LN:32971
skipping SAM header line:	@SQ	SN:PGA_scaffold66737__1_contigs__length_35128	LN:35128
skipping SAM header line:	@SQ	SN:PGA_scaffold66767__1_contigs__length_30996	LN:30996
skipping SAM header line:	@SQ	SN:PGA_scaffold66795__1_contigs__length_33697	LN:33697
skipping SAM header line:	@SQ	SN:PGA_scaffold66797__1_contigs__length_36926	LN:36926
skipping SAM header line:	@SQ	SN:PGA_scaffold66804__1_contigs__length_31229	LN:31229
skipping SAM header line:	@SQ	SN:PGA_scaffold66854__1_contigs__length_42887	LN:42887
skipping SAM header line:	@SQ	SN:PGA_scaffold66861__1_contigs__length_33604	LN:33604
skipping SAM header line:	@SQ	SN:PGA_scaffold66907__1_contigs__length_30664	LN:30664
skipping SAM header line:	@SQ	SN:PGA_scaffold66932__1_contigs__length_31539	LN:31539
skipping SAM header line:	@SQ	SN:PGA_scaffold67057__1_contigs__length_30266	LN:30266
skipping SAM header line:	@SQ	SN:PGA_scaffold67070__1_contigs__length_50493	LN:50493
skipping SAM header line:	@SQ	SN:PGA_scaffold67145__1_contigs__length_36418	LN:36418
skipping SAM header line:	@SQ	SN:PGA_scaffold67154__1_contigs__length_38445	LN:38445
skipping SAM header line:	@SQ	SN:PGA_scaffold67214__1_contigs__length_49673	LN:49673
skipping SAM header line:	@SQ	SN:PGA_scaffold67280__1_contigs__length_31885	LN:31885
skipping SAM header line:	@SQ	SN:PGA_scaffold67294__1_contigs__length_50832	LN:50832
skipping SAM header line:	@SQ	SN:PGA_scaffold67337__1_contigs__length_52553	LN:52553
skipping SAM header line:	@SQ	SN:PGA_scaffold67346__1_contigs__length_32090	LN:32090
skipping SAM header line:	@SQ	SN:PGA_scaffold67399__1_contigs__length_33211	LN:33211
skipping SAM header line:	@SQ	SN:PGA_scaffold67407__1_contigs__length_73205	LN:73205
skipping SAM header line:	@SQ	SN:PGA_scaffold67409__1_contigs__length_30272	LN:30272
skipping SAM header line:	@SQ	SN:PGA_scaffold67460__1_contigs__length_63707	LN:63707
skipping SAM header line:	@SQ	SN:PGA_scaffold67469__1_contigs__length_34100	LN:34100
skipping SAM header line:	@SQ	SN:PGA_scaffold67491__1_contigs__length_36666	LN:36666
skipping SAM header line:	@SQ	SN:PGA_scaffold67492__1_contigs__length_32377	LN:32377
skipping SAM header line:	@SQ	SN:PGA_scaffold67500__1_contigs__length_32321	LN:32321
skipping SAM header line:	@SQ	SN:PGA_scaffold67501__1_contigs__length_45282	LN:45282
skipping SAM header line:	@SQ	SN:PGA_scaffold67506__1_contigs__length_34916	LN:34916
skipping SAM header line:	@SQ	SN:PGA_scaffold67532__1_contigs__length_45886	LN:45886
skipping SAM header line:	@SQ	SN:PGA_scaffold67555__1_contigs__length_42738	LN:42738
skipping SAM header line:	@SQ	SN:PGA_scaffold67566__1_contigs__length_131359	LN:131359
skipping SAM header line:	@SQ	SN:PGA_scaffold67576__1_contigs__length_71513	LN:71513
skipping SAM header line:	@SQ	SN:PGA_scaffold67579__1_contigs__length_30606	LN:30606
skipping SAM header line:	@SQ	SN:PGA_scaffold67604__1_contigs__length_30533	LN:30533
skipping SAM header line:	@SQ	SN:PGA_scaffold67614__1_contigs__length_45881	LN:45881
skipping SAM header line:	@SQ	SN:PGA_scaffold67629__1_contigs__length_41418	LN:41418
skipping SAM header line:	@SQ	SN:PGA_scaffold67633__1_contigs__length_49909	LN:49909
skipping SAM header line:	@SQ	SN:PGA_scaffold67641__1_contigs__length_35654	LN:35654
skipping SAM header line:	@SQ	SN:PGA_scaffold67666__1_contigs__length_32329	LN:32329
skipping SAM header line:	@SQ	SN:PGA_scaffold67687__1_contigs__length_62665	LN:62665
skipping SAM header line:	@SQ	SN:PGA_scaffold67702__1_contigs__length_30259	LN:30259
skipping SAM header line:	@SQ	SN:PGA_scaffold67709__1_contigs__length_32364	LN:32364
skipping SAM header line:	@SQ	SN:PGA_scaffold67745__1_contigs__length_41387	LN:41387
skipping SAM header line:	@SQ	SN:PGA_scaffold67754__1_contigs__length_46865	LN:46865
skipping SAM header line:	@SQ	SN:PGA_scaffold67781__1_contigs__length_42225	LN:42225
skipping SAM header line:	@SQ	SN:PGA_scaffold67782__1_contigs__length_31631	LN:31631
skipping SAM header line:	@SQ	SN:PGA_scaffold67794__1_contigs__length_36514	LN:36514
skipping SAM header line:	@SQ	SN:PGA_scaffold67874__1_contigs__length_35874	LN:35874
skipping SAM header line:	@SQ	SN:PGA_scaffold67908__1_contigs__length_39573	LN:39573
skipping SAM header line:	@SQ	SN:PGA_scaffold67909__1_contigs__length_30059	LN:30059
skipping SAM header line:	@SQ	SN:PGA_scaffold67921__1_contigs__length_42945	LN:42945
skipping SAM header line:	@SQ	SN:PGA_scaffold67942__1_contigs__length_32835	LN:32835
skipping SAM header line:	@SQ	SN:PGA_scaffold67967__1_contigs__length_40481	LN:40481
skipping SAM header line:	@SQ	SN:PGA_scaffold67981__1_contigs__length_35686	LN:35686
skipping SAM header line:	@SQ	SN:PGA_scaffold68035__1_contigs__length_42103	LN:42103
skipping SAM header line:	@SQ	SN:PGA_scaffold68039__1_contigs__length_32241	LN:32241
skipping SAM header line:	@SQ	SN:PGA_scaffold68042__1_contigs__length_43179	LN:43179
skipping SAM header line:	@SQ	SN:PGA_scaffold68044__1_contigs__length_31992	LN:31992
skipping SAM header line:	@SQ	SN:PGA_scaffold68049__1_contigs__length_34344	LN:34344
skipping SAM header line:	@SQ	SN:PGA_scaffold68053__1_contigs__length_31000	LN:31000
skipping SAM header line:	@SQ	SN:PGA_scaffold68092__1_contigs__length_33414	LN:33414
skipping SAM header line:	@SQ	SN:PGA_scaffold68150__1_contigs__length_50783	LN:50783
skipping SAM header line:	@SQ	SN:PGA_scaffold68157__1_contigs__length_34106	LN:34106
skipping SAM header line:	@SQ	SN:PGA_scaffold68184__1_contigs__length_41355	LN:41355
skipping SAM header line:	@SQ	SN:PGA_scaffold68193__1_contigs__length_46031	LN:46031
skipping SAM header line:	@SQ	SN:PGA_scaffold68205__1_contigs__length_30954	LN:30954
skipping SAM header line:	@SQ	SN:PGA_scaffold68252__1_contigs__length_37078	LN:37078
skipping SAM header line:	@SQ	SN:PGA_scaffold68273__1_contigs__length_46075	LN:46075
skipping SAM header line:	@SQ	SN:PGA_scaffold68274__1_contigs__length_63866	LN:63866
skipping SAM header line:	@SQ	SN:PGA_scaffold68332__1_contigs__length_52891	LN:52891
skipping SAM header line:	@SQ	SN:PGA_scaffold68355__1_contigs__length_44244	LN:44244
skipping SAM header line:	@SQ	SN:PGA_scaffold68382__1_contigs__length_35256	LN:35256
skipping SAM header line:	@SQ	SN:PGA_scaffold68387__1_contigs__length_39768	LN:39768
skipping SAM header line:	@SQ	SN:PGA_scaffold68394__1_contigs__length_31191	LN:31191
skipping SAM header line:	@SQ	SN:PGA_scaffold68395__1_contigs__length_45596	LN:45596
skipping SAM header line:	@SQ	SN:PGA_scaffold68397__1_contigs__length_46584	LN:46584
skipping SAM header line:	@SQ	SN:PGA_scaffold68425__1_contigs__length_32148	LN:32148
skipping SAM header line:	@SQ	SN:PGA_scaffold68455__1_contigs__length_49171	LN:49171
skipping SAM header line:	@SQ	SN:PGA_scaffold68463__1_contigs__length_36019	LN:36019
skipping SAM header line:	@SQ	SN:PGA_scaffold68476__1_contigs__length_31493	LN:31493
skipping SAM header line:	@SQ	SN:PGA_scaffold68483__1_contigs__length_57370	LN:57370
skipping SAM header line:	@SQ	SN:PGA_scaffold68484__1_contigs__length_47467	LN:47467
skipping SAM header line:	@SQ	SN:PGA_scaffold68495__1_contigs__length_36431	LN:36431
skipping SAM header line:	@SQ	SN:PGA_scaffold68498__1_contigs__length_33054	LN:33054
skipping SAM header line:	@SQ	SN:PGA_scaffold68529__1_contigs__length_45929	LN:45929
skipping SAM header line:	@SQ	SN:PGA_scaffold68536__1_contigs__length_53547	LN:53547
skipping SAM header line:	@SQ	SN:PGA_scaffold68576__1_contigs__length_34428	LN:34428
skipping SAM header line:	@SQ	SN:PGA_scaffold68613__1_contigs__length_44262	LN:44262
skipping SAM header line:	@SQ	SN:PGA_scaffold68674__1_contigs__length_32423	LN:32423
skipping SAM header line:	@SQ	SN:PGA_scaffold68721__1_contigs__length_42259	LN:42259
skipping SAM header line:	@SQ	SN:PGA_scaffold68747__1_contigs__length_49906	LN:49906
skipping SAM header line:	@SQ	SN:PGA_scaffold68765__1_contigs__length_40132	LN:40132
skipping SAM header line:	@SQ	SN:PGA_scaffold68777__1_contigs__length_38286	LN:38286
skipping SAM header line:	@SQ	SN:PGA_scaffold68795__1_contigs__length_49952	LN:49952
skipping SAM header line:	@SQ	SN:PGA_scaffold68798__1_contigs__length_41851	LN:41851
skipping SAM header line:	@SQ	SN:PGA_scaffold68816__1_contigs__length_39953	LN:39953
skipping SAM header line:	@SQ	SN:PGA_scaffold68822__1_contigs__length_40525	LN:40525
skipping SAM header line:	@SQ	SN:PGA_scaffold68849__1_contigs__length_42390	LN:42390
skipping SAM header line:	@SQ	SN:PGA_scaffold68855__1_contigs__length_38462	LN:38462
skipping SAM header line:	@SQ	SN:PGA_scaffold68858__1_contigs__length_37103	LN:37103
skipping SAM header line:	@SQ	SN:PGA_scaffold68888__1_contigs__length_30760	LN:30760
skipping SAM header line:	@SQ	SN:PGA_scaffold68902__1_contigs__length_32565	LN:32565
skipping SAM header line:	@SQ	SN:PGA_scaffold68916__1_contigs__length_32130	LN:32130
skipping SAM header line:	@SQ	SN:PGA_scaffold68959__1_contigs__length_34473	LN:34473
skipping SAM header line:	@SQ	SN:PGA_scaffold68980__1_contigs__length_31650	LN:31650
skipping SAM header line:	@SQ	SN:PGA_scaffold69000__1_contigs__length_31325	LN:31325
skipping SAM header line:	@SQ	SN:PGA_scaffold69031__1_contigs__length_49096	LN:49096
skipping SAM header line:	@SQ	SN:PGA_scaffold69064__1_contigs__length_30263	LN:30263
skipping SAM header line:	@SQ	SN:PGA_scaffold69066__1_contigs__length_41967	LN:41967
skipping SAM header line:	@SQ	SN:PGA_scaffold69075__1_contigs__length_43631	LN:43631
skipping SAM header line:	@SQ	SN:PGA_scaffold69088__1_contigs__length_46450	LN:46450
skipping SAM header line:	@SQ	SN:PGA_scaffold69098__1_contigs__length_35440	LN:35440
skipping SAM header line:	@SQ	SN:PGA_scaffold69099__1_contigs__length_56136	LN:56136
skipping SAM header line:	@SQ	SN:PGA_scaffold69107__1_contigs__length_36690	LN:36690
skipping SAM header line:	@SQ	SN:PGA_scaffold69130__1_contigs__length_52115	LN:52115
skipping SAM header line:	@SQ	SN:PGA_scaffold69149__1_contigs__length_34885	LN:34885
skipping SAM header line:	@SQ	SN:PGA_scaffold69173__1_contigs__length_31383	LN:31383
skipping SAM header line:	@SQ	SN:PGA_scaffold69251__1_contigs__length_36385	LN:36385
skipping SAM header line:	@SQ	SN:PGA_scaffold69286__1_contigs__length_32034	LN:32034
skipping SAM header line:	@SQ	SN:PGA_scaffold69294__1_contigs__length_33022	LN:33022
skipping SAM header line:	@SQ	SN:PGA_scaffold69311__1_contigs__length_34239	LN:34239
skipping SAM header line:	@SQ	SN:PGA_scaffold69332__1_contigs__length_37657	LN:37657
skipping SAM header line:	@SQ	SN:PGA_scaffold69353__1_contigs__length_32912	LN:32912
skipping SAM header line:	@SQ	SN:PGA_scaffold69354__1_contigs__length_42598	LN:42598
skipping SAM header line:	@SQ	SN:PGA_scaffold69362__1_contigs__length_32911	LN:32911
skipping SAM header line:	@SQ	SN:PGA_scaffold69376__1_contigs__length_34929	LN:34929
skipping SAM header line:	@SQ	SN:PGA_scaffold69388__1_contigs__length_51830	LN:51830
skipping SAM header line:	@SQ	SN:PGA_scaffold69435__1_contigs__length_57426	LN:57426
skipping SAM header line:	@SQ	SN:PGA_scaffold69439__1_contigs__length_41542	LN:41542
skipping SAM header line:	@SQ	SN:PGA_scaffold69451__1_contigs__length_39160	LN:39160
skipping SAM header line:	@SQ	SN:PGA_scaffold69459__1_contigs__length_45501	LN:45501
skipping SAM header line:	@SQ	SN:PGA_scaffold69477__1_contigs__length_38210	LN:38210
skipping SAM header line:	@SQ	SN:PGA_scaffold69479__1_contigs__length_32808	LN:32808
skipping SAM header line:	@SQ	SN:PGA_scaffold69484__1_contigs__length_31150	LN:31150
skipping SAM header line:	@SQ	SN:PGA_scaffold69495__1_contigs__length_53052	LN:53052
skipping SAM header line:	@SQ	SN:PGA_scaffold69529__1_contigs__length_33639	LN:33639
skipping SAM header line:	@SQ	SN:PGA_scaffold69555__1_contigs__length_42966	LN:42966
skipping SAM header line:	@SQ	SN:PGA_scaffold69556__1_contigs__length_33961	LN:33961
skipping SAM header line:	@SQ	SN:PGA_scaffold69619__1_contigs__length_30388	LN:30388
skipping SAM header line:	@SQ	SN:PGA_scaffold69621__1_contigs__length_30422	LN:30422
skipping SAM header line:	@SQ	SN:PGA_scaffold69622__1_contigs__length_37660	LN:37660
skipping SAM header line:	@SQ	SN:PGA_scaffold69631__1_contigs__length_44909	LN:44909
skipping SAM header line:	@SQ	SN:PGA_scaffold69645__1_contigs__length_46339	LN:46339
skipping SAM header line:	@SQ	SN:PGA_scaffold69669__1_contigs__length_34799	LN:34799
skipping SAM header line:	@SQ	SN:PGA_scaffold69683__1_contigs__length_40360	LN:40360
skipping SAM header line:	@SQ	SN:PGA_scaffold69711__1_contigs__length_31728	LN:31728
skipping SAM header line:	@SQ	SN:PGA_scaffold69724__1_contigs__length_36238	LN:36238
skipping SAM header line:	@SQ	SN:PGA_scaffold69769__1_contigs__length_67326	LN:67326
skipping SAM header line:	@SQ	SN:PGA_scaffold69780__1_contigs__length_36085	LN:36085
skipping SAM header line:	@SQ	SN:PGA_scaffold69798__1_contigs__length_44809	LN:44809
skipping SAM header line:	@SQ	SN:PGA_scaffold69800__1_contigs__length_33144	LN:33144
skipping SAM header line:	@SQ	SN:PGA_scaffold69807__1_contigs__length_45521	LN:45521
skipping SAM header line:	@SQ	SN:PGA_scaffold69829__1_contigs__length_34810	LN:34810
skipping SAM header line:	@SQ	SN:PGA_scaffold69869__1_contigs__length_52996	LN:52996
skipping SAM header line:	@SQ	SN:PGA_scaffold69890__1_contigs__length_34157	LN:34157
skipping SAM header line:	@SQ	SN:PGA_scaffold69901__1_contigs__length_33452	LN:33452
skipping SAM header line:	@SQ	SN:PGA_scaffold69924__1_contigs__length_44446	LN:44446
skipping SAM header line:	@SQ	SN:PGA_scaffold69935__1_contigs__length_32162	LN:32162
skipping SAM header line:	@SQ	SN:PGA_scaffold69949__1_contigs__length_34320	LN:34320
skipping SAM header line:	@SQ	SN:PGA_scaffold69958__1_contigs__length_74035	LN:74035
skipping SAM header line:	@SQ	SN:PGA_scaffold69967__1_contigs__length_33074	LN:33074
skipping SAM header line:	@SQ	SN:PGA_scaffold69970__1_contigs__length_36785	LN:36785
skipping SAM header line:	@SQ	SN:PGA_scaffold69984__1_contigs__length_60451	LN:60451
skipping SAM header line:	@SQ	SN:PGA_scaffold70035__1_contigs__length_36658	LN:36658
skipping SAM header line:	@SQ	SN:PGA_scaffold70070__1_contigs__length_49697	LN:49697
skipping SAM header line:	@SQ	SN:PGA_scaffold70086__1_contigs__length_42850	LN:42850
skipping SAM header line:	@SQ	SN:PGA_scaffold70089__1_contigs__length_30721	LN:30721
skipping SAM header line:	@SQ	SN:PGA_scaffold70108__1_contigs__length_34192	LN:34192
skipping SAM header line:	@SQ	SN:PGA_scaffold70142__1_contigs__length_30446	LN:30446
skipping SAM header line:	@SQ	SN:PGA_scaffold70148__1_contigs__length_34259	LN:34259
skipping SAM header line:	@SQ	SN:PGA_scaffold70159__1_contigs__length_39306	LN:39306
skipping SAM header line:	@SQ	SN:PGA_scaffold70172__1_contigs__length_32250	LN:32250
skipping SAM header line:	@SQ	SN:PGA_scaffold70187__1_contigs__length_37612	LN:37612
skipping SAM header line:	@SQ	SN:PGA_scaffold70197__1_contigs__length_58642	LN:58642
skipping SAM header line:	@SQ	SN:PGA_scaffold70204__1_contigs__length_36625	LN:36625
skipping SAM header line:	@SQ	SN:PGA_scaffold70218__1_contigs__length_31585	LN:31585
skipping SAM header line:	@SQ	SN:PGA_scaffold70228__1_contigs__length_47471	LN:47471
skipping SAM header line:	@SQ	SN:PGA_scaffold70241__1_contigs__length_36884	LN:36884
skipping SAM header line:	@SQ	SN:PGA_scaffold70287__1_contigs__length_50534	LN:50534
skipping SAM header line:	@SQ	SN:PGA_scaffold70301__1_contigs__length_33670	LN:33670
skipping SAM header line:	@SQ	SN:PGA_scaffold70359__1_contigs__length_31823	LN:31823
skipping SAM header line:	@SQ	SN:PGA_scaffold70409__1_contigs__length_30379	LN:30379
skipping SAM header line:	@SQ	SN:PGA_scaffold70448__1_contigs__length_39500	LN:39500
skipping SAM header line:	@SQ	SN:PGA_scaffold70468__1_contigs__length_51685	LN:51685
skipping SAM header line:	@SQ	SN:PGA_scaffold70474__1_contigs__length_50365	LN:50365
skipping SAM header line:	@SQ	SN:PGA_scaffold70476__1_contigs__length_49360	LN:49360
skipping SAM header line:	@SQ	SN:PGA_scaffold70489__1_contigs__length_43424	LN:43424
skipping SAM header line:	@SQ	SN:PGA_scaffold70492__1_contigs__length_45967	LN:45967
skipping SAM header line:	@SQ	SN:PGA_scaffold70506__1_contigs__length_45721	LN:45721
skipping SAM header line:	@SQ	SN:PGA_scaffold70524__1_contigs__length_38508	LN:38508
skipping SAM header line:	@SQ	SN:PGA_scaffold70527__1_contigs__length_47656	LN:47656
skipping SAM header line:	@SQ	SN:PGA_scaffold70530__1_contigs__length_39511	LN:39511
skipping SAM header line:	@SQ	SN:PGA_scaffold70597__1_contigs__length_32895	LN:32895
skipping SAM header line:	@SQ	SN:PGA_scaffold70628__1_contigs__length_97563	LN:97563
skipping SAM header line:	@SQ	SN:PGA_scaffold70637__1_contigs__length_38808	LN:38808
skipping SAM header line:	@SQ	SN:PGA_scaffold70639__1_contigs__length_30384	LN:30384
skipping SAM header line:	@SQ	SN:PGA_scaffold70640__1_contigs__length_30940	LN:30940
skipping SAM header line:	@SQ	SN:PGA_scaffold70650__1_contigs__length_36340	LN:36340
skipping SAM header line:	@SQ	SN:PGA_scaffold70652__1_contigs__length_42814	LN:42814
skipping SAM header line:	@SQ	SN:PGA_scaffold70653__1_contigs__length_42188	LN:42188
skipping SAM header line:	@SQ	SN:PGA_scaffold70667__1_contigs__length_31073	LN:31073
skipping SAM header line:	@SQ	SN:PGA_scaffold70744__1_contigs__length_41353	LN:41353
skipping SAM header line:	@SQ	SN:PGA_scaffold70751__1_contigs__length_35732	LN:35732
skipping SAM header line:	@SQ	SN:PGA_scaffold70770__1_contigs__length_37647	LN:37647
skipping SAM header line:	@SQ	SN:PGA_scaffold70785__1_contigs__length_35848	LN:35848
skipping SAM header line:	@SQ	SN:PGA_scaffold70788__1_contigs__length_34232	LN:34232
skipping SAM header line:	@SQ	SN:PGA_scaffold70791__1_contigs__length_36664	LN:36664
skipping SAM header line:	@SQ	SN:PGA_scaffold70793__1_contigs__length_31797	LN:31797
skipping SAM header line:	@SQ	SN:PGA_scaffold70795__1_contigs__length_35890	LN:35890
skipping SAM header line:	@SQ	SN:PGA_scaffold70814__1_contigs__length_47056	LN:47056
skipping SAM header line:	@SQ	SN:PGA_scaffold70837__1_contigs__length_33454	LN:33454
skipping SAM header line:	@SQ	SN:PGA_scaffold70839__1_contigs__length_41296	LN:41296
skipping SAM header line:	@SQ	SN:PGA_scaffold70880__1_contigs__length_31372	LN:31372
skipping SAM header line:	@SQ	SN:PGA_scaffold70894__1_contigs__length_47158	LN:47158
skipping SAM header line:	@SQ	SN:PGA_scaffold70911__1_contigs__length_31781	LN:31781
skipping SAM header line:	@SQ	SN:PGA_scaffold70919__1_contigs__length_35080	LN:35080
skipping SAM header line:	@SQ	SN:PGA_scaffold70967__1_contigs__length_30258	LN:30258
skipping SAM header line:	@SQ	SN:PGA_scaffold70990__1_contigs__length_44272	LN:44272
skipping SAM header line:	@SQ	SN:PGA_scaffold71003__1_contigs__length_32258	LN:32258
skipping SAM header line:	@SQ	SN:PGA_scaffold71016__1_contigs__length_52719	LN:52719
skipping SAM header line:	@SQ	SN:PGA_scaffold71023__1_contigs__length_42297	LN:42297
skipping SAM header line:	@SQ	SN:PGA_scaffold71024__1_contigs__length_37906	LN:37906
skipping SAM header line:	@SQ	SN:PGA_scaffold71080__1_contigs__length_35132	LN:35132
skipping SAM header line:	@SQ	SN:PGA_scaffold71087__1_contigs__length_36896	LN:36896
skipping SAM header line:	@SQ	SN:PGA_scaffold71091__1_contigs__length_33646	LN:33646
skipping SAM header line:	@SQ	SN:PGA_scaffold71150__1_contigs__length_30573	LN:30573
skipping SAM header line:	@SQ	SN:PGA_scaffold71155__1_contigs__length_32524	LN:32524
skipping SAM header line:	@SQ	SN:PGA_scaffold71157__1_contigs__length_46861	LN:46861
skipping SAM header line:	@SQ	SN:PGA_scaffold71196__1_contigs__length_54597	LN:54597
skipping SAM header line:	@SQ	SN:PGA_scaffold71206__1_contigs__length_30090	LN:30090
skipping SAM header line:	@SQ	SN:PGA_scaffold71207__1_contigs__length_51143	LN:51143
skipping SAM header line:	@SQ	SN:PGA_scaffold71213__1_contigs__length_30215	LN:30215
skipping SAM header line:	@SQ	SN:PGA_scaffold71232__1_contigs__length_34336	LN:34336
skipping SAM header line:	@SQ	SN:PGA_scaffold71242__1_contigs__length_41800	LN:41800
skipping SAM header line:	@SQ	SN:PGA_scaffold71274__1_contigs__length_40536	LN:40536
skipping SAM header line:	@SQ	SN:PGA_scaffold71303__1_contigs__length_45292	LN:45292
skipping SAM header line:	@SQ	SN:PGA_scaffold71306__1_contigs__length_30481	LN:30481
skipping SAM header line:	@SQ	SN:PGA_scaffold71307__1_contigs__length_42784	LN:42784
skipping SAM header line:	@SQ	SN:PGA_scaffold71310__1_contigs__length_31572	LN:31572
skipping SAM header line:	@SQ	SN:PGA_scaffold71339__1_contigs__length_31076	LN:31076
skipping SAM header line:	@SQ	SN:PGA_scaffold71346__1_contigs__length_42813	LN:42813
skipping SAM header line:	@SQ	SN:PGA_scaffold71395__1_contigs__length_38671	LN:38671
skipping SAM header line:	@SQ	SN:PGA_scaffold71397__1_contigs__length_30669	LN:30669
skipping SAM header line:	@SQ	SN:PGA_scaffold71455__1_contigs__length_57134	LN:57134
skipping SAM header line:	@SQ	SN:PGA_scaffold71488__1_contigs__length_33569	LN:33569
skipping SAM header line:	@SQ	SN:PGA_scaffold71520__1_contigs__length_33829	LN:33829
skipping SAM header line:	@SQ	SN:PGA_scaffold71528__1_contigs__length_39316	LN:39316
skipping SAM header line:	@SQ	SN:PGA_scaffold71579__1_contigs__length_45677	LN:45677
skipping SAM header line:	@SQ	SN:PGA_scaffold71639__1_contigs__length_32497	LN:32497
skipping SAM header line:	@SQ	SN:PGA_scaffold71656__1_contigs__length_30617	LN:30617
skipping SAM header line:	@SQ	SN:PGA_scaffold71660__1_contigs__length_43947	LN:43947
skipping SAM header line:	@SQ	SN:PGA_scaffold71671__1_contigs__length_34003	LN:34003
skipping SAM header line:	@SQ	SN:PGA_scaffold71686__1_contigs__length_54590	LN:54590
skipping SAM header line:	@SQ	SN:PGA_scaffold71700__1_contigs__length_34568	LN:34568
skipping SAM header line:	@SQ	SN:PGA_scaffold71705__1_contigs__length_48045	LN:48045
skipping SAM header line:	@SQ	SN:PGA_scaffold71710__1_contigs__length_40502	LN:40502
skipping SAM header line:	@SQ	SN:PGA_scaffold71755__1_contigs__length_38511	LN:38511
skipping SAM header line:	@SQ	SN:PGA_scaffold71779__1_contigs__length_40693	LN:40693
skipping SAM header line:	@SQ	SN:PGA_scaffold71795__1_contigs__length_34223	LN:34223
skipping SAM header line:	@SQ	SN:PGA_scaffold71803__1_contigs__length_46563	LN:46563
skipping SAM header line:	@SQ	SN:PGA_scaffold71804__1_contigs__length_43907	LN:43907
skipping SAM header line:	@SQ	SN:PGA_scaffold71811__1_contigs__length_63968	LN:63968
skipping SAM header line:	@SQ	SN:PGA_scaffold71834__1_contigs__length_41452	LN:41452
skipping SAM header line:	@SQ	SN:PGA_scaffold71860__1_contigs__length_59628	LN:59628
skipping SAM header line:	@SQ	SN:PGA_scaffold71861__1_contigs__length_58668	LN:58668
skipping SAM header line:	@SQ	SN:PGA_scaffold71870__1_contigs__length_62386	LN:62386
skipping SAM header line:	@SQ	SN:PGA_scaffold71876__1_contigs__length_78251	LN:78251
skipping SAM header line:	@SQ	SN:PGA_scaffold71891__1_contigs__length_32235	LN:32235
skipping SAM header line:	@SQ	SN:PGA_scaffold71897__1_contigs__length_31037	LN:31037
skipping SAM header line:	@SQ	SN:PGA_scaffold71912__1_contigs__length_30188	LN:30188
skipping SAM header line:	@SQ	SN:PGA_scaffold71942__1_contigs__length_31503	LN:31503
skipping SAM header line:	@SQ	SN:PGA_scaffold71943__1_contigs__length_31970	LN:31970
skipping SAM header line:	@SQ	SN:PGA_scaffold71993__1_contigs__length_39379	LN:39379
skipping SAM header line:	@SQ	SN:PGA_scaffold72048__1_contigs__length_41282	LN:41282
skipping SAM header line:	@SQ	SN:PGA_scaffold72054__1_contigs__length_45500	LN:45500
skipping SAM header line:	@SQ	SN:PGA_scaffold72055__1_contigs__length_38448	LN:38448
skipping SAM header line:	@SQ	SN:PGA_scaffold72064__1_contigs__length_49224	LN:49224
skipping SAM header line:	@SQ	SN:PGA_scaffold72068__1_contigs__length_34189	LN:34189
skipping SAM header line:	@SQ	SN:PGA_scaffold72069__1_contigs__length_33571	LN:33571
skipping SAM header line:	@SQ	SN:PGA_scaffold72098__1_contigs__length_32300	LN:32300
skipping SAM header line:	@SQ	SN:PGA_scaffold72102__1_contigs__length_48320	LN:48320
skipping SAM header line:	@SQ	SN:PGA_scaffold72124__1_contigs__length_40033	LN:40033
skipping SAM header line:	@SQ	SN:PGA_scaffold72126__1_contigs__length_39352	LN:39352
skipping SAM header line:	@SQ	SN:PGA_scaffold72140__1_contigs__length_32759	LN:32759
skipping SAM header line:	@SQ	SN:PGA_scaffold72146__1_contigs__length_30253	LN:30253
skipping SAM header line:	@SQ	SN:PGA_scaffold72158__1_contigs__length_30030	LN:30030
skipping SAM header line:	@SQ	SN:PGA_scaffold72192__1_contigs__length_36706	LN:36706
skipping SAM header line:	@SQ	SN:PGA_scaffold72203__1_contigs__length_32495	LN:32495
skipping SAM header line:	@SQ	SN:PGA_scaffold72213__1_contigs__length_50541	LN:50541
skipping SAM header line:	@SQ	SN:PGA_scaffold72225__1_contigs__length_34829	LN:34829
skipping SAM header line:	@SQ	SN:PGA_scaffold72252__1_contigs__length_37979	LN:37979
skipping SAM header line:	@SQ	SN:PGA_scaffold72282__1_contigs__length_53999	LN:53999
skipping SAM header line:	@SQ	SN:PGA_scaffold72348__1_contigs__length_34970	LN:34970
skipping SAM header line:	@SQ	SN:PGA_scaffold72363__1_contigs__length_51108	LN:51108
skipping SAM header line:	@SQ	SN:PGA_scaffold72392__1_contigs__length_64631	LN:64631
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skipping SAM header line:	@SQ	SN:PGA_scaffold72408__1_contigs__length_33946	LN:33946
skipping SAM header line:	@SQ	SN:PGA_scaffold72417__1_contigs__length_30564	LN:30564
skipping SAM header line:	@SQ	SN:PGA_scaffold72453__1_contigs__length_31506	LN:31506
skipping SAM header line:	@SQ	SN:PGA_scaffold72480__1_contigs__length_68331	LN:68331
skipping SAM header line:	@SQ	SN:PGA_scaffold72481__1_contigs__length_33703	LN:33703
skipping SAM header line:	@SQ	SN:PGA_scaffold72488__1_contigs__length_34233	LN:34233
skipping SAM header line:	@SQ	SN:PGA_scaffold72564__1_contigs__length_73514	LN:73514
skipping SAM header line:	@SQ	SN:PGA_scaffold72616__1_contigs__length_45338	LN:45338
skipping SAM header line:	@SQ	SN:PGA_scaffold72628__1_contigs__length_62046	LN:62046
skipping SAM header line:	@SQ	SN:PGA_scaffold72633__1_contigs__length_32334	LN:32334
skipping SAM header line:	@SQ	SN:PGA_scaffold72646__1_contigs__length_42408	LN:42408
skipping SAM header line:	@SQ	SN:PGA_scaffold72695__1_contigs__length_45668	LN:45668
skipping SAM header line:	@SQ	SN:PGA_scaffold72750__1_contigs__length_35341	LN:35341
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skipping SAM header line:	@SQ	SN:PGA_scaffold72781__1_contigs__length_40297	LN:40297
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skipping SAM header line:	@SQ	SN:PGA_scaffold73010__1_contigs__length_40655	LN:40655
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skipping SAM header line:	@SQ	SN:PGA_scaffold73264__1_contigs__length_37818	LN:37818
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skipping SAM header line:	@SQ	SN:PGA_scaffold83719__1_contigs__length_30091	LN:30091
skipping SAM header line:	@SQ	SN:PGA_scaffold83732__1_contigs__length_30091	LN:30091
skipping SAM header line:	@SQ	SN:PGA_scaffold83733__1_contigs__length_30091	LN:30091
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skipping SAM header line:	@SQ	SN:PGA_scaffold84571__1_contigs__length_34138	LN:34138
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skipping SAM header line:	@SQ	SN:PGA_scaffold86626__1_contigs__length_31971	LN:31971
skipping SAM header line:	@SQ	SN:PGA_scaffold86671__1_contigs__length_30077	LN:30077
skipping SAM header line:	@SQ	SN:PGA_scaffold86672__1_contigs__length_30077	LN:30077
skipping SAM header line:	@SQ	SN:PGA_scaffold87729__1_contigs__length_32896	LN:32896
skipping SAM header line:	@SQ	SN:PGA_scaffold87730__1_contigs__length_32896	LN:32896
skipping SAM header line:	@SQ	SN:PGA_scaffold87737__1_contigs__length_32896	LN:32896
skipping SAM header line:	@SQ	SN:PGA_scaffold87738__1_contigs__length_32896	LN:32896
skipping SAM header line:	@SQ	SN:PGA_scaffold87931__1_contigs__length_38482	LN:38482
skipping SAM header line:	@SQ	SN:PGA_scaffold87935__1_contigs__length_38482	LN:38482
skipping SAM header line:	@SQ	SN:PGA_scaffold92389__1_contigs__length_30012	LN:30012
skipping SAM header line:	@SQ	SN:PGA_scaffold92391__1_contigs__length_30012	LN:30012
skipping SAM header line:	@SQ	SN:PGA_scaffold97179__1_contigs__length_37332	LN:37332
skipping SAM header line:	@SQ	SN:PGA_scaffold97181__1_contigs__length_41673	LN:41673
skipping SAM header line:	@SQ	SN:PGA_scaffold97182__1_contigs__length_37332	LN:37332
skipping SAM header line:	@SQ	SN:PGA_scaffold97184__1_contigs__length_41673	LN:41673
skipping SAM header line:	@SQ	SN:PGA_scaffold99123__1_contigs__length_38482	LN:38482
skipping SAM header line:	@SQ	SN:PGA_scaffold99127__1_contigs__length_38482	LN:38482
skipping SAM header line:	@SQ	SN:PGA_scaffold99731__1_contigs__length_75786	LN:75786
skipping SAM header line:	@SQ	SN:PGA_scaffold99732__1_contigs__length_75786	LN:75786
skipping SAM header line:	@SQ	SN:PGA_scaffold99735__1_contigs__length_75899	LN:75899
skipping SAM header line:	@SQ	SN:PGA_scaffold99736__1_contigs__length_75899	LN:75899
skipping SAM header line:	@SQ	SN:PGA_scaffold101565__1_contigs__length_30499	LN:30499
skipping SAM header line:	@SQ	SN:PGA_scaffold101566__1_contigs__length_30495	LN:30495
skipping SAM header line:	@SQ	SN:PGA_scaffold101567__1_contigs__length_30499	LN:30499
skipping SAM header line:	@SQ	SN:PGA_scaffold101568__1_contigs__length_30495	LN:30495
skipping SAM header line:	@SQ	SN:PGA_scaffold106923__1_contigs__length_30932	LN:30932
skipping SAM header line:	@SQ	SN:PGA_scaffold106925__1_contigs__length_30932	LN:30932
skipping SAM header line:	@SQ	SN:PGA_scaffold108272__1_contigs__length_30942	LN:30942
skipping SAM header line:	@SQ	SN:PGA_scaffold108273__1_contigs__length_30942	LN:30942
skipping SAM header line:	@SQ	SN:PGA_scaffold117375__1_contigs__length_30942	LN:30942
skipping SAM header line:	@SQ	SN:PGA_scaffold117376__1_contigs__length_30942	LN:30942
skipping SAM header line:	@SQ	SN:PGA_scaffold119737__1_contigs__length_33110	LN:33110
skipping SAM header line:	@SQ	SN:PGA_scaffold119738__1_contigs__length_33110	LN:33110
skipping SAM header line:	@SQ	SN:PGA_scaffold119739__1_contigs__length_31617	LN:31617
skipping SAM header line:	@SQ	SN:PGA_scaffold119740__1_contigs__length_31617	LN:31617
skipping SAM header line:	@SQ	SN:PGA_scaffold120239__1_contigs__length_36781	LN:36781
skipping SAM header line:	@SQ	SN:PGA_scaffold120240__1_contigs__length_36781	LN:36781
skipping SAM header line:	@SQ	SN:PGA_scaffold120241__1_contigs__length_36781	LN:36781
skipping SAM header line:	@SQ	SN:PGA_scaffold120242__1_contigs__length_36781	LN:36781
skipping SAM header line:	@SQ	SN:PGA_scaffold120243__1_contigs__length_49726	LN:49726
skipping SAM header line:	@SQ	SN:PGA_scaffold120244__1_contigs__length_49726	LN:49726
skipping SAM header line:	@SQ	SN:PGA_scaffold120245__1_contigs__length_49726	LN:49726
skipping SAM header line:	@SQ	SN:PGA_scaffold120246__1_contigs__length_49726	LN:49726
skipping SAM header line:	@SQ	SN:PGA_scaffold154514__1_contigs__length_32931	LN:32931
skipping SAM header line:	@SQ	SN:PGA_scaffold154515__1_contigs__length_33776	LN:33776
skipping SAM header line:	@SQ	SN:PGA_scaffold154516__1_contigs__length_32931	LN:32931
skipping SAM header line:	@SQ	SN:PGA_scaffold154517__1_contigs__length_33776	LN:33776
skipping SAM header line:	@SQ	SN:PGA_scaffold171090__1_contigs__length_40008	LN:40008
skipping SAM header line:	@SQ	SN:PGA_scaffold171093__1_contigs__length_36014	LN:36014
skipping SAM header line:	@SQ	SN:PGA_scaffold171096__1_contigs__length_40008	LN:40008
skipping SAM header line:	@SQ	SN:PGA_scaffold171099__1_contigs__length_36014	LN:36014
skipping SAM header line:	@SQ	SN:PGA_scaffold178416__1_contigs__length_31685	LN:31685
skipping SAM header line:	@SQ	SN:PGA_scaffold178417__1_contigs__length_31685	LN:31685
skipping SAM header line:	@SQ	SN:PGA_scaffold194554__1_contigs__length_31716	LN:31716
skipping SAM header line:	@SQ	SN:PGA_scaffold194555__1_contigs__length_30975	LN:30975
skipping SAM header line:	@SQ	SN:PGA_scaffold194556__1_contigs__length_31716	LN:31716
skipping SAM header line:	@SQ	SN:PGA_scaffold194557__1_contigs__length_30975	LN:30975
skipping SAM header line:	@SQ	SN:PGA_scaffold255542__1_contigs__length_50114	LN:50114
skipping SAM header line:	@SQ	SN:PGA_scaffold255543__1_contigs__length_50117	LN:50117
skipping SAM header line:	@SQ	SN:PGA_scaffold255904__1_contigs__length_46780	LN:46780
skipping SAM header line:	@SQ	SN:PGA_scaffold255905__1_contigs__length_46780	LN:46780
skipping SAM header line:	@SQ	SN:PGA_scaffold256026__1_contigs__length_46675	LN:46675
skipping SAM header line:	@SQ	SN:PGA_scaffold256027__1_contigs__length_46675	LN:46675
skipping SAM header line:	@SQ	SN:PGA_scaffold256724__1_contigs__length_33824	LN:33824
skipping SAM header line:	@SQ	SN:PGA_scaffold256725__1_contigs__length_34249	LN:34249
skipping SAM header line:	@SQ	SN:PGA_scaffold256956__1_contigs__length_49629	LN:49629
skipping SAM header line:	@SQ	SN:PGA_scaffold256957__1_contigs__length_49632	LN:49632
skipping SAM header line:	@SQ	SN:PGA_scaffold259441__1_contigs__length_35838	LN:35838
skipping SAM header line:	@SQ	SN:PGA_scaffold259445__1_contigs__length_35838	LN:35838
skipping SAM header line:	@SQ	SN:PGA_scaffold260227__1_contigs__length_34249	LN:34249
skipping SAM header line:	@SQ	SN:PGA_scaffold260228__1_contigs__length_33824	LN:33824
skipping SAM header line:	@SQ	SN:PGA_scaffold263124__1_contigs__length_40816	LN:40816
skipping SAM header line:	@SQ	SN:PGA_scaffold263125__1_contigs__length_40816	LN:40816
skipping SAM header line:	@SQ	SN:PGA_scaffold263614__1_contigs__length_54943	LN:54943
skipping SAM header line:	@SQ	SN:PGA_scaffold263615__1_contigs__length_54943	LN:54943
skipping SAM header line:	@SQ	SN:PGA_scaffold263616__1_contigs__length_54622	LN:54622
skipping SAM header line:	@SQ	SN:PGA_scaffold263617__1_contigs__length_54622	LN:54622
skipping SAM header line:	@SQ	SN:PGA_scaffold263622__1_contigs__length_39587	LN:39587
skipping SAM header line:	@SQ	SN:PGA_scaffold263623__1_contigs__length_39587	LN:39587
skipping SAM header line:	@SQ	SN:PGA_scaffold263624__1_contigs__length_40134	LN:40134
skipping SAM header line:	@SQ	SN:PGA_scaffold263625__1_contigs__length_40134	LN:40134
skipping SAM header line:	@SQ	SN:PGA_scaffold268914__1_contigs__length_31931	LN:31931
skipping SAM header line:	@SQ	SN:PGA_scaffold268915__1_contigs__length_31931	LN:31931
skipping SAM header line:	@SQ	SN:PGA_scaffold271760__1_contigs__length_33464	LN:33464
skipping SAM header line:	@SQ	SN:PGA_scaffold271761__1_contigs__length_33464	LN:33464
skipping SAM header line:	@SQ	SN:PGA_scaffold272940__1_contigs__length_35972	LN:35972
skipping SAM header line:	@SQ	SN:PGA_scaffold272941__1_contigs__length_35972	LN:35972
skipping SAM header line:	@SQ	SN:PGA_scaffold272956__1_contigs__length_35996	LN:35996
skipping SAM header line:	@SQ	SN:PGA_scaffold272959__1_contigs__length_35996	LN:35996
skipping SAM header line:	@SQ	SN:PGA_scaffold273988__1_contigs__length_31624	LN:31624
skipping SAM header line:	@SQ	SN:PGA_scaffold273989__1_contigs__length_31624	LN:31624
skipping SAM header line:	@SQ	SN:PGA_scaffold277662__1_contigs__length_30051	LN:30051
skipping SAM header line:	@SQ	SN:PGA_scaffold277663__1_contigs__length_30051	LN:30051
skipping SAM header line:	@SQ	SN:PGA_scaffold278160__1_contigs__length_30268	LN:30268
skipping SAM header line:	@SQ	SN:PGA_scaffold278161__1_contigs__length_30273	LN:30273
skipping SAM header line:	@SQ	SN:PGA_scaffold278162__1_contigs__length_30222	LN:30222
skipping SAM header line:	@SQ	SN:PGA_scaffold278163__1_contigs__length_30222	LN:30222
skipping SAM header line:	@SQ	SN:PGA_scaffold278180__1_contigs__length_33717	LN:33717
skipping SAM header line:	@SQ	SN:PGA_scaffold278181__1_contigs__length_33649	LN:33649
skipping SAM header line:	@SQ	SN:PGA_scaffold278184__1_contigs__length_33717	LN:33717
skipping SAM header line:	@SQ	SN:PGA_scaffold278185__1_contigs__length_33649	LN:33649
skipping SAM header line:	@SQ	SN:PGA_scaffold279338__1_contigs__length_30392	LN:30392
skipping SAM header line:	@SQ	SN:PGA_scaffold279341__1_contigs__length_30392	LN:30392
skipping SAM header line:	@SQ	SN:PGA_scaffold279343__1_contigs__length_30179	LN:30179
skipping SAM header line:	@SQ	SN:PGA_scaffold279345__1_contigs__length_30179	LN:30179
skipping SAM header line:	@SQ	SN:PGA_scaffold279502__1_contigs__length_48118	LN:48118
skipping SAM header line:	@SQ	SN:PGA_scaffold279503__1_contigs__length_48118	LN:48118
skipping SAM header line:	@SQ	SN:PGA_scaffold279506__1_contigs__length_48108	LN:48108
skipping SAM header line:	@SQ	SN:PGA_scaffold279509__1_contigs__length_48108	LN:48108
skipping SAM header line:	@SQ	SN:PGA_scaffold279842__1_contigs__length_34049	LN:34049
skipping SAM header line:	@SQ	SN:PGA_scaffold279843__1_contigs__length_34049	LN:34049
skipping SAM header line:	@SQ	SN:PGA_scaffold279844__1_contigs__length_34085	LN:34085
skipping SAM header line:	@SQ	SN:PGA_scaffold279845__1_contigs__length_34085	LN:34085
skipping SAM header line:	@SQ	SN:PGA_scaffold280226__1_contigs__length_31931	LN:31931
skipping SAM header line:	@SQ	SN:PGA_scaffold280227__1_contigs__length_31931	LN:31931
skipping SAM header line:	@SQ	SN:PGA_scaffold287834__1_contigs__length_32587	LN:32587
skipping SAM header line:	@SQ	SN:PGA_scaffold287836__1_contigs__length_32587	LN:32587
skipping SAM header line:	@SQ	SN:PGA_scaffold288596__1_contigs__length_32587	LN:32587
skipping SAM header line:	@SQ	SN:PGA_scaffold288598__1_contigs__length_32587	LN:32587
skipping SAM header line:	@SQ	SN:PGA_scaffold289678__1_contigs__length_30759	LN:30759
skipping SAM header line:	@SQ	SN:PGA_scaffold289679__1_contigs__length_30809	LN:30809
skipping SAM header line:	@SQ	SN:PGA_scaffold289680__1_contigs__length_30759	LN:30759
skipping SAM header line:	@SQ	SN:PGA_scaffold289681__1_contigs__length_30809	LN:30809
skipping SAM header line:	@SQ	SN:PGA_scaffold290060__1_contigs__length_49220	LN:49220
skipping SAM header line:	@SQ	SN:PGA_scaffold290061__1_contigs__length_48647	LN:48647
skipping SAM header line:	@SQ	SN:PGA_scaffold290062__1_contigs__length_49220	LN:49220
skipping SAM header line:	@SQ	SN:PGA_scaffold290063__1_contigs__length_48647	LN:48647
skipping SAM header line:	@SQ	SN:PGA_scaffold290128__1_contigs__length_40039	LN:40039
skipping SAM header line:	@SQ	SN:PGA_scaffold290129__1_contigs__length_40036	LN:40036
skipping SAM header line:	@SQ	SN:PGA_scaffold290130__1_contigs__length_40039	LN:40039
skipping SAM header line:	@SQ	SN:PGA_scaffold290131__1_contigs__length_40036	LN:40036
skipping SAM header line:	@SQ	SN:PGA_scaffold290350__1_contigs__length_46122	LN:46122
skipping SAM header line:	@SQ	SN:PGA_scaffold290351__1_contigs__length_46262	LN:46262
skipping SAM header line:	@SQ	SN:PGA_scaffold290352__1_contigs__length_46102	LN:46102
skipping SAM header line:	@SQ	SN:PGA_scaffold290353__1_contigs__length_46242	LN:46242
skipping SAM header line:	@SQ	SN:PGA_scaffold291982__1_contigs__length_41032	LN:41032
skipping SAM header line:	@SQ	SN:PGA_scaffold291983__1_contigs__length_31951	LN:31951
skipping SAM header line:	@SQ	SN:PGA_scaffold291984__1_contigs__length_41032	LN:41032
skipping SAM header line:	@SQ	SN:PGA_scaffold291985__1_contigs__length_31951	LN:31951
skipping SAM header line:	@SQ	SN:PGA_scaffold292612__1_contigs__length_51603	LN:51603
skipping SAM header line:	@SQ	SN:PGA_scaffold292613__1_contigs__length_51603	LN:51603
skipping SAM header line:	@SQ	SN:PGA_scaffold292818__1_contigs__length_41015	LN:41015
skipping SAM header line:	@SQ	SN:PGA_scaffold292819__1_contigs__length_41015	LN:41015
skipping SAM header line:	@SQ	SN:PGA_scaffold293874__1_contigs__length_43357	LN:43357
skipping SAM header line:	@SQ	SN:PGA_scaffold293875__1_contigs__length_43356	LN:43356
skipping SAM header line:	@SQ	SN:PGA_scaffold293876__1_contigs__length_43357	LN:43357
skipping SAM header line:	@SQ	SN:PGA_scaffold293877__1_contigs__length_43356	LN:43356
skipping SAM header line:	@SQ	SN:PGA_scaffold294324__1_contigs__length_47529	LN:47529
skipping SAM header line:	@SQ	SN:PGA_scaffold294325__1_contigs__length_47529	LN:47529
skipping SAM header line:	@SQ	SN:PGA_scaffold294326__1_contigs__length_47768	LN:47768
skipping SAM header line:	@SQ	SN:PGA_scaffold294327__1_contigs__length_47768	LN:47768
skipping SAM header line:	@SQ	SN:PGA_scaffold295690__1_contigs__length_31107	LN:31107
skipping SAM header line:	@SQ	SN:PGA_scaffold295691__1_contigs__length_30960	LN:30960
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skipping SAM header line:	@SQ	SN:PGA_scaffold296350__1_contigs__length_51555	LN:51555
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skipping SAM header line:	@SQ	SN:PGA_scaffold296682__1_contigs__length_45988	LN:45988
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skipping SAM header line:	@SQ	SN:PGA_scaffold306097__1_contigs__length_31666	LN:31666
skipping SAM header line:	@SQ	SN:PGA_scaffold306282__1_contigs__length_31666	LN:31666
skipping SAM header line:	@SQ	SN:PGA_scaffold306283__1_contigs__length_31666	LN:31666
skipping SAM header line:	@SQ	SN:PGA_scaffold306572__1_contigs__length_38821	LN:38821
skipping SAM header line:	@SQ	SN:PGA_scaffold306573__1_contigs__length_38366	LN:38366
skipping SAM header line:	@SQ	SN:PGA_scaffold306574__1_contigs__length_38821	LN:38821
skipping SAM header line:	@SQ	SN:PGA_scaffold306575__1_contigs__length_38366	LN:38366
skipping SAM header line:	@SQ	SN:PGA_scaffold306702__1_contigs__length_37956	LN:37956
skipping SAM header line:	@SQ	SN:PGA_scaffold306703__1_contigs__length_37956	LN:37956
skipping SAM header line:	@SQ	SN:PGA_scaffold306704__1_contigs__length_37914	LN:37914
skipping SAM header line:	@SQ	SN:PGA_scaffold306705__1_contigs__length_37914	LN:37914
skipping SAM header line:	@SQ	SN:PGA_scaffold307456__1_contigs__length_30060	LN:30060
skipping SAM header line:	@SQ	SN:PGA_scaffold307457__1_contigs__length_30061	LN:30061
skipping SAM header line:	@SQ	SN:PGA_scaffold307458__1_contigs__length_30274	LN:30274
skipping SAM header line:	@SQ	SN:PGA_scaffold307459__1_contigs__length_30274	LN:30274
skipping SAM header line:	@SQ	SN:PGA_scaffold307602__1_contigs__length_32295	LN:32295
skipping SAM header line:	@SQ	SN:PGA_scaffold307603__1_contigs__length_32295	LN:32295
skipping SAM header line:	@SQ	SN:PGA_scaffold307610__1_contigs__length_32591	LN:32591
skipping SAM header line:	@SQ	SN:PGA_scaffold307611__1_contigs__length_32591	LN:32591
skipping SAM header line:	@SQ	SN:PGA_scaffold311590__1_contigs__length_54301	LN:54301
skipping SAM header line:	@SQ	SN:PGA_scaffold311591__1_contigs__length_54301	LN:54301
skipping SAM header line:	@SQ	SN:PGA_scaffold311592__1_contigs__length_54301	LN:54301
skipping SAM header line:	@SQ	SN:PGA_scaffold311593__1_contigs__length_54301	LN:54301
skipping SAM header line:	@SQ	SN:PGA_scaffold313622__2_contigs__length_3622724	LN:3622724
skipping SAM header line:	@SQ	SN:PGA_scaffold313623__2_contigs__length_20066706	LN:20066706
skipping SAM header line:	@SQ	SN:PGA_scaffold313624__3_contigs__length_27250344	LN:27250344
skipping SAM header line:	@SQ	SN:PGA_scaffold313625__2_contigs__length_12042408	LN:12042408
skipping SAM header line:	@SQ	SN:PGA_scaffold313626__2_contigs__length_8966709	LN:8966709
skipping SAM header line:	@SQ	SN:PGA_scaffold313627__4_contigs__length_17799638	LN:17799638
skipping SAM header line:	@SQ	SN:PGA_scaffold313628__2_contigs__length_7549490	LN:7549490
skipping SAM header line:	@SQ	SN:PGA_scaffold313629__1_contigs__length_500100	LN:500100
skipping SAM header line:	@SQ	SN:PGA_scaffold313630__2_contigs__length_6194822	LN:6194822
skipping SAM header line:	@SQ	SN:PGA_scaffold313631__2_contigs__length_8242674	LN:8242674
skipping SAM header line:	@SQ	SN:PGA_scaffold313632__1_contigs__length_455018	LN:455018
skipping SAM header line:	@SQ	SN:PGA_scaffold313633__4_contigs__length_7437738	LN:7437738
skipping SAM header line:	@SQ	SN:PGA_scaffold313634__13_contigs__length_20839065	LN:20839065
skipping SAM header line:	@SQ	SN:PGA_scaffold313635__1_contigs__length_2323757	LN:2323757
skipping SAM header line:	@SQ	SN:PGA_scaffold313636__6_contigs__length_11037725	LN:11037725
skipping SAM header line:	@SQ	SN:PGA_scaffold313637__2_contigs__length_12400363	LN:12400363
skipping SAM header line:	@SQ	SN:PGA_scaffold313638__1_contigs__length_1158482	LN:1158482
skipping SAM header line:	@SQ	SN:PGA_scaffold313639__1_contigs__length_1164331	LN:1164331
skipping SAM header line:	@SQ	SN:PGA_scaffold313640__2_contigs__length_5040630	LN:5040630
skipping SAM header line:	@SQ	SN:PGA_scaffold313641__2_contigs__length_3215659	LN:3215659
skipping SAM header line:	@SQ	SN:PGA_scaffold313642__1_contigs__length_1742392	LN:1742392
skipping SAM header line:	@SQ	SN:PGA_scaffold313643__3_contigs__length_4636261	LN:4636261
skipping SAM header line:	@SQ	SN:PGA_scaffold313644__2_contigs__length_3100009	LN:3100009
skipping SAM header line:	@SQ	SN:PGA_scaffold313645__2_contigs__length_2213805	LN:2213805
skipping SAM header line:	@SQ	SN:PGA_scaffold313646__4_contigs__length_6274882	LN:6274882
skipping SAM header line:	@SQ	SN:PGA_scaffold313647__2_contigs__length_5689983	LN:5689983
skipping SAM header line:	@SQ	SN:PGA_scaffold313648__2_contigs__length_3786466	LN:3786466
skipping SAM header line:	@SQ	SN:PGA_scaffold313649__2_contigs__length_2716785	LN:2716785
skipping SAM header line:	@PG	ID:Bismark	VN:v0.19.0	CL:"bismark --path_to_bowtie /gscratch/srlab/programs/bowtie2-2.3.4.1-linux-x86_64 --samtools_path /gscratch/srlab/programs/samtools-1.9 --score_min L,0,-1.2 -I 60 -p 28 --genome /gscratch/srlab/strigg/data/Pgenr/Pgenr_070_30K/ -1 /gscratch/srlab/strigg/data/Pgenr/FASTQS/data_for_genome_comparison/EPI-113_S30_L005_R1_001_val_1.fq.gz -2 /gscratch/srlab/strigg/data/Pgenr/FASTQS/data_for_genome_comparison/EPI-113_S30_L005_R2_001_val_2.fq.gz -o /gscratch/srlab/strigg/analyses/20190214_30K"
Processed lines: 500000
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Finished processing child process. Exiting..
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Finished processing child process. Exiting..
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Now waiting for all child processes to complete
Finished processing child process. Exiting..

Merging individual splitting reports into overall report: '/gscratch/srlab/strigg/analyses/20190214_30K/EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated_splitting_report.txt'
Merging from these individual files:

Processed 12281446 lines in total
Total number of methylation call strings processed: 24562892

Final Cytosine Methylation Report
=================================
Total number of C's analysed:	283891949

Total methylated C's in CpG context:	9770479
Total methylated C's in CHG context:	1412552
Total methylated C's in CHH context:	3093013

Total C to T conversions in CpG context:	28571961
Total C to T conversions in CHG context:	57535825
Total C to T conversions in CHH context:	183508119

C methylated in CpG context:	25.5%
C methylated in CHG context:	2.4%
C methylated in CHH context:	1.7%



Merging individual M-bias reports into overall M-bias statistics from these 28 individual files:
Determining maximum read lengths for M-Bias plots
Maximum read length of Read 1: 101
Maximum read length of Read 2: 99

Perl module GD::Graph::lines is not installed, skipping drawing M-bias plots (only writing out M-bias plot table)
Determining maximum read lengths for M-Bias plots
Maximum read length of Read 1: 101
Maximum read length of Read 2: 99

Perl module GD::Graph::lines is not installed, skipping drawing M-bias plots (only writing out M-bias plot table)
Deleting unused files ...

/gscratch/srlab/strigg/analyses/20190214_30K/CpG_OT_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt contains data ->	kept
/gscratch/srlab/strigg/analyses/20190214_30K/CpG_CTOT_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt was empty ->	deleted
/gscratch/srlab/strigg/analyses/20190214_30K/CpG_CTOB_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt was empty ->	deleted
/gscratch/srlab/strigg/analyses/20190214_30K/CpG_OB_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt contains data ->	kept
/gscratch/srlab/strigg/analyses/20190214_30K/CHG_OT_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt contains data ->	kept
/gscratch/srlab/strigg/analyses/20190214_30K/CHG_CTOT_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt was empty ->	deleted
/gscratch/srlab/strigg/analyses/20190214_30K/CHG_CTOB_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt was empty ->	deleted
/gscratch/srlab/strigg/analyses/20190214_30K/CHG_OB_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt contains data ->	kept
/gscratch/srlab/strigg/analyses/20190214_30K/CHH_OT_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt contains data ->	kept
/gscratch/srlab/strigg/analyses/20190214_30K/CHH_CTOT_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt was empty ->	deleted
/gscratch/srlab/strigg/analyses/20190214_30K/CHH_CTOB_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt was empty ->	deleted
/gscratch/srlab/strigg/analyses/20190214_30K/CHH_OB_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt contains data ->	kept


Using these input files: /gscratch/srlab/strigg/analyses/20190214_30K/CpG_OT_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt /gscratch/srlab/strigg/analyses/20190214_30K/CpG_OB_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt /gscratch/srlab/strigg/analyses/20190214_30K/CHG_OT_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt /gscratch/srlab/strigg/analyses/20190214_30K/CHG_OB_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt /gscratch/srlab/strigg/analyses/20190214_30K/CHH_OT_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt /gscratch/srlab/strigg/analyses/20190214_30K/CHH_OB_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt

Summary of parameters for bismark2bedGraph conversion:
======================================================
bedGraph output:		EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bedGraph.gz
output directory:		>/gscratch/srlab/strigg/analyses/20190214_30K/<
remove whitespaces:		no
CX context:			no (CpG context only, default)
No-header selected:		no
Sorting method:			Unix sort-based (smaller memory footprint, but slower)
Sort buffer size:		2G
Coverage threshold:		1
=============================================================================
Methylation information will now be written into a bedGraph and coverage file
=============================================================================

Using the following files as Input:
Writing bedGraph to file: EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bedGraph.gz
Also writing out a coverage file including counts methylated and unmethylated residues to file: EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bismark.cov.gz

Changed directory to /gscratch/srlab/strigg/analyses/20190214_30K/
The genome of interest was specified to contain gazillions of chromosomes or scaffolds. Merging all input files and sorting everything in memory instead of writing out individual chromosome files...
Writing all merged methylation calls to temp file EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bedGraph.gz.methylation_calls.merged

Finished writing methylation calls from CpG_OT_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt to merged temp file
Finished writing methylation calls from CpG_OB_EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt to merged temp file
Sorting input file EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bedGraph.gz.methylation_calls.merged by positions (using -S of 2G)
Successfully deleted the temporary input file EPI-113_S30_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bedGraph.gz.methylation_calls.merged

Finished BedGraph conversion ...

Checking file >>/gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam<< for signs of file truncation...

...passed!
Writing result file containing methylation information for C in CpG context from the original top strand to /gscratch/srlab/strigg/analyses/20190214_30K/CpG_OT_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CpG context from the complementary to original top strand to /gscratch/srlab/strigg/analyses/20190214_30K/CpG_CTOT_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CpG context from the complementary to original bottom strand to /gscratch/srlab/strigg/analyses/20190214_30K/CpG_CTOB_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CpG context from the original bottom strand to /gscratch/srlab/strigg/analyses/20190214_30K/CpG_OB_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt

Writing result file containing methylation information for C in CHG context from the original top strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHG_OT_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CHG context from the complementary to original top strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHG_CTOT_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CHG context from the complementary to original bottom strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHG_CTOB_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CHG context from the original bottom strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHG_OB_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt

Writing result file containing methylation information for C in CHH context from the original top strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHH_OT_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CHH context from the complementary to original top strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHH_CTOT_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CHH context from the complementary to original bottom strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHH_CTOB_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CHH context from the original bottom strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHH_OB_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.
Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.
Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.
skipping SAM header line:	@HD	VN:1.0	SO:unsorted
skipping SAM header line:	@SQ	SN:PGA_scaffold1__77_contigs__length_89643857	LN:89643857
skipping SAM header line:	@SQ	SN:PGA_scaffold2__36_contigs__length_69596280	LN:69596280
skipping SAM header line:	@SQ	SN:PGA_scaffold3__111_contigs__length_57743597	LN:57743597
skipping SAM header line:	@SQ	SN:PGA_scaffold4__129_contigs__length_65288255	LN:65288255
skipping SAM header line:	@SQ	SN:PGA_scaffold5__109_contigs__length_67248332	LN:67248332
skipping SAM header line:	@SQ	SN:PGA_scaffold6__104_contigs__length_61759565	LN:61759565
skipping SAM header line:	@SQ	SN:PGA_scaffold7__69_contigs__length_43120122	LN:43120122
skipping SAM header line:	@SQ	SN:PGA_scaffold8__63_contigs__length_61151155	LN:61151155
skipping SAM header line:	@SQ	SN:PGA_scaffold9__45_contigs__length_38581958	LN:38581958
skipping SAM header line:	@SQ	SN:PGA_scaffold10__49_contigs__length_53961475	LN:53961475
skipping SAM header line:	@SQ	SN:PGA_scaffold11__79_contigs__length_51449921	LN:51449921
skipping SAM header line:	@SQ	SN:PGA_scaffold12__71_contigs__length_50438331	LN:50438331
skipping SAM header line:	@SQ	SN:PGA_scaffold13__52_contigs__length_44396874	LN:44396874
skipping SAM header line:	@SQ	SN:PGA_scaffold14__91_contigs__length_45393038	LN:45393038
skipping SAM header line:	@SQ	SN:PGA_scaffold15__101_contigs__length_47938513	LN:47938513
skipping SAM header line:	@SQ	SN:PGA_scaffold16__33_contigs__length_31980953	LN:31980953
skipping SAM header line:	@SQ	SN:PGA_scaffold17__51_contigs__length_34923512	LN:34923512
skipping SAM header line:	@SQ	SN:PGA_scaffold18__69_contigs__length_27737463	LN:27737463
skipping SAM header line:	@SQ	SN:PGA_scaffold100__1_contigs__length_37850	LN:37850
skipping SAM header line:	@SQ	SN:PGA_scaffold101__1_contigs__length_30584	LN:30584
skipping SAM header line:	@SQ	SN:PGA_scaffold102__1_contigs__length_45787	LN:45787
skipping SAM header line:	@SQ	SN:PGA_scaffold104__1_contigs__length_44353	LN:44353
skipping SAM header line:	@SQ	SN:PGA_scaffold105__1_contigs__length_50812	LN:50812
skipping SAM header line:	@SQ	SN:PGA_scaffold108__1_contigs__length_37373	LN:37373
skipping SAM header line:	@SQ	SN:PGA_scaffold109__1_contigs__length_31266	LN:31266
skipping SAM header line:	@SQ	SN:PGA_scaffold117__1_contigs__length_33965	LN:33965
skipping SAM header line:	@SQ	SN:PGA_scaffold118__1_contigs__length_78741	LN:78741
skipping SAM header line:	@SQ	SN:PGA_scaffold120__1_contigs__length_36635	LN:36635
skipping SAM header line:	@SQ	SN:PGA_scaffold122__1_contigs__length_44468	LN:44468
skipping SAM header line:	@SQ	SN:PGA_scaffold123__1_contigs__length_30311	LN:30311
skipping SAM header line:	@SQ	SN:PGA_scaffold124__1_contigs__length_35932	LN:35932
skipping SAM header line:	@SQ	SN:PGA_scaffold126__1_contigs__length_40575	LN:40575
skipping SAM header line:	@SQ	SN:PGA_scaffold130__1_contigs__length_89923	LN:89923
skipping SAM header line:	@SQ	SN:PGA_scaffold142__1_contigs__length_38690	LN:38690
skipping SAM header line:	@SQ	SN:PGA_scaffold143__1_contigs__length_40513	LN:40513
skipping SAM header line:	@SQ	SN:PGA_scaffold149__1_contigs__length_50731	LN:50731
skipping SAM header line:	@SQ	SN:PGA_scaffold156__1_contigs__length_34729	LN:34729
skipping SAM header line:	@SQ	SN:PGA_scaffold160__1_contigs__length_78292	LN:78292
skipping SAM header line:	@SQ	SN:PGA_scaffold162__1_contigs__length_44264	LN:44264
skipping SAM header line:	@SQ	SN:PGA_scaffold169__1_contigs__length_31898	LN:31898
skipping SAM header line:	@SQ	SN:PGA_scaffold170__1_contigs__length_35798	LN:35798
skipping SAM header line:	@SQ	SN:PGA_scaffold176__1_contigs__length_36388	LN:36388
skipping SAM header line:	@SQ	SN:PGA_scaffold183__1_contigs__length_41623	LN:41623
skipping SAM header line:	@SQ	SN:PGA_scaffold187__1_contigs__length_34318	LN:34318
skipping SAM header line:	@SQ	SN:PGA_scaffold192__1_contigs__length_44989	LN:44989
skipping SAM header line:	@SQ	SN:PGA_scaffold195__1_contigs__length_32961	LN:32961
skipping SAM header line:	@SQ	SN:PGA_scaffold198__1_contigs__length_42303	LN:42303
skipping SAM header line:	@SQ	SN:PGA_scaffold204__1_contigs__length_55275	LN:55275
skipping SAM header line:	@SQ	SN:PGA_scaffold208__1_contigs__length_57345	LN:57345
skipping SAM header line:	@SQ	SN:PGA_scaffold210__1_contigs__length_33808	LN:33808
skipping SAM header line:	@SQ	SN:PGA_scaffold218__1_contigs__length_46309	LN:46309
skipping SAM header line:	@SQ	SN:PGA_scaffold219__1_contigs__length_36659	LN:36659
skipping SAM header line:	@SQ	SN:PGA_scaffold222__1_contigs__length_32402	LN:32402
skipping SAM header line:	@SQ	SN:PGA_scaffold224__1_contigs__length_62707	LN:62707
skipping SAM header line:	@SQ	SN:PGA_scaffold227__1_contigs__length_76686	LN:76686
skipping SAM header line:	@SQ	SN:PGA_scaffold232__1_contigs__length_52758	LN:52758
skipping SAM header line:	@SQ	SN:PGA_scaffold233__1_contigs__length_37710	LN:37710
skipping SAM header line:	@SQ	SN:PGA_scaffold241__1_contigs__length_58227	LN:58227
skipping SAM header line:	@SQ	SN:PGA_scaffold248__1_contigs__length_42538	LN:42538
skipping SAM header line:	@SQ	SN:PGA_scaffold250__1_contigs__length_58865	LN:58865
skipping SAM header line:	@SQ	SN:PGA_scaffold252__1_contigs__length_58739	LN:58739
skipping SAM header line:	@SQ	SN:PGA_scaffold258__1_contigs__length_1101056	LN:1101056
skipping SAM header line:	@SQ	SN:PGA_scaffold263__1_contigs__length_39634	LN:39634
skipping SAM header line:	@SQ	SN:PGA_scaffold266__1_contigs__length_45904	LN:45904
skipping SAM header line:	@SQ	SN:PGA_scaffold271__1_contigs__length_30650	LN:30650
skipping SAM header line:	@SQ	SN:PGA_scaffold278__1_contigs__length_30505	LN:30505
skipping SAM header line:	@SQ	SN:PGA_scaffold298__1_contigs__length_47389	LN:47389
skipping SAM header line:	@SQ	SN:PGA_scaffold302__1_contigs__length_34996	LN:34996
skipping SAM header line:	@SQ	SN:PGA_scaffold312__1_contigs__length_71876	LN:71876
skipping SAM header line:	@SQ	SN:PGA_scaffold314__1_contigs__length_44723	LN:44723
skipping SAM header line:	@SQ	SN:PGA_scaffold323__1_contigs__length_1799026	LN:1799026
skipping SAM header line:	@SQ	SN:PGA_scaffold331__1_contigs__length_34410	LN:34410
skipping SAM header line:	@SQ	SN:PGA_scaffold335__1_contigs__length_41679	LN:41679
skipping SAM header line:	@SQ	SN:PGA_scaffold358__1_contigs__length_61761	LN:61761
skipping SAM header line:	@SQ	SN:PGA_scaffold362__1_contigs__length_32622	LN:32622
skipping SAM header line:	@SQ	SN:PGA_scaffold365__1_contigs__length_48417	LN:48417
skipping SAM header line:	@SQ	SN:PGA_scaffold366__1_contigs__length_31395	LN:31395
skipping SAM header line:	@SQ	SN:PGA_scaffold373__1_contigs__length_38341	LN:38341
skipping SAM header line:	@SQ	SN:PGA_scaffold390__1_contigs__length_33430	LN:33430
skipping SAM header line:	@SQ	SN:PGA_scaffold391__1_contigs__length_51723	LN:51723
skipping SAM header line:	@SQ	SN:PGA_scaffold396__1_contigs__length_39796	LN:39796
skipping SAM header line:	@SQ	SN:PGA_scaffold401__1_contigs__length_32839	LN:32839
skipping SAM header line:	@SQ	SN:PGA_scaffold407__1_contigs__length_92797	LN:92797
skipping SAM header line:	@SQ	SN:PGA_scaffold410__1_contigs__length_34202	LN:34202
skipping SAM header line:	@SQ	SN:PGA_scaffold413__1_contigs__length_35409	LN:35409
skipping SAM header line:	@SQ	SN:PGA_scaffold414__1_contigs__length_32258	LN:32258
skipping SAM header line:	@SQ	SN:PGA_scaffold416__1_contigs__length_69472	LN:69472
skipping SAM header line:	@SQ	SN:PGA_scaffold419__1_contigs__length_39080	LN:39080
skipping SAM header line:	@SQ	SN:PGA_scaffold420__1_contigs__length_38263	LN:38263
skipping SAM header line:	@SQ	SN:PGA_scaffold421__1_contigs__length_46195	LN:46195
skipping SAM header line:	@SQ	SN:PGA_scaffold427__1_contigs__length_35190	LN:35190
skipping SAM header line:	@SQ	SN:PGA_scaffold430__1_contigs__length_75279	LN:75279
skipping SAM header line:	@SQ	SN:PGA_scaffold434__1_contigs__length_41015	LN:41015
skipping SAM header line:	@SQ	SN:PGA_scaffold436__1_contigs__length_43688	LN:43688
skipping SAM header line:	@SQ	SN:PGA_scaffold443__1_contigs__length_72424	LN:72424
skipping SAM header line:	@SQ	SN:PGA_scaffold447__1_contigs__length_52487	LN:52487
skipping SAM header line:	@SQ	SN:PGA_scaffold448__1_contigs__length_63737	LN:63737
skipping SAM header line:	@SQ	SN:PGA_scaffold449__1_contigs__length_39915	LN:39915
skipping SAM header line:	@SQ	SN:PGA_scaffold451__1_contigs__length_35032	LN:35032
skipping SAM header line:	@SQ	SN:PGA_scaffold456__1_contigs__length_65608	LN:65608
skipping SAM header line:	@SQ	SN:PGA_scaffold460__1_contigs__length_33778	LN:33778
skipping SAM header line:	@SQ	SN:PGA_scaffold462__1_contigs__length_40118	LN:40118
skipping SAM header line:	@SQ	SN:PGA_scaffold464__1_contigs__length_37366	LN:37366
skipping SAM header line:	@SQ	SN:PGA_scaffold466__1_contigs__length_54285	LN:54285
skipping SAM header line:	@SQ	SN:PGA_scaffold474__1_contigs__length_53531	LN:53531
skipping SAM header line:	@SQ	SN:PGA_scaffold477__1_contigs__length_34283	LN:34283
skipping SAM header line:	@SQ	SN:PGA_scaffold490__1_contigs__length_38803	LN:38803
skipping SAM header line:	@SQ	SN:PGA_scaffold492__1_contigs__length_55775	LN:55775
skipping SAM header line:	@SQ	SN:PGA_scaffold497__1_contigs__length_30850	LN:30850
skipping SAM header line:	@SQ	SN:PGA_scaffold499__1_contigs__length_33044	LN:33044
skipping SAM header line:	@SQ	SN:PGA_scaffold500__1_contigs__length_54033	LN:54033
skipping SAM header line:	@SQ	SN:PGA_scaffold505__1_contigs__length_53330	LN:53330
skipping SAM header line:	@SQ	SN:PGA_scaffold508__1_contigs__length_47880	LN:47880
skipping SAM header line:	@SQ	SN:PGA_scaffold510__1_contigs__length_35714	LN:35714
skipping SAM header line:	@SQ	SN:PGA_scaffold512__1_contigs__length_43118	LN:43118
skipping SAM header line:	@SQ	SN:PGA_scaffold513__1_contigs__length_104957	LN:104957
skipping SAM header line:	@SQ	SN:PGA_scaffold536__1_contigs__length_43921	LN:43921
skipping SAM header line:	@SQ	SN:PGA_scaffold537__1_contigs__length_41859	LN:41859
skipping SAM header line:	@SQ	SN:PGA_scaffold540__1_contigs__length_36898	LN:36898
skipping SAM header line:	@SQ	SN:PGA_scaffold575__1_contigs__length_36508	LN:36508
skipping SAM header line:	@SQ	SN:PGA_scaffold589__1_contigs__length_33182	LN:33182
skipping SAM header line:	@SQ	SN:PGA_scaffold594__1_contigs__length_105065	LN:105065
skipping SAM header line:	@SQ	SN:PGA_scaffold598__1_contigs__length_41658	LN:41658
skipping SAM header line:	@SQ	SN:PGA_scaffold599__1_contigs__length_32117	LN:32117
skipping SAM header line:	@SQ	SN:PGA_scaffold615__1_contigs__length_31178	LN:31178
skipping SAM header line:	@SQ	SN:PGA_scaffold628__1_contigs__length_30879	LN:30879
skipping SAM header line:	@SQ	SN:PGA_scaffold642__1_contigs__length_34464	LN:34464
skipping SAM header line:	@SQ	SN:PGA_scaffold710__1_contigs__length_48694	LN:48694
skipping SAM header line:	@SQ	SN:PGA_scaffold718__1_contigs__length_989392	LN:989392
skipping SAM header line:	@SQ	SN:PGA_scaffold810__1_contigs__length_34885	LN:34885
skipping SAM header line:	@SQ	SN:PGA_scaffold822__1_contigs__length_46947	LN:46947
skipping SAM header line:	@SQ	SN:PGA_scaffold866__1_contigs__length_31993	LN:31993
skipping SAM header line:	@SQ	SN:PGA_scaffold13207__1_contigs__length_30412	LN:30412
skipping SAM header line:	@SQ	SN:PGA_scaffold20466__1_contigs__length_31058	LN:31058
skipping SAM header line:	@SQ	SN:PGA_scaffold20487__1_contigs__length_31060	LN:31060
skipping SAM header line:	@SQ	SN:PGA_scaffold20490__1_contigs__length_34645	LN:34645
skipping SAM header line:	@SQ	SN:PGA_scaffold20505__1_contigs__length_43966	LN:43966
skipping SAM header line:	@SQ	SN:PGA_scaffold23274__1_contigs__length_30357	LN:30357
skipping SAM header line:	@SQ	SN:PGA_scaffold23393__1_contigs__length_41334	LN:41334
skipping SAM header line:	@SQ	SN:PGA_scaffold23498__1_contigs__length_34289	LN:34289
skipping SAM header line:	@SQ	SN:PGA_scaffold23717__1_contigs__length_32333	LN:32333
skipping SAM header line:	@SQ	SN:PGA_scaffold23925__1_contigs__length_34739	LN:34739
skipping SAM header line:	@SQ	SN:PGA_scaffold23979__1_contigs__length_33231	LN:33231
skipping SAM header line:	@SQ	SN:PGA_scaffold24419__1_contigs__length_30110	LN:30110
skipping SAM header line:	@SQ	SN:PGA_scaffold26405__1_contigs__length_34931	LN:34931
skipping SAM header line:	@SQ	SN:PGA_scaffold27028__1_contigs__length_34525	LN:34525
skipping SAM header line:	@SQ	SN:PGA_scaffold29133__1_contigs__length_46329	LN:46329
skipping SAM header line:	@SQ	SN:PGA_scaffold29275__1_contigs__length_41210	LN:41210
skipping SAM header line:	@SQ	SN:PGA_scaffold30719__1_contigs__length_39357	LN:39357
skipping SAM header line:	@SQ	SN:PGA_scaffold31234__1_contigs__length_38472	LN:38472
skipping SAM header line:	@SQ	SN:PGA_scaffold31642__1_contigs__length_33616	LN:33616
skipping SAM header line:	@SQ	SN:PGA_scaffold31747__1_contigs__length_34728	LN:34728
skipping SAM header line:	@SQ	SN:PGA_scaffold31751__1_contigs__length_33342	LN:33342
skipping SAM header line:	@SQ	SN:PGA_scaffold32046__1_contigs__length_31565	LN:31565
skipping SAM header line:	@SQ	SN:PGA_scaffold32514__1_contigs__length_31990	LN:31990
skipping SAM header line:	@SQ	SN:PGA_scaffold35022__1_contigs__length_52621	LN:52621
skipping SAM header line:	@SQ	SN:PGA_scaffold36484__1_contigs__length_32484	LN:32484
skipping SAM header line:	@SQ	SN:PGA_scaffold36907__1_contigs__length_32852	LN:32852
skipping SAM header line:	@SQ	SN:PGA_scaffold37613__1_contigs__length_33568	LN:33568
skipping SAM header line:	@SQ	SN:PGA_scaffold37640__1_contigs__length_36417	LN:36417
skipping SAM header line:	@SQ	SN:PGA_scaffold38417__1_contigs__length_39025	LN:39025
skipping SAM header line:	@SQ	SN:PGA_scaffold38421__1_contigs__length_31964	LN:31964
skipping SAM header line:	@SQ	SN:PGA_scaffold38637__1_contigs__length_46051	LN:46051
skipping SAM header line:	@SQ	SN:PGA_scaffold38663__1_contigs__length_38625	LN:38625
skipping SAM header line:	@SQ	SN:PGA_scaffold39043__1_contigs__length_49862	LN:49862
skipping SAM header line:	@SQ	SN:PGA_scaffold39349__1_contigs__length_30049	LN:30049
skipping SAM header line:	@SQ	SN:PGA_scaffold39386__1_contigs__length_46727	LN:46727
skipping SAM header line:	@SQ	SN:PGA_scaffold40903__1_contigs__length_36654	LN:36654
skipping SAM header line:	@SQ	SN:PGA_scaffold40909__1_contigs__length_44981	LN:44981
skipping SAM header line:	@SQ	SN:PGA_scaffold40911__1_contigs__length_35761	LN:35761
skipping SAM header line:	@SQ	SN:PGA_scaffold41096__1_contigs__length_40847	LN:40847
skipping SAM header line:	@SQ	SN:PGA_scaffold41270__1_contigs__length_55807	LN:55807
skipping SAM header line:	@SQ	SN:PGA_scaffold41708__1_contigs__length_34929	LN:34929
skipping SAM header line:	@SQ	SN:PGA_scaffold41937__1_contigs__length_32645	LN:32645
skipping SAM header line:	@SQ	SN:PGA_scaffold42052__1_contigs__length_36385	LN:36385
skipping SAM header line:	@SQ	SN:PGA_scaffold42329__1_contigs__length_34583	LN:34583
skipping SAM header line:	@SQ	SN:PGA_scaffold42779__1_contigs__length_35983	LN:35983
skipping SAM header line:	@SQ	SN:PGA_scaffold42780__1_contigs__length_33043	LN:33043
skipping SAM header line:	@SQ	SN:PGA_scaffold43063__1_contigs__length_32087	LN:32087
skipping SAM header line:	@SQ	SN:PGA_scaffold43224__1_contigs__length_38120	LN:38120
skipping SAM header line:	@SQ	SN:PGA_scaffold43893__1_contigs__length_39100	LN:39100
skipping SAM header line:	@SQ	SN:PGA_scaffold43927__1_contigs__length_31151	LN:31151
skipping SAM header line:	@SQ	SN:PGA_scaffold43938__1_contigs__length_34922	LN:34922
skipping SAM header line:	@SQ	SN:PGA_scaffold43940__1_contigs__length_31112	LN:31112
skipping SAM header line:	@SQ	SN:PGA_scaffold43956__1_contigs__length_34824	LN:34824
skipping SAM header line:	@SQ	SN:PGA_scaffold43997__1_contigs__length_84241	LN:84241
skipping SAM header line:	@SQ	SN:PGA_scaffold44004__1_contigs__length_56426	LN:56426
skipping SAM header line:	@SQ	SN:PGA_scaffold44021__1_contigs__length_51740	LN:51740
skipping SAM header line:	@SQ	SN:PGA_scaffold44022__1_contigs__length_41140	LN:41140
skipping SAM header line:	@SQ	SN:PGA_scaffold44073__1_contigs__length_36469	LN:36469
skipping SAM header line:	@SQ	SN:PGA_scaffold44113__1_contigs__length_30304	LN:30304
skipping SAM header line:	@SQ	SN:PGA_scaffold44287__1_contigs__length_54447	LN:54447
skipping SAM header line:	@SQ	SN:PGA_scaffold44969__1_contigs__length_31983	LN:31983
skipping SAM header line:	@SQ	SN:PGA_scaffold45030__1_contigs__length_42687	LN:42687
skipping SAM header line:	@SQ	SN:PGA_scaffold45039__1_contigs__length_54558	LN:54558
skipping SAM header line:	@SQ	SN:PGA_scaffold45044__1_contigs__length_42665	LN:42665
skipping SAM header line:	@SQ	SN:PGA_scaffold45169__1_contigs__length_30495	LN:30495
skipping SAM header line:	@SQ	SN:PGA_scaffold45599__1_contigs__length_33507	LN:33507
skipping SAM header line:	@SQ	SN:PGA_scaffold45621__1_contigs__length_37806	LN:37806
skipping SAM header line:	@SQ	SN:PGA_scaffold45713__1_contigs__length_33502	LN:33502
skipping SAM header line:	@SQ	SN:PGA_scaffold45732__1_contigs__length_31304	LN:31304
skipping SAM header line:	@SQ	SN:PGA_scaffold45838__1_contigs__length_39783	LN:39783
skipping SAM header line:	@SQ	SN:PGA_scaffold46006__1_contigs__length_30342	LN:30342
skipping SAM header line:	@SQ	SN:PGA_scaffold46016__1_contigs__length_47336	LN:47336
skipping SAM header line:	@SQ	SN:PGA_scaffold46017__1_contigs__length_32344	LN:32344
skipping SAM header line:	@SQ	SN:PGA_scaffold46021__1_contigs__length_31410	LN:31410
skipping SAM header line:	@SQ	SN:PGA_scaffold46073__1_contigs__length_36458	LN:36458
skipping SAM header line:	@SQ	SN:PGA_scaffold46077__1_contigs__length_35474	LN:35474
skipping SAM header line:	@SQ	SN:PGA_scaffold46091__1_contigs__length_30400	LN:30400
skipping SAM header line:	@SQ	SN:PGA_scaffold46108__1_contigs__length_30532	LN:30532
skipping SAM header line:	@SQ	SN:PGA_scaffold46139__1_contigs__length_39029	LN:39029
skipping SAM header line:	@SQ	SN:PGA_scaffold46144__1_contigs__length_30043	LN:30043
skipping SAM header line:	@SQ	SN:PGA_scaffold46228__1_contigs__length_30260	LN:30260
skipping SAM header line:	@SQ	SN:PGA_scaffold46916__1_contigs__length_36995	LN:36995
skipping SAM header line:	@SQ	SN:PGA_scaffold46924__1_contigs__length_41954	LN:41954
skipping SAM header line:	@SQ	SN:PGA_scaffold48118__1_contigs__length_30764	LN:30764
skipping SAM header line:	@SQ	SN:PGA_scaffold48491__1_contigs__length_44805	LN:44805
skipping SAM header line:	@SQ	SN:PGA_scaffold48498__1_contigs__length_32874	LN:32874
skipping SAM header line:	@SQ	SN:PGA_scaffold48627__1_contigs__length_30570	LN:30570
skipping SAM header line:	@SQ	SN:PGA_scaffold48700__1_contigs__length_41489	LN:41489
skipping SAM header line:	@SQ	SN:PGA_scaffold48890__1_contigs__length_36820	LN:36820
skipping SAM header line:	@SQ	SN:PGA_scaffold49049__1_contigs__length_44862	LN:44862
skipping SAM header line:	@SQ	SN:PGA_scaffold49052__1_contigs__length_30066	LN:30066
skipping SAM header line:	@SQ	SN:PGA_scaffold49140__1_contigs__length_41465	LN:41465
skipping SAM header line:	@SQ	SN:PGA_scaffold49269__1_contigs__length_58629	LN:58629
skipping SAM header line:	@SQ	SN:PGA_scaffold49272__1_contigs__length_48462	LN:48462
skipping SAM header line:	@SQ	SN:PGA_scaffold49286__1_contigs__length_32480	LN:32480
skipping SAM header line:	@SQ	SN:PGA_scaffold49327__1_contigs__length_31386	LN:31386
skipping SAM header line:	@SQ	SN:PGA_scaffold49337__1_contigs__length_44952	LN:44952
skipping SAM header line:	@SQ	SN:PGA_scaffold49402__1_contigs__length_32985	LN:32985
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skipping SAM header line:	@SQ	SN:PGA_scaffold49448__1_contigs__length_40249	LN:40249
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skipping SAM header line:	@SQ	SN:PGA_scaffold49609__1_contigs__length_30653	LN:30653
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skipping SAM header line:	@SQ	SN:PGA_scaffold50268__1_contigs__length_48869	LN:48869
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skipping SAM header line:	@SQ	SN:PGA_scaffold53995__1_contigs__length_36326	LN:36326
skipping SAM header line:	@SQ	SN:PGA_scaffold54015__1_contigs__length_30408	LN:30408
skipping SAM header line:	@SQ	SN:PGA_scaffold54205__1_contigs__length_38797	LN:38797
skipping SAM header line:	@SQ	SN:PGA_scaffold54342__1_contigs__length_60814	LN:60814
skipping SAM header line:	@SQ	SN:PGA_scaffold54901__1_contigs__length_37309	LN:37309
skipping SAM header line:	@SQ	SN:PGA_scaffold54965__1_contigs__length_38374	LN:38374
skipping SAM header line:	@SQ	SN:PGA_scaffold54999__1_contigs__length_31291	LN:31291
skipping SAM header line:	@SQ	SN:PGA_scaffold55037__1_contigs__length_32580	LN:32580
skipping SAM header line:	@SQ	SN:PGA_scaffold55083__1_contigs__length_45318	LN:45318
skipping SAM header line:	@SQ	SN:PGA_scaffold55088__1_contigs__length_30665	LN:30665
skipping SAM header line:	@SQ	SN:PGA_scaffold55135__1_contigs__length_48442	LN:48442
skipping SAM header line:	@SQ	SN:PGA_scaffold55199__1_contigs__length_37150	LN:37150
skipping SAM header line:	@SQ	SN:PGA_scaffold55265__1_contigs__length_43075	LN:43075
skipping SAM header line:	@SQ	SN:PGA_scaffold55278__1_contigs__length_54668	LN:54668
skipping SAM header line:	@SQ	SN:PGA_scaffold55296__1_contigs__length_51595	LN:51595
skipping SAM header line:	@SQ	SN:PGA_scaffold55314__1_contigs__length_35295	LN:35295
skipping SAM header line:	@SQ	SN:PGA_scaffold55345__1_contigs__length_69732	LN:69732
skipping SAM header line:	@SQ	SN:PGA_scaffold55359__1_contigs__length_33158	LN:33158
skipping SAM header line:	@SQ	SN:PGA_scaffold55375__1_contigs__length_51625	LN:51625
skipping SAM header line:	@SQ	SN:PGA_scaffold55378__1_contigs__length_34882	LN:34882
skipping SAM header line:	@SQ	SN:PGA_scaffold55381__1_contigs__length_30600	LN:30600
skipping SAM header line:	@SQ	SN:PGA_scaffold55711__1_contigs__length_39787	LN:39787
skipping SAM header line:	@SQ	SN:PGA_scaffold55714__1_contigs__length_36372	LN:36372
skipping SAM header line:	@SQ	SN:PGA_scaffold55745__1_contigs__length_39718	LN:39718
skipping SAM header line:	@SQ	SN:PGA_scaffold55747__1_contigs__length_42692	LN:42692
skipping SAM header line:	@SQ	SN:PGA_scaffold55855__1_contigs__length_34489	LN:34489
skipping SAM header line:	@SQ	SN:PGA_scaffold55860__1_contigs__length_50662	LN:50662
skipping SAM header line:	@SQ	SN:PGA_scaffold55979__1_contigs__length_33616	LN:33616
skipping SAM header line:	@SQ	SN:PGA_scaffold56091__1_contigs__length_39544	LN:39544
skipping SAM header line:	@SQ	SN:PGA_scaffold56365__1_contigs__length_56315	LN:56315
skipping SAM header line:	@SQ	SN:PGA_scaffold56375__1_contigs__length_33113	LN:33113
skipping SAM header line:	@SQ	SN:PGA_scaffold56620__1_contigs__length_30848	LN:30848
skipping SAM header line:	@SQ	SN:PGA_scaffold56625__1_contigs__length_66358	LN:66358
skipping SAM header line:	@SQ	SN:PGA_scaffold56635__1_contigs__length_34227	LN:34227
skipping SAM header line:	@SQ	SN:PGA_scaffold56650__1_contigs__length_33575	LN:33575
skipping SAM header line:	@SQ	SN:PGA_scaffold56652__1_contigs__length_44611	LN:44611
skipping SAM header line:	@SQ	SN:PGA_scaffold56671__1_contigs__length_32469	LN:32469
skipping SAM header line:	@SQ	SN:PGA_scaffold56691__1_contigs__length_31095	LN:31095
skipping SAM header line:	@SQ	SN:PGA_scaffold56720__1_contigs__length_40419	LN:40419
skipping SAM header line:	@SQ	SN:PGA_scaffold56722__1_contigs__length_46018	LN:46018
skipping SAM header line:	@SQ	SN:PGA_scaffold56916__1_contigs__length_32078	LN:32078
skipping SAM header line:	@SQ	SN:PGA_scaffold56946__1_contigs__length_36592	LN:36592
skipping SAM header line:	@SQ	SN:PGA_scaffold57070__1_contigs__length_35859	LN:35859
skipping SAM header line:	@SQ	SN:PGA_scaffold57215__1_contigs__length_43048	LN:43048
skipping SAM header line:	@SQ	SN:PGA_scaffold57298__1_contigs__length_31957	LN:31957
skipping SAM header line:	@SQ	SN:PGA_scaffold57301__1_contigs__length_34452	LN:34452
skipping SAM header line:	@SQ	SN:PGA_scaffold57398__1_contigs__length_30770	LN:30770
skipping SAM header line:	@SQ	SN:PGA_scaffold57419__1_contigs__length_56657	LN:56657
skipping SAM header line:	@SQ	SN:PGA_scaffold57435__1_contigs__length_39348	LN:39348
skipping SAM header line:	@SQ	SN:PGA_scaffold57479__1_contigs__length_34907	LN:34907
skipping SAM header line:	@SQ	SN:PGA_scaffold57490__1_contigs__length_31663	LN:31663
skipping SAM header line:	@SQ	SN:PGA_scaffold57492__1_contigs__length_41689	LN:41689
skipping SAM header line:	@SQ	SN:PGA_scaffold57510__1_contigs__length_39178	LN:39178
skipping SAM header line:	@SQ	SN:PGA_scaffold57520__1_contigs__length_56780	LN:56780
skipping SAM header line:	@SQ	SN:PGA_scaffold57524__1_contigs__length_36257	LN:36257
skipping SAM header line:	@SQ	SN:PGA_scaffold57529__1_contigs__length_33001	LN:33001
skipping SAM header line:	@SQ	SN:PGA_scaffold57546__1_contigs__length_35410	LN:35410
skipping SAM header line:	@SQ	SN:PGA_scaffold57558__1_contigs__length_35635	LN:35635
skipping SAM header line:	@SQ	SN:PGA_scaffold57561__1_contigs__length_35319	LN:35319
skipping SAM header line:	@SQ	SN:PGA_scaffold57706__1_contigs__length_40854	LN:40854
skipping SAM header line:	@SQ	SN:PGA_scaffold57710__1_contigs__length_31661	LN:31661
skipping SAM header line:	@SQ	SN:PGA_scaffold57711__1_contigs__length_39713	LN:39713
skipping SAM header line:	@SQ	SN:PGA_scaffold57717__1_contigs__length_50311	LN:50311
skipping SAM header line:	@SQ	SN:PGA_scaffold57865__1_contigs__length_37453	LN:37453
skipping SAM header line:	@SQ	SN:PGA_scaffold57884__1_contigs__length_38303	LN:38303
skipping SAM header line:	@SQ	SN:PGA_scaffold57901__1_contigs__length_33405	LN:33405
skipping SAM header line:	@SQ	SN:PGA_scaffold58076__1_contigs__length_32943	LN:32943
skipping SAM header line:	@SQ	SN:PGA_scaffold58238__1_contigs__length_68373	LN:68373
skipping SAM header line:	@SQ	SN:PGA_scaffold58264__1_contigs__length_33661	LN:33661
skipping SAM header line:	@SQ	SN:PGA_scaffold58284__1_contigs__length_33826	LN:33826
skipping SAM header line:	@SQ	SN:PGA_scaffold58361__1_contigs__length_52751	LN:52751
skipping SAM header line:	@SQ	SN:PGA_scaffold58366__1_contigs__length_37326	LN:37326
skipping SAM header line:	@SQ	SN:PGA_scaffold58382__1_contigs__length_41713	LN:41713
skipping SAM header line:	@SQ	SN:PGA_scaffold58383__1_contigs__length_44366	LN:44366
skipping SAM header line:	@SQ	SN:PGA_scaffold58388__1_contigs__length_32850	LN:32850
skipping SAM header line:	@SQ	SN:PGA_scaffold58393__1_contigs__length_33434	LN:33434
skipping SAM header line:	@SQ	SN:PGA_scaffold58403__1_contigs__length_40472	LN:40472
skipping SAM header line:	@SQ	SN:PGA_scaffold58406__1_contigs__length_39981	LN:39981
skipping SAM header line:	@SQ	SN:PGA_scaffold58408__1_contigs__length_51130	LN:51130
skipping SAM header line:	@SQ	SN:PGA_scaffold58414__1_contigs__length_31140	LN:31140
skipping SAM header line:	@SQ	SN:PGA_scaffold58423__1_contigs__length_47054	LN:47054
skipping SAM header line:	@SQ	SN:PGA_scaffold58431__1_contigs__length_30555	LN:30555
skipping SAM header line:	@SQ	SN:PGA_scaffold58439__1_contigs__length_35544	LN:35544
skipping SAM header line:	@SQ	SN:PGA_scaffold58443__1_contigs__length_34264	LN:34264
skipping SAM header line:	@SQ	SN:PGA_scaffold58450__1_contigs__length_35181	LN:35181
skipping SAM header line:	@SQ	SN:PGA_scaffold58637__1_contigs__length_30774	LN:30774
skipping SAM header line:	@SQ	SN:PGA_scaffold58638__1_contigs__length_36895	LN:36895
skipping SAM header line:	@SQ	SN:PGA_scaffold58640__1_contigs__length_35005	LN:35005
skipping SAM header line:	@SQ	SN:PGA_scaffold58676__1_contigs__length_42740	LN:42740
skipping SAM header line:	@SQ	SN:PGA_scaffold58700__1_contigs__length_38161	LN:38161
skipping SAM header line:	@SQ	SN:PGA_scaffold58712__1_contigs__length_43972	LN:43972
skipping SAM header line:	@SQ	SN:PGA_scaffold58749__1_contigs__length_42553	LN:42553
skipping SAM header line:	@SQ	SN:PGA_scaffold58976__1_contigs__length_32077	LN:32077
skipping SAM header line:	@SQ	SN:PGA_scaffold58984__1_contigs__length_30766	LN:30766
skipping SAM header line:	@SQ	SN:PGA_scaffold59041__1_contigs__length_49211	LN:49211
skipping SAM header line:	@SQ	SN:PGA_scaffold59054__1_contigs__length_30586	LN:30586
skipping SAM header line:	@SQ	SN:PGA_scaffold59056__1_contigs__length_33360	LN:33360
skipping SAM header line:	@SQ	SN:PGA_scaffold59166__1_contigs__length_30875	LN:30875
skipping SAM header line:	@SQ	SN:PGA_scaffold59171__1_contigs__length_43122	LN:43122
skipping SAM header line:	@SQ	SN:PGA_scaffold59190__1_contigs__length_41883	LN:41883
skipping SAM header line:	@SQ	SN:PGA_scaffold59377__1_contigs__length_38396	LN:38396
skipping SAM header line:	@SQ	SN:PGA_scaffold59388__1_contigs__length_56034	LN:56034
skipping SAM header line:	@SQ	SN:PGA_scaffold59390__1_contigs__length_40508	LN:40508
skipping SAM header line:	@SQ	SN:PGA_scaffold59404__1_contigs__length_40337	LN:40337
skipping SAM header line:	@SQ	SN:PGA_scaffold59464__1_contigs__length_36159	LN:36159
skipping SAM header line:	@SQ	SN:PGA_scaffold59592__1_contigs__length_38404	LN:38404
skipping SAM header line:	@SQ	SN:PGA_scaffold59604__1_contigs__length_46284	LN:46284
skipping SAM header line:	@SQ	SN:PGA_scaffold59620__1_contigs__length_43279	LN:43279
skipping SAM header line:	@SQ	SN:PGA_scaffold59626__1_contigs__length_59819	LN:59819
skipping SAM header line:	@SQ	SN:PGA_scaffold59638__1_contigs__length_36226	LN:36226
skipping SAM header line:	@SQ	SN:PGA_scaffold59686__1_contigs__length_38175	LN:38175
skipping SAM header line:	@SQ	SN:PGA_scaffold59687__1_contigs__length_34469	LN:34469
skipping SAM header line:	@SQ	SN:PGA_scaffold59721__1_contigs__length_42511	LN:42511
skipping SAM header line:	@SQ	SN:PGA_scaffold59723__1_contigs__length_39806	LN:39806
skipping SAM header line:	@SQ	SN:PGA_scaffold59727__1_contigs__length_31211	LN:31211
skipping SAM header line:	@SQ	SN:PGA_scaffold59729__1_contigs__length_32301	LN:32301
skipping SAM header line:	@SQ	SN:PGA_scaffold59750__1_contigs__length_36894	LN:36894
skipping SAM header line:	@SQ	SN:PGA_scaffold59858__1_contigs__length_39712	LN:39712
skipping SAM header line:	@SQ	SN:PGA_scaffold59872__1_contigs__length_51346	LN:51346
skipping SAM header line:	@SQ	SN:PGA_scaffold59907__1_contigs__length_30865	LN:30865
skipping SAM header line:	@SQ	SN:PGA_scaffold59933__1_contigs__length_43116	LN:43116
skipping SAM header line:	@SQ	SN:PGA_scaffold59943__1_contigs__length_33685	LN:33685
skipping SAM header line:	@SQ	SN:PGA_scaffold59992__1_contigs__length_30411	LN:30411
skipping SAM header line:	@SQ	SN:PGA_scaffold60009__1_contigs__length_34709	LN:34709
skipping SAM header line:	@SQ	SN:PGA_scaffold60084__1_contigs__length_34630	LN:34630
skipping SAM header line:	@SQ	SN:PGA_scaffold60127__1_contigs__length_40895	LN:40895
skipping SAM header line:	@SQ	SN:PGA_scaffold60139__1_contigs__length_40879	LN:40879
skipping SAM header line:	@SQ	SN:PGA_scaffold60216__1_contigs__length_40599	LN:40599
skipping SAM header line:	@SQ	SN:PGA_scaffold60236__1_contigs__length_37394	LN:37394
skipping SAM header line:	@SQ	SN:PGA_scaffold60271__1_contigs__length_33335	LN:33335
skipping SAM header line:	@SQ	SN:PGA_scaffold60279__1_contigs__length_36536	LN:36536
skipping SAM header line:	@SQ	SN:PGA_scaffold60286__1_contigs__length_31103	LN:31103
skipping SAM header line:	@SQ	SN:PGA_scaffold60289__1_contigs__length_78725	LN:78725
skipping SAM header line:	@SQ	SN:PGA_scaffold60299__1_contigs__length_52400	LN:52400
skipping SAM header line:	@SQ	SN:PGA_scaffold60318__1_contigs__length_36247	LN:36247
skipping SAM header line:	@SQ	SN:PGA_scaffold60412__1_contigs__length_79597	LN:79597
skipping SAM header line:	@SQ	SN:PGA_scaffold60413__1_contigs__length_42267	LN:42267
skipping SAM header line:	@SQ	SN:PGA_scaffold60414__1_contigs__length_49107	LN:49107
skipping SAM header line:	@SQ	SN:PGA_scaffold60441__1_contigs__length_43835	LN:43835
skipping SAM header line:	@SQ	SN:PGA_scaffold60488__1_contigs__length_50761	LN:50761
skipping SAM header line:	@SQ	SN:PGA_scaffold60490__1_contigs__length_43435	LN:43435
skipping SAM header line:	@SQ	SN:PGA_scaffold60615__1_contigs__length_40286	LN:40286
skipping SAM header line:	@SQ	SN:PGA_scaffold60652__1_contigs__length_52273	LN:52273
skipping SAM header line:	@SQ	SN:PGA_scaffold60657__1_contigs__length_45209	LN:45209
skipping SAM header line:	@SQ	SN:PGA_scaffold60699__1_contigs__length_33841	LN:33841
skipping SAM header line:	@SQ	SN:PGA_scaffold60701__1_contigs__length_53170	LN:53170
skipping SAM header line:	@SQ	SN:PGA_scaffold60731__1_contigs__length_32159	LN:32159
skipping SAM header line:	@SQ	SN:PGA_scaffold60733__1_contigs__length_38523	LN:38523
skipping SAM header line:	@SQ	SN:PGA_scaffold60734__1_contigs__length_32626	LN:32626
skipping SAM header line:	@SQ	SN:PGA_scaffold60739__1_contigs__length_33797	LN:33797
skipping SAM header line:	@SQ	SN:PGA_scaffold60760__1_contigs__length_45282	LN:45282
skipping SAM header line:	@SQ	SN:PGA_scaffold60835__1_contigs__length_31290	LN:31290
skipping SAM header line:	@SQ	SN:PGA_scaffold60836__1_contigs__length_40835	LN:40835
skipping SAM header line:	@SQ	SN:PGA_scaffold60844__1_contigs__length_38798	LN:38798
skipping SAM header line:	@SQ	SN:PGA_scaffold60846__1_contigs__length_40793	LN:40793
skipping SAM header line:	@SQ	SN:PGA_scaffold60985__1_contigs__length_43490	LN:43490
skipping SAM header line:	@SQ	SN:PGA_scaffold61013__1_contigs__length_40757	LN:40757
skipping SAM header line:	@SQ	SN:PGA_scaffold61037__1_contigs__length_31360	LN:31360
skipping SAM header line:	@SQ	SN:PGA_scaffold61040__1_contigs__length_32690	LN:32690
skipping SAM header line:	@SQ	SN:PGA_scaffold61046__1_contigs__length_41502	LN:41502
skipping SAM header line:	@SQ	SN:PGA_scaffold61063__1_contigs__length_47605	LN:47605
skipping SAM header line:	@SQ	SN:PGA_scaffold61072__1_contigs__length_33361	LN:33361
skipping SAM header line:	@SQ	SN:PGA_scaffold61096__1_contigs__length_30606	LN:30606
skipping SAM header line:	@SQ	SN:PGA_scaffold61099__1_contigs__length_49058	LN:49058
skipping SAM header line:	@SQ	SN:PGA_scaffold61103__1_contigs__length_37635	LN:37635
skipping SAM header line:	@SQ	SN:PGA_scaffold61168__1_contigs__length_30806	LN:30806
skipping SAM header line:	@SQ	SN:PGA_scaffold61190__1_contigs__length_38143	LN:38143
skipping SAM header line:	@SQ	SN:PGA_scaffold61242__1_contigs__length_43427	LN:43427
skipping SAM header line:	@SQ	SN:PGA_scaffold61273__1_contigs__length_40703	LN:40703
skipping SAM header line:	@SQ	SN:PGA_scaffold61280__1_contigs__length_40374	LN:40374
skipping SAM header line:	@SQ	SN:PGA_scaffold61312__1_contigs__length_51905	LN:51905
skipping SAM header line:	@SQ	SN:PGA_scaffold61335__1_contigs__length_32633	LN:32633
skipping SAM header line:	@SQ	SN:PGA_scaffold61337__1_contigs__length_43505	LN:43505
skipping SAM header line:	@SQ	SN:PGA_scaffold61343__1_contigs__length_35738	LN:35738
skipping SAM header line:	@SQ	SN:PGA_scaffold61363__1_contigs__length_43856	LN:43856
skipping SAM header line:	@SQ	SN:PGA_scaffold61364__1_contigs__length_58674	LN:58674
skipping SAM header line:	@SQ	SN:PGA_scaffold61370__1_contigs__length_51160	LN:51160
skipping SAM header line:	@SQ	SN:PGA_scaffold61374__1_contigs__length_38921	LN:38921
skipping SAM header line:	@SQ	SN:PGA_scaffold61375__1_contigs__length_39623	LN:39623
skipping SAM header line:	@SQ	SN:PGA_scaffold61388__1_contigs__length_45689	LN:45689
skipping SAM header line:	@SQ	SN:PGA_scaffold61392__1_contigs__length_57213	LN:57213
skipping SAM header line:	@SQ	SN:PGA_scaffold61445__1_contigs__length_33748	LN:33748
skipping SAM header line:	@SQ	SN:PGA_scaffold61589__1_contigs__length_43181	LN:43181
skipping SAM header line:	@SQ	SN:PGA_scaffold61592__1_contigs__length_35695	LN:35695
skipping SAM header line:	@SQ	SN:PGA_scaffold61615__1_contigs__length_40934	LN:40934
skipping SAM header line:	@SQ	SN:PGA_scaffold61619__1_contigs__length_33825	LN:33825
skipping SAM header line:	@SQ	SN:PGA_scaffold61628__1_contigs__length_48494	LN:48494
skipping SAM header line:	@SQ	SN:PGA_scaffold61636__1_contigs__length_47931	LN:47931
skipping SAM header line:	@SQ	SN:PGA_scaffold61640__1_contigs__length_57604	LN:57604
skipping SAM header line:	@SQ	SN:PGA_scaffold61646__1_contigs__length_55250	LN:55250
skipping SAM header line:	@SQ	SN:PGA_scaffold61650__1_contigs__length_31696	LN:31696
skipping SAM header line:	@SQ	SN:PGA_scaffold61652__1_contigs__length_58886	LN:58886
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skipping SAM header line:	@SQ	SN:PGA_scaffold61706__1_contigs__length_34820	LN:34820
skipping SAM header line:	@SQ	SN:PGA_scaffold61707__1_contigs__length_41227	LN:41227
skipping SAM header line:	@SQ	SN:PGA_scaffold61777__1_contigs__length_45224	LN:45224
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skipping SAM header line:	@SQ	SN:PGA_scaffold61852__1_contigs__length_31557	LN:31557
skipping SAM header line:	@SQ	SN:PGA_scaffold61853__1_contigs__length_48778	LN:48778
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skipping SAM header line:	@SQ	SN:PGA_scaffold61884__1_contigs__length_46735	LN:46735
skipping SAM header line:	@SQ	SN:PGA_scaffold61888__1_contigs__length_43188	LN:43188
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skipping SAM header line:	@SQ	SN:PGA_scaffold62098__1_contigs__length_77920	LN:77920
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skipping SAM header line:	@SQ	SN:PGA_scaffold62186__1_contigs__length_43446	LN:43446
skipping SAM header line:	@SQ	SN:PGA_scaffold62192__1_contigs__length_56278	LN:56278
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skipping SAM header line:	@SQ	SN:PGA_scaffold62206__1_contigs__length_67303	LN:67303
skipping SAM header line:	@SQ	SN:PGA_scaffold62224__1_contigs__length_74638	LN:74638
skipping SAM header line:	@SQ	SN:PGA_scaffold62226__1_contigs__length_86027	LN:86027
skipping SAM header line:	@SQ	SN:PGA_scaffold62319__1_contigs__length_36955	LN:36955
skipping SAM header line:	@SQ	SN:PGA_scaffold62364__1_contigs__length_54322	LN:54322
skipping SAM header line:	@SQ	SN:PGA_scaffold62403__1_contigs__length_38564	LN:38564
skipping SAM header line:	@SQ	SN:PGA_scaffold62435__1_contigs__length_59037	LN:59037
skipping SAM header line:	@SQ	SN:PGA_scaffold62443__1_contigs__length_39499	LN:39499
skipping SAM header line:	@SQ	SN:PGA_scaffold62455__1_contigs__length_63754	LN:63754
skipping SAM header line:	@SQ	SN:PGA_scaffold62459__1_contigs__length_42719	LN:42719
skipping SAM header line:	@SQ	SN:PGA_scaffold62475__1_contigs__length_44394	LN:44394
skipping SAM header line:	@SQ	SN:PGA_scaffold62477__1_contigs__length_40507	LN:40507
skipping SAM header line:	@SQ	SN:PGA_scaffold62478__1_contigs__length_48273	LN:48273
skipping SAM header line:	@SQ	SN:PGA_scaffold62492__1_contigs__length_31702	LN:31702
skipping SAM header line:	@SQ	SN:PGA_scaffold62537__1_contigs__length_39343	LN:39343
skipping SAM header line:	@SQ	SN:PGA_scaffold62542__1_contigs__length_32921	LN:32921
skipping SAM header line:	@SQ	SN:PGA_scaffold62544__1_contigs__length_41829	LN:41829
skipping SAM header line:	@SQ	SN:PGA_scaffold62591__1_contigs__length_64464	LN:64464
skipping SAM header line:	@SQ	SN:PGA_scaffold62601__1_contigs__length_36053	LN:36053
skipping SAM header line:	@SQ	SN:PGA_scaffold62602__1_contigs__length_30153	LN:30153
skipping SAM header line:	@SQ	SN:PGA_scaffold62661__1_contigs__length_34648	LN:34648
skipping SAM header line:	@SQ	SN:PGA_scaffold62687__1_contigs__length_56019	LN:56019
skipping SAM header line:	@SQ	SN:PGA_scaffold62752__1_contigs__length_33202	LN:33202
skipping SAM header line:	@SQ	SN:PGA_scaffold62854__1_contigs__length_47148	LN:47148
skipping SAM header line:	@SQ	SN:PGA_scaffold62862__1_contigs__length_31728	LN:31728
skipping SAM header line:	@SQ	SN:PGA_scaffold62865__1_contigs__length_39731	LN:39731
skipping SAM header line:	@SQ	SN:PGA_scaffold62888__1_contigs__length_54043	LN:54043
skipping SAM header line:	@SQ	SN:PGA_scaffold62889__1_contigs__length_48322	LN:48322
skipping SAM header line:	@SQ	SN:PGA_scaffold62893__1_contigs__length_35424	LN:35424
skipping SAM header line:	@SQ	SN:PGA_scaffold62898__1_contigs__length_44677	LN:44677
skipping SAM header line:	@SQ	SN:PGA_scaffold62899__1_contigs__length_48738	LN:48738
skipping SAM header line:	@SQ	SN:PGA_scaffold62907__1_contigs__length_31183	LN:31183
skipping SAM header line:	@SQ	SN:PGA_scaffold62912__1_contigs__length_44717	LN:44717
skipping SAM header line:	@SQ	SN:PGA_scaffold62914__1_contigs__length_47643	LN:47643
skipping SAM header line:	@SQ	SN:PGA_scaffold62917__1_contigs__length_34646	LN:34646
skipping SAM header line:	@SQ	SN:PGA_scaffold62920__1_contigs__length_32719	LN:32719
skipping SAM header line:	@SQ	SN:PGA_scaffold62965__1_contigs__length_46983	LN:46983
skipping SAM header line:	@SQ	SN:PGA_scaffold62974__1_contigs__length_42527	LN:42527
skipping SAM header line:	@SQ	SN:PGA_scaffold62982__1_contigs__length_51892	LN:51892
skipping SAM header line:	@SQ	SN:PGA_scaffold63008__1_contigs__length_40245	LN:40245
skipping SAM header line:	@SQ	SN:PGA_scaffold63022__1_contigs__length_31832	LN:31832
skipping SAM header line:	@SQ	SN:PGA_scaffold63033__1_contigs__length_64137	LN:64137
skipping SAM header line:	@SQ	SN:PGA_scaffold63057__1_contigs__length_30046	LN:30046
skipping SAM header line:	@SQ	SN:PGA_scaffold63059__1_contigs__length_30993	LN:30993
skipping SAM header line:	@SQ	SN:PGA_scaffold63073__1_contigs__length_59843	LN:59843
skipping SAM header line:	@SQ	SN:PGA_scaffold63076__1_contigs__length_65566	LN:65566
skipping SAM header line:	@SQ	SN:PGA_scaffold63085__1_contigs__length_46291	LN:46291
skipping SAM header line:	@SQ	SN:PGA_scaffold63090__1_contigs__length_43963	LN:43963
skipping SAM header line:	@SQ	SN:PGA_scaffold63101__1_contigs__length_45043	LN:45043
skipping SAM header line:	@SQ	SN:PGA_scaffold63115__1_contigs__length_32288	LN:32288
skipping SAM header line:	@SQ	SN:PGA_scaffold63140__1_contigs__length_32392	LN:32392
skipping SAM header line:	@SQ	SN:PGA_scaffold63144__1_contigs__length_70359	LN:70359
skipping SAM header line:	@SQ	SN:PGA_scaffold63154__1_contigs__length_40784	LN:40784
skipping SAM header line:	@SQ	SN:PGA_scaffold63158__1_contigs__length_32781	LN:32781
skipping SAM header line:	@SQ	SN:PGA_scaffold63175__1_contigs__length_32817	LN:32817
skipping SAM header line:	@SQ	SN:PGA_scaffold63196__1_contigs__length_54760	LN:54760
skipping SAM header line:	@SQ	SN:PGA_scaffold63198__1_contigs__length_39852	LN:39852
skipping SAM header line:	@SQ	SN:PGA_scaffold63251__1_contigs__length_76351	LN:76351
skipping SAM header line:	@SQ	SN:PGA_scaffold63277__1_contigs__length_43210	LN:43210
skipping SAM header line:	@SQ	SN:PGA_scaffold63280__1_contigs__length_78184	LN:78184
skipping SAM header line:	@SQ	SN:PGA_scaffold63282__1_contigs__length_48451	LN:48451
skipping SAM header line:	@SQ	SN:PGA_scaffold63286__1_contigs__length_64799	LN:64799
skipping SAM header line:	@SQ	SN:PGA_scaffold63295__1_contigs__length_73242	LN:73242
skipping SAM header line:	@SQ	SN:PGA_scaffold63327__1_contigs__length_41823	LN:41823
skipping SAM header line:	@SQ	SN:PGA_scaffold63330__1_contigs__length_32542	LN:32542
skipping SAM header line:	@SQ	SN:PGA_scaffold63338__1_contigs__length_30825	LN:30825
skipping SAM header line:	@SQ	SN:PGA_scaffold63480__1_contigs__length_39812	LN:39812
skipping SAM header line:	@SQ	SN:PGA_scaffold63504__1_contigs__length_83511	LN:83511
skipping SAM header line:	@SQ	SN:PGA_scaffold63543__1_contigs__length_67322	LN:67322
skipping SAM header line:	@SQ	SN:PGA_scaffold63594__1_contigs__length_42878	LN:42878
skipping SAM header line:	@SQ	SN:PGA_scaffold63635__1_contigs__length_31389	LN:31389
skipping SAM header line:	@SQ	SN:PGA_scaffold63681__1_contigs__length_35508	LN:35508
skipping SAM header line:	@SQ	SN:PGA_scaffold63729__1_contigs__length_32731	LN:32731
skipping SAM header line:	@SQ	SN:PGA_scaffold63732__1_contigs__length_50829	LN:50829
skipping SAM header line:	@SQ	SN:PGA_scaffold63734__1_contigs__length_31184	LN:31184
skipping SAM header line:	@SQ	SN:PGA_scaffold63741__1_contigs__length_36520	LN:36520
skipping SAM header line:	@SQ	SN:PGA_scaffold63748__1_contigs__length_33842	LN:33842
skipping SAM header line:	@SQ	SN:PGA_scaffold63749__1_contigs__length_42782	LN:42782
skipping SAM header line:	@SQ	SN:PGA_scaffold63751__1_contigs__length_41022	LN:41022
skipping SAM header line:	@SQ	SN:PGA_scaffold63753__1_contigs__length_33280	LN:33280
skipping SAM header line:	@SQ	SN:PGA_scaffold63754__1_contigs__length_42061	LN:42061
skipping SAM header line:	@SQ	SN:PGA_scaffold63762__1_contigs__length_32202	LN:32202
skipping SAM header line:	@SQ	SN:PGA_scaffold63788__1_contigs__length_79173	LN:79173
skipping SAM header line:	@SQ	SN:PGA_scaffold63874__1_contigs__length_36908	LN:36908
skipping SAM header line:	@SQ	SN:PGA_scaffold63883__1_contigs__length_68258	LN:68258
skipping SAM header line:	@SQ	SN:PGA_scaffold63886__1_contigs__length_33964	LN:33964
skipping SAM header line:	@SQ	SN:PGA_scaffold63901__1_contigs__length_33737	LN:33737
skipping SAM header line:	@SQ	SN:PGA_scaffold63902__1_contigs__length_30981	LN:30981
skipping SAM header line:	@SQ	SN:PGA_scaffold63904__1_contigs__length_56940	LN:56940
skipping SAM header line:	@SQ	SN:PGA_scaffold63956__1_contigs__length_32393	LN:32393
skipping SAM header line:	@SQ	SN:PGA_scaffold63976__1_contigs__length_45677	LN:45677
skipping SAM header line:	@SQ	SN:PGA_scaffold63999__1_contigs__length_42041	LN:42041
skipping SAM header line:	@SQ	SN:PGA_scaffold64025__1_contigs__length_40125	LN:40125
skipping SAM header line:	@SQ	SN:PGA_scaffold64049__1_contigs__length_45875	LN:45875
skipping SAM header line:	@SQ	SN:PGA_scaffold64054__1_contigs__length_70679	LN:70679
skipping SAM header line:	@SQ	SN:PGA_scaffold64073__1_contigs__length_36128	LN:36128
skipping SAM header line:	@SQ	SN:PGA_scaffold64074__1_contigs__length_54897	LN:54897
skipping SAM header line:	@SQ	SN:PGA_scaffold64084__1_contigs__length_71263	LN:71263
skipping SAM header line:	@SQ	SN:PGA_scaffold64113__1_contigs__length_37629	LN:37629
skipping SAM header line:	@SQ	SN:PGA_scaffold64144__1_contigs__length_53004	LN:53004
skipping SAM header line:	@SQ	SN:PGA_scaffold64157__1_contigs__length_31528	LN:31528
skipping SAM header line:	@SQ	SN:PGA_scaffold64179__1_contigs__length_31562	LN:31562
skipping SAM header line:	@SQ	SN:PGA_scaffold64197__1_contigs__length_34579	LN:34579
skipping SAM header line:	@SQ	SN:PGA_scaffold64208__1_contigs__length_45484	LN:45484
skipping SAM header line:	@SQ	SN:PGA_scaffold64277__1_contigs__length_37318	LN:37318
skipping SAM header line:	@SQ	SN:PGA_scaffold64339__1_contigs__length_32767	LN:32767
skipping SAM header line:	@SQ	SN:PGA_scaffold64352__1_contigs__length_40037	LN:40037
skipping SAM header line:	@SQ	SN:PGA_scaffold64383__1_contigs__length_88001	LN:88001
skipping SAM header line:	@SQ	SN:PGA_scaffold64394__1_contigs__length_33404	LN:33404
skipping SAM header line:	@SQ	SN:PGA_scaffold64426__1_contigs__length_49077	LN:49077
skipping SAM header line:	@SQ	SN:PGA_scaffold64456__1_contigs__length_38607	LN:38607
skipping SAM header line:	@SQ	SN:PGA_scaffold64462__1_contigs__length_30068	LN:30068
skipping SAM header line:	@SQ	SN:PGA_scaffold64465__1_contigs__length_42085	LN:42085
skipping SAM header line:	@SQ	SN:PGA_scaffold64466__1_contigs__length_38330	LN:38330
skipping SAM header line:	@SQ	SN:PGA_scaffold64470__1_contigs__length_48847	LN:48847
skipping SAM header line:	@SQ	SN:PGA_scaffold64471__1_contigs__length_34271	LN:34271
skipping SAM header line:	@SQ	SN:PGA_scaffold64473__1_contigs__length_33437	LN:33437
skipping SAM header line:	@SQ	SN:PGA_scaffold64529__1_contigs__length_33564	LN:33564
skipping SAM header line:	@SQ	SN:PGA_scaffold64530__1_contigs__length_30567	LN:30567
skipping SAM header line:	@SQ	SN:PGA_scaffold64574__1_contigs__length_46667	LN:46667
skipping SAM header line:	@SQ	SN:PGA_scaffold64593__1_contigs__length_38604	LN:38604
skipping SAM header line:	@SQ	SN:PGA_scaffold64604__1_contigs__length_30801	LN:30801
skipping SAM header line:	@SQ	SN:PGA_scaffold64606__1_contigs__length_35651	LN:35651
skipping SAM header line:	@SQ	SN:PGA_scaffold64607__1_contigs__length_70013	LN:70013
skipping SAM header line:	@SQ	SN:PGA_scaffold64608__1_contigs__length_49602	LN:49602
skipping SAM header line:	@SQ	SN:PGA_scaffold64613__1_contigs__length_42419	LN:42419
skipping SAM header line:	@SQ	SN:PGA_scaffold64639__1_contigs__length_35410	LN:35410
skipping SAM header line:	@SQ	SN:PGA_scaffold64660__1_contigs__length_45703	LN:45703
skipping SAM header line:	@SQ	SN:PGA_scaffold64695__1_contigs__length_70541	LN:70541
skipping SAM header line:	@SQ	SN:PGA_scaffold64697__1_contigs__length_43204	LN:43204
skipping SAM header line:	@SQ	SN:PGA_scaffold64699__1_contigs__length_32242	LN:32242
skipping SAM header line:	@SQ	SN:PGA_scaffold64701__1_contigs__length_57865	LN:57865
skipping SAM header line:	@SQ	SN:PGA_scaffold64702__1_contigs__length_30546	LN:30546
skipping SAM header line:	@SQ	SN:PGA_scaffold64737__1_contigs__length_40853	LN:40853
skipping SAM header line:	@SQ	SN:PGA_scaffold64742__1_contigs__length_65506	LN:65506
skipping SAM header line:	@SQ	SN:PGA_scaffold64773__1_contigs__length_73184	LN:73184
skipping SAM header line:	@SQ	SN:PGA_scaffold64789__1_contigs__length_47691	LN:47691
skipping SAM header line:	@SQ	SN:PGA_scaffold64790__1_contigs__length_34222	LN:34222
skipping SAM header line:	@SQ	SN:PGA_scaffold64825__1_contigs__length_54777	LN:54777
skipping SAM header line:	@SQ	SN:PGA_scaffold64826__1_contigs__length_30214	LN:30214
skipping SAM header line:	@SQ	SN:PGA_scaffold64882__1_contigs__length_39867	LN:39867
skipping SAM header line:	@SQ	SN:PGA_scaffold64903__1_contigs__length_42771	LN:42771
skipping SAM header line:	@SQ	SN:PGA_scaffold64931__1_contigs__length_44617	LN:44617
skipping SAM header line:	@SQ	SN:PGA_scaffold64934__1_contigs__length_30286	LN:30286
skipping SAM header line:	@SQ	SN:PGA_scaffold64954__1_contigs__length_35731	LN:35731
skipping SAM header line:	@SQ	SN:PGA_scaffold64964__1_contigs__length_54048	LN:54048
skipping SAM header line:	@SQ	SN:PGA_scaffold64971__1_contigs__length_96233	LN:96233
skipping SAM header line:	@SQ	SN:PGA_scaffold65021__1_contigs__length_40132	LN:40132
skipping SAM header line:	@SQ	SN:PGA_scaffold65031__1_contigs__length_52072	LN:52072
skipping SAM header line:	@SQ	SN:PGA_scaffold65077__1_contigs__length_78086	LN:78086
skipping SAM header line:	@SQ	SN:PGA_scaffold65079__1_contigs__length_38850	LN:38850
skipping SAM header line:	@SQ	SN:PGA_scaffold65086__1_contigs__length_44941	LN:44941
skipping SAM header line:	@SQ	SN:PGA_scaffold65089__1_contigs__length_56911	LN:56911
skipping SAM header line:	@SQ	SN:PGA_scaffold65091__1_contigs__length_44371	LN:44371
skipping SAM header line:	@SQ	SN:PGA_scaffold65116__1_contigs__length_38844	LN:38844
skipping SAM header line:	@SQ	SN:PGA_scaffold65119__1_contigs__length_57101	LN:57101
skipping SAM header line:	@SQ	SN:PGA_scaffold65171__1_contigs__length_46480	LN:46480
skipping SAM header line:	@SQ	SN:PGA_scaffold65174__1_contigs__length_38341	LN:38341
skipping SAM header line:	@SQ	SN:PGA_scaffold65186__1_contigs__length_41412	LN:41412
skipping SAM header line:	@SQ	SN:PGA_scaffold65198__1_contigs__length_44989	LN:44989
skipping SAM header line:	@SQ	SN:PGA_scaffold65255__1_contigs__length_59866	LN:59866
skipping SAM header line:	@SQ	SN:PGA_scaffold65278__1_contigs__length_62003	LN:62003
skipping SAM header line:	@SQ	SN:PGA_scaffold65284__1_contigs__length_50840	LN:50840
skipping SAM header line:	@SQ	SN:PGA_scaffold65305__1_contigs__length_40067	LN:40067
skipping SAM header line:	@SQ	SN:PGA_scaffold65307__1_contigs__length_57187	LN:57187
skipping SAM header line:	@SQ	SN:PGA_scaffold65313__1_contigs__length_38893	LN:38893
skipping SAM header line:	@SQ	SN:PGA_scaffold65329__1_contigs__length_30096	LN:30096
skipping SAM header line:	@SQ	SN:PGA_scaffold65356__1_contigs__length_44587	LN:44587
skipping SAM header line:	@SQ	SN:PGA_scaffold65398__1_contigs__length_63537	LN:63537
skipping SAM header line:	@SQ	SN:PGA_scaffold65399__1_contigs__length_61838	LN:61838
skipping SAM header line:	@SQ	SN:PGA_scaffold65461__1_contigs__length_37665	LN:37665
skipping SAM header line:	@SQ	SN:PGA_scaffold65465__1_contigs__length_31799	LN:31799
skipping SAM header line:	@SQ	SN:PGA_scaffold65505__1_contigs__length_41126	LN:41126
skipping SAM header line:	@SQ	SN:PGA_scaffold65585__1_contigs__length_31567	LN:31567
skipping SAM header line:	@SQ	SN:PGA_scaffold65600__1_contigs__length_32016	LN:32016
skipping SAM header line:	@SQ	SN:PGA_scaffold65653__1_contigs__length_32424	LN:32424
skipping SAM header line:	@SQ	SN:PGA_scaffold65693__1_contigs__length_34648	LN:34648
skipping SAM header line:	@SQ	SN:PGA_scaffold65737__1_contigs__length_37231	LN:37231
skipping SAM header line:	@SQ	SN:PGA_scaffold65765__1_contigs__length_39217	LN:39217
skipping SAM header line:	@SQ	SN:PGA_scaffold65777__1_contigs__length_32724	LN:32724
skipping SAM header line:	@SQ	SN:PGA_scaffold65781__1_contigs__length_42302	LN:42302
skipping SAM header line:	@SQ	SN:PGA_scaffold65786__1_contigs__length_56597	LN:56597
skipping SAM header line:	@SQ	SN:PGA_scaffold65807__1_contigs__length_35379	LN:35379
skipping SAM header line:	@SQ	SN:PGA_scaffold65809__1_contigs__length_36632	LN:36632
skipping SAM header line:	@SQ	SN:PGA_scaffold65815__1_contigs__length_49308	LN:49308
skipping SAM header line:	@SQ	SN:PGA_scaffold65846__1_contigs__length_33986	LN:33986
skipping SAM header line:	@SQ	SN:PGA_scaffold65851__1_contigs__length_44621	LN:44621
skipping SAM header line:	@SQ	SN:PGA_scaffold65866__1_contigs__length_90471	LN:90471
skipping SAM header line:	@SQ	SN:PGA_scaffold65911__1_contigs__length_48303	LN:48303
skipping SAM header line:	@SQ	SN:PGA_scaffold65912__1_contigs__length_34561	LN:34561
skipping SAM header line:	@SQ	SN:PGA_scaffold65945__1_contigs__length_40559	LN:40559
skipping SAM header line:	@SQ	SN:PGA_scaffold65949__1_contigs__length_35336	LN:35336
skipping SAM header line:	@SQ	SN:PGA_scaffold65954__1_contigs__length_39725	LN:39725
skipping SAM header line:	@SQ	SN:PGA_scaffold65967__1_contigs__length_36096	LN:36096
skipping SAM header line:	@SQ	SN:PGA_scaffold65987__1_contigs__length_52560	LN:52560
skipping SAM header line:	@SQ	SN:PGA_scaffold66001__1_contigs__length_39013	LN:39013
skipping SAM header line:	@SQ	SN:PGA_scaffold66037__1_contigs__length_37904	LN:37904
skipping SAM header line:	@SQ	SN:PGA_scaffold66060__1_contigs__length_47051	LN:47051
skipping SAM header line:	@SQ	SN:PGA_scaffold66062__1_contigs__length_35720	LN:35720
skipping SAM header line:	@SQ	SN:PGA_scaffold66079__1_contigs__length_37644	LN:37644
skipping SAM header line:	@SQ	SN:PGA_scaffold66102__1_contigs__length_38669	LN:38669
skipping SAM header line:	@SQ	SN:PGA_scaffold66132__1_contigs__length_39192	LN:39192
skipping SAM header line:	@SQ	SN:PGA_scaffold66172__1_contigs__length_62844	LN:62844
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skipping SAM header line:	@SQ	SN:PGA_scaffold66178__1_contigs__length_49601	LN:49601
skipping SAM header line:	@SQ	SN:PGA_scaffold66186__1_contigs__length_45928	LN:45928
skipping SAM header line:	@SQ	SN:PGA_scaffold66196__1_contigs__length_53841	LN:53841
skipping SAM header line:	@SQ	SN:PGA_scaffold66212__1_contigs__length_32503	LN:32503
skipping SAM header line:	@SQ	SN:PGA_scaffold66276__1_contigs__length_39820	LN:39820
skipping SAM header line:	@SQ	SN:PGA_scaffold66293__1_contigs__length_33304	LN:33304
skipping SAM header line:	@SQ	SN:PGA_scaffold66318__1_contigs__length_45619	LN:45619
skipping SAM header line:	@SQ	SN:PGA_scaffold66338__1_contigs__length_30756	LN:30756
skipping SAM header line:	@SQ	SN:PGA_scaffold66399__1_contigs__length_42456	LN:42456
skipping SAM header line:	@SQ	SN:PGA_scaffold66419__1_contigs__length_49715	LN:49715
skipping SAM header line:	@SQ	SN:PGA_scaffold66434__1_contigs__length_46589	LN:46589
skipping SAM header line:	@SQ	SN:PGA_scaffold66452__1_contigs__length_42482	LN:42482
skipping SAM header line:	@SQ	SN:PGA_scaffold66481__1_contigs__length_32127	LN:32127
skipping SAM header line:	@SQ	SN:PGA_scaffold66513__1_contigs__length_33853	LN:33853
skipping SAM header line:	@SQ	SN:PGA_scaffold66519__1_contigs__length_33851	LN:33851
skipping SAM header line:	@SQ	SN:PGA_scaffold66554__1_contigs__length_46378	LN:46378
skipping SAM header line:	@SQ	SN:PGA_scaffold66557__1_contigs__length_39298	LN:39298
skipping SAM header line:	@SQ	SN:PGA_scaffold66594__1_contigs__length_45007	LN:45007
skipping SAM header line:	@SQ	SN:PGA_scaffold66641__1_contigs__length_41123	LN:41123
skipping SAM header line:	@SQ	SN:PGA_scaffold66642__1_contigs__length_33139	LN:33139
skipping SAM header line:	@SQ	SN:PGA_scaffold66656__1_contigs__length_57103	LN:57103
skipping SAM header line:	@SQ	SN:PGA_scaffold66666__1_contigs__length_58206	LN:58206
skipping SAM header line:	@SQ	SN:PGA_scaffold66674__1_contigs__length_30853	LN:30853
skipping SAM header line:	@SQ	SN:PGA_scaffold66682__1_contigs__length_34382	LN:34382
skipping SAM header line:	@SQ	SN:PGA_scaffold66713__1_contigs__length_84867	LN:84867
skipping SAM header line:	@SQ	SN:PGA_scaffold66717__1_contigs__length_43668	LN:43668
skipping SAM header line:	@SQ	SN:PGA_scaffold66721__1_contigs__length_30932	LN:30932
skipping SAM header line:	@SQ	SN:PGA_scaffold66729__1_contigs__length_32971	LN:32971
skipping SAM header line:	@SQ	SN:PGA_scaffold66737__1_contigs__length_35128	LN:35128
skipping SAM header line:	@SQ	SN:PGA_scaffold66767__1_contigs__length_30996	LN:30996
skipping SAM header line:	@SQ	SN:PGA_scaffold66795__1_contigs__length_33697	LN:33697
skipping SAM header line:	@SQ	SN:PGA_scaffold66797__1_contigs__length_36926	LN:36926
skipping SAM header line:	@SQ	SN:PGA_scaffold66804__1_contigs__length_31229	LN:31229
skipping SAM header line:	@SQ	SN:PGA_scaffold66854__1_contigs__length_42887	LN:42887
skipping SAM header line:	@SQ	SN:PGA_scaffold66861__1_contigs__length_33604	LN:33604
skipping SAM header line:	@SQ	SN:PGA_scaffold66907__1_contigs__length_30664	LN:30664
skipping SAM header line:	@SQ	SN:PGA_scaffold66932__1_contigs__length_31539	LN:31539
skipping SAM header line:	@SQ	SN:PGA_scaffold67057__1_contigs__length_30266	LN:30266
skipping SAM header line:	@SQ	SN:PGA_scaffold67070__1_contigs__length_50493	LN:50493
skipping SAM header line:	@SQ	SN:PGA_scaffold67145__1_contigs__length_36418	LN:36418
skipping SAM header line:	@SQ	SN:PGA_scaffold67154__1_contigs__length_38445	LN:38445
skipping SAM header line:	@SQ	SN:PGA_scaffold67214__1_contigs__length_49673	LN:49673
skipping SAM header line:	@SQ	SN:PGA_scaffold67280__1_contigs__length_31885	LN:31885
skipping SAM header line:	@SQ	SN:PGA_scaffold67294__1_contigs__length_50832	LN:50832
skipping SAM header line:	@SQ	SN:PGA_scaffold67337__1_contigs__length_52553	LN:52553
skipping SAM header line:	@SQ	SN:PGA_scaffold67346__1_contigs__length_32090	LN:32090
skipping SAM header line:	@SQ	SN:PGA_scaffold67399__1_contigs__length_33211	LN:33211
skipping SAM header line:	@SQ	SN:PGA_scaffold67407__1_contigs__length_73205	LN:73205
skipping SAM header line:	@SQ	SN:PGA_scaffold67409__1_contigs__length_30272	LN:30272
skipping SAM header line:	@SQ	SN:PGA_scaffold67460__1_contigs__length_63707	LN:63707
skipping SAM header line:	@SQ	SN:PGA_scaffold67469__1_contigs__length_34100	LN:34100
skipping SAM header line:	@SQ	SN:PGA_scaffold67491__1_contigs__length_36666	LN:36666
skipping SAM header line:	@SQ	SN:PGA_scaffold67492__1_contigs__length_32377	LN:32377
skipping SAM header line:	@SQ	SN:PGA_scaffold67500__1_contigs__length_32321	LN:32321
skipping SAM header line:	@SQ	SN:PGA_scaffold67501__1_contigs__length_45282	LN:45282
skipping SAM header line:	@SQ	SN:PGA_scaffold67506__1_contigs__length_34916	LN:34916
skipping SAM header line:	@SQ	SN:PGA_scaffold67532__1_contigs__length_45886	LN:45886
skipping SAM header line:	@SQ	SN:PGA_scaffold67555__1_contigs__length_42738	LN:42738
skipping SAM header line:	@SQ	SN:PGA_scaffold67566__1_contigs__length_131359	LN:131359
skipping SAM header line:	@SQ	SN:PGA_scaffold67576__1_contigs__length_71513	LN:71513
skipping SAM header line:	@SQ	SN:PGA_scaffold67579__1_contigs__length_30606	LN:30606
skipping SAM header line:	@SQ	SN:PGA_scaffold67604__1_contigs__length_30533	LN:30533
skipping SAM header line:	@SQ	SN:PGA_scaffold67614__1_contigs__length_45881	LN:45881
skipping SAM header line:	@SQ	SN:PGA_scaffold67629__1_contigs__length_41418	LN:41418
skipping SAM header line:	@SQ	SN:PGA_scaffold67633__1_contigs__length_49909	LN:49909
skipping SAM header line:	@SQ	SN:PGA_scaffold67641__1_contigs__length_35654	LN:35654
skipping SAM header line:	@SQ	SN:PGA_scaffold67666__1_contigs__length_32329	LN:32329
skipping SAM header line:	@SQ	SN:PGA_scaffold67687__1_contigs__length_62665	LN:62665
skipping SAM header line:	@SQ	SN:PGA_scaffold67702__1_contigs__length_30259	LN:30259
skipping SAM header line:	@SQ	SN:PGA_scaffold67709__1_contigs__length_32364	LN:32364
skipping SAM header line:	@SQ	SN:PGA_scaffold67745__1_contigs__length_41387	LN:41387
skipping SAM header line:	@SQ	SN:PGA_scaffold67754__1_contigs__length_46865	LN:46865
skipping SAM header line:	@SQ	SN:PGA_scaffold67781__1_contigs__length_42225	LN:42225
skipping SAM header line:	@SQ	SN:PGA_scaffold67782__1_contigs__length_31631	LN:31631
skipping SAM header line:	@SQ	SN:PGA_scaffold67794__1_contigs__length_36514	LN:36514
skipping SAM header line:	@SQ	SN:PGA_scaffold67874__1_contigs__length_35874	LN:35874
skipping SAM header line:	@SQ	SN:PGA_scaffold67908__1_contigs__length_39573	LN:39573
skipping SAM header line:	@SQ	SN:PGA_scaffold67909__1_contigs__length_30059	LN:30059
skipping SAM header line:	@SQ	SN:PGA_scaffold67921__1_contigs__length_42945	LN:42945
skipping SAM header line:	@SQ	SN:PGA_scaffold67942__1_contigs__length_32835	LN:32835
skipping SAM header line:	@SQ	SN:PGA_scaffold67967__1_contigs__length_40481	LN:40481
skipping SAM header line:	@SQ	SN:PGA_scaffold67981__1_contigs__length_35686	LN:35686
skipping SAM header line:	@SQ	SN:PGA_scaffold68035__1_contigs__length_42103	LN:42103
skipping SAM header line:	@SQ	SN:PGA_scaffold68039__1_contigs__length_32241	LN:32241
skipping SAM header line:	@SQ	SN:PGA_scaffold68042__1_contigs__length_43179	LN:43179
skipping SAM header line:	@SQ	SN:PGA_scaffold68044__1_contigs__length_31992	LN:31992
skipping SAM header line:	@SQ	SN:PGA_scaffold68049__1_contigs__length_34344	LN:34344
skipping SAM header line:	@SQ	SN:PGA_scaffold68053__1_contigs__length_31000	LN:31000
skipping SAM header line:	@SQ	SN:PGA_scaffold68092__1_contigs__length_33414	LN:33414
skipping SAM header line:	@SQ	SN:PGA_scaffold68150__1_contigs__length_50783	LN:50783
skipping SAM header line:	@SQ	SN:PGA_scaffold68157__1_contigs__length_34106	LN:34106
skipping SAM header line:	@SQ	SN:PGA_scaffold68184__1_contigs__length_41355	LN:41355
skipping SAM header line:	@SQ	SN:PGA_scaffold68193__1_contigs__length_46031	LN:46031
skipping SAM header line:	@SQ	SN:PGA_scaffold68205__1_contigs__length_30954	LN:30954
skipping SAM header line:	@SQ	SN:PGA_scaffold68252__1_contigs__length_37078	LN:37078
skipping SAM header line:	@SQ	SN:PGA_scaffold68273__1_contigs__length_46075	LN:46075
skipping SAM header line:	@SQ	SN:PGA_scaffold68274__1_contigs__length_63866	LN:63866
skipping SAM header line:	@SQ	SN:PGA_scaffold68332__1_contigs__length_52891	LN:52891
skipping SAM header line:	@SQ	SN:PGA_scaffold68355__1_contigs__length_44244	LN:44244
skipping SAM header line:	@SQ	SN:PGA_scaffold68382__1_contigs__length_35256	LN:35256
skipping SAM header line:	@SQ	SN:PGA_scaffold68387__1_contigs__length_39768	LN:39768
skipping SAM header line:	@SQ	SN:PGA_scaffold68394__1_contigs__length_31191	LN:31191
skipping SAM header line:	@SQ	SN:PGA_scaffold68395__1_contigs__length_45596	LN:45596
skipping SAM header line:	@SQ	SN:PGA_scaffold68397__1_contigs__length_46584	LN:46584
skipping SAM header line:	@SQ	SN:PGA_scaffold68425__1_contigs__length_32148	LN:32148
skipping SAM header line:	@SQ	SN:PGA_scaffold68455__1_contigs__length_49171	LN:49171
skipping SAM header line:	@SQ	SN:PGA_scaffold68463__1_contigs__length_36019	LN:36019
skipping SAM header line:	@SQ	SN:PGA_scaffold68476__1_contigs__length_31493	LN:31493
skipping SAM header line:	@SQ	SN:PGA_scaffold68483__1_contigs__length_57370	LN:57370
skipping SAM header line:	@SQ	SN:PGA_scaffold68484__1_contigs__length_47467	LN:47467
skipping SAM header line:	@SQ	SN:PGA_scaffold68495__1_contigs__length_36431	LN:36431
skipping SAM header line:	@SQ	SN:PGA_scaffold68498__1_contigs__length_33054	LN:33054
skipping SAM header line:	@SQ	SN:PGA_scaffold68529__1_contigs__length_45929	LN:45929
skipping SAM header line:	@SQ	SN:PGA_scaffold68536__1_contigs__length_53547	LN:53547
skipping SAM header line:	@SQ	SN:PGA_scaffold68576__1_contigs__length_34428	LN:34428
skipping SAM header line:	@SQ	SN:PGA_scaffold68613__1_contigs__length_44262	LN:44262
skipping SAM header line:	@SQ	SN:PGA_scaffold68674__1_contigs__length_32423	LN:32423
skipping SAM header line:	@SQ	SN:PGA_scaffold68721__1_contigs__length_42259	LN:42259
skipping SAM header line:	@SQ	SN:PGA_scaffold68747__1_contigs__length_49906	LN:49906
skipping SAM header line:	@SQ	SN:PGA_scaffold68765__1_contigs__length_40132	LN:40132
skipping SAM header line:	@SQ	SN:PGA_scaffold68777__1_contigs__length_38286	LN:38286
skipping SAM header line:	@SQ	SN:PGA_scaffold68795__1_contigs__length_49952	LN:49952
skipping SAM header line:	@SQ	SN:PGA_scaffold68798__1_contigs__length_41851	LN:41851
skipping SAM header line:	@SQ	SN:PGA_scaffold68816__1_contigs__length_39953	LN:39953
skipping SAM header line:	@SQ	SN:PGA_scaffold68822__1_contigs__length_40525	LN:40525
skipping SAM header line:	@SQ	SN:PGA_scaffold68849__1_contigs__length_42390	LN:42390
skipping SAM header line:	@SQ	SN:PGA_scaffold68855__1_contigs__length_38462	LN:38462
skipping SAM header line:	@SQ	SN:PGA_scaffold68858__1_contigs__length_37103	LN:37103
skipping SAM header line:	@SQ	SN:PGA_scaffold68888__1_contigs__length_30760	LN:30760
skipping SAM header line:	@SQ	SN:PGA_scaffold68902__1_contigs__length_32565	LN:32565
skipping SAM header line:	@SQ	SN:PGA_scaffold68916__1_contigs__length_32130	LN:32130
skipping SAM header line:	@SQ	SN:PGA_scaffold68959__1_contigs__length_34473	LN:34473
skipping SAM header line:	@SQ	SN:PGA_scaffold68980__1_contigs__length_31650	LN:31650
skipping SAM header line:	@SQ	SN:PGA_scaffold69000__1_contigs__length_31325	LN:31325
skipping SAM header line:	@SQ	SN:PGA_scaffold69031__1_contigs__length_49096	LN:49096
skipping SAM header line:	@SQ	SN:PGA_scaffold69064__1_contigs__length_30263	LN:30263
skipping SAM header line:	@SQ	SN:PGA_scaffold69066__1_contigs__length_41967	LN:41967
skipping SAM header line:	@SQ	SN:PGA_scaffold69075__1_contigs__length_43631	LN:43631
skipping SAM header line:	@SQ	SN:PGA_scaffold69088__1_contigs__length_46450	LN:46450
skipping SAM header line:	@SQ	SN:PGA_scaffold69098__1_contigs__length_35440	LN:35440
skipping SAM header line:	@SQ	SN:PGA_scaffold69099__1_contigs__length_56136	LN:56136
skipping SAM header line:	@SQ	SN:PGA_scaffold69107__1_contigs__length_36690	LN:36690
skipping SAM header line:	@SQ	SN:PGA_scaffold69130__1_contigs__length_52115	LN:52115
skipping SAM header line:	@SQ	SN:PGA_scaffold69149__1_contigs__length_34885	LN:34885
skipping SAM header line:	@SQ	SN:PGA_scaffold69173__1_contigs__length_31383	LN:31383
skipping SAM header line:	@SQ	SN:PGA_scaffold69251__1_contigs__length_36385	LN:36385
skipping SAM header line:	@SQ	SN:PGA_scaffold69286__1_contigs__length_32034	LN:32034
skipping SAM header line:	@SQ	SN:PGA_scaffold69294__1_contigs__length_33022	LN:33022
skipping SAM header line:	@SQ	SN:PGA_scaffold69311__1_contigs__length_34239	LN:34239
skipping SAM header line:	@SQ	SN:PGA_scaffold69332__1_contigs__length_37657	LN:37657
skipping SAM header line:	@SQ	SN:PGA_scaffold69353__1_contigs__length_32912	LN:32912
skipping SAM header line:	@SQ	SN:PGA_scaffold69354__1_contigs__length_42598	LN:42598
skipping SAM header line:	@SQ	SN:PGA_scaffold69362__1_contigs__length_32911	LN:32911
skipping SAM header line:	@SQ	SN:PGA_scaffold69376__1_contigs__length_34929	LN:34929
skipping SAM header line:	@SQ	SN:PGA_scaffold69388__1_contigs__length_51830	LN:51830
skipping SAM header line:	@SQ	SN:PGA_scaffold69435__1_contigs__length_57426	LN:57426
skipping SAM header line:	@SQ	SN:PGA_scaffold69439__1_contigs__length_41542	LN:41542
skipping SAM header line:	@SQ	SN:PGA_scaffold69451__1_contigs__length_39160	LN:39160
skipping SAM header line:	@SQ	SN:PGA_scaffold69459__1_contigs__length_45501	LN:45501
skipping SAM header line:	@SQ	SN:PGA_scaffold69477__1_contigs__length_38210	LN:38210
skipping SAM header line:	@SQ	SN:PGA_scaffold69479__1_contigs__length_32808	LN:32808
skipping SAM header line:	@SQ	SN:PGA_scaffold69484__1_contigs__length_31150	LN:31150
skipping SAM header line:	@SQ	SN:PGA_scaffold69495__1_contigs__length_53052	LN:53052
skipping SAM header line:	@SQ	SN:PGA_scaffold69529__1_contigs__length_33639	LN:33639
skipping SAM header line:	@SQ	SN:PGA_scaffold69555__1_contigs__length_42966	LN:42966
skipping SAM header line:	@SQ	SN:PGA_scaffold69556__1_contigs__length_33961	LN:33961
skipping SAM header line:	@SQ	SN:PGA_scaffold69619__1_contigs__length_30388	LN:30388
skipping SAM header line:	@SQ	SN:PGA_scaffold69621__1_contigs__length_30422	LN:30422
skipping SAM header line:	@SQ	SN:PGA_scaffold69622__1_contigs__length_37660	LN:37660
skipping SAM header line:	@SQ	SN:PGA_scaffold69631__1_contigs__length_44909	LN:44909
skipping SAM header line:	@SQ	SN:PGA_scaffold69645__1_contigs__length_46339	LN:46339
skipping SAM header line:	@SQ	SN:PGA_scaffold69669__1_contigs__length_34799	LN:34799
skipping SAM header line:	@SQ	SN:PGA_scaffold69683__1_contigs__length_40360	LN:40360
skipping SAM header line:	@SQ	SN:PGA_scaffold69711__1_contigs__length_31728	LN:31728
skipping SAM header line:	@SQ	SN:PGA_scaffold69724__1_contigs__length_36238	LN:36238
skipping SAM header line:	@SQ	SN:PGA_scaffold69769__1_contigs__length_67326	LN:67326
skipping SAM header line:	@SQ	SN:PGA_scaffold69780__1_contigs__length_36085	LN:36085
skipping SAM header line:	@SQ	SN:PGA_scaffold69798__1_contigs__length_44809	LN:44809
skipping SAM header line:	@SQ	SN:PGA_scaffold69800__1_contigs__length_33144	LN:33144
skipping SAM header line:	@SQ	SN:PGA_scaffold69807__1_contigs__length_45521	LN:45521
skipping SAM header line:	@SQ	SN:PGA_scaffold69829__1_contigs__length_34810	LN:34810
skipping SAM header line:	@SQ	SN:PGA_scaffold69869__1_contigs__length_52996	LN:52996
skipping SAM header line:	@SQ	SN:PGA_scaffold69890__1_contigs__length_34157	LN:34157
skipping SAM header line:	@SQ	SN:PGA_scaffold69901__1_contigs__length_33452	LN:33452
skipping SAM header line:	@SQ	SN:PGA_scaffold69924__1_contigs__length_44446	LN:44446
skipping SAM header line:	@SQ	SN:PGA_scaffold69935__1_contigs__length_32162	LN:32162
skipping SAM header line:	@SQ	SN:PGA_scaffold69949__1_contigs__length_34320	LN:34320
skipping SAM header line:	@SQ	SN:PGA_scaffold69958__1_contigs__length_74035	LN:74035
skipping SAM header line:	@SQ	SN:PGA_scaffold69967__1_contigs__length_33074	LN:33074
skipping SAM header line:	@SQ	SN:PGA_scaffold69970__1_contigs__length_36785	LN:36785
skipping SAM header line:	@SQ	SN:PGA_scaffold69984__1_contigs__length_60451	LN:60451
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skipping SAM header line:	@SQ	SN:PGA_scaffold70089__1_contigs__length_30721	LN:30721
skipping SAM header line:	@SQ	SN:PGA_scaffold70108__1_contigs__length_34192	LN:34192
skipping SAM header line:	@SQ	SN:PGA_scaffold70142__1_contigs__length_30446	LN:30446
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skipping SAM header line:	@SQ	SN:PGA_scaffold70159__1_contigs__length_39306	LN:39306
skipping SAM header line:	@SQ	SN:PGA_scaffold70172__1_contigs__length_32250	LN:32250
skipping SAM header line:	@SQ	SN:PGA_scaffold70187__1_contigs__length_37612	LN:37612
skipping SAM header line:	@SQ	SN:PGA_scaffold70197__1_contigs__length_58642	LN:58642
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skipping SAM header line:	@SQ	SN:PGA_scaffold70218__1_contigs__length_31585	LN:31585
skipping SAM header line:	@SQ	SN:PGA_scaffold70228__1_contigs__length_47471	LN:47471
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skipping SAM header line:	@SQ	SN:PGA_scaffold70468__1_contigs__length_51685	LN:51685
skipping SAM header line:	@SQ	SN:PGA_scaffold70474__1_contigs__length_50365	LN:50365
skipping SAM header line:	@SQ	SN:PGA_scaffold70476__1_contigs__length_49360	LN:49360
skipping SAM header line:	@SQ	SN:PGA_scaffold70489__1_contigs__length_43424	LN:43424
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skipping SAM header line:	@SQ	SN:PGA_scaffold70506__1_contigs__length_45721	LN:45721
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skipping SAM header line:	@SQ	SN:PGA_scaffold70880__1_contigs__length_31372	LN:31372
skipping SAM header line:	@SQ	SN:PGA_scaffold70894__1_contigs__length_47158	LN:47158
skipping SAM header line:	@SQ	SN:PGA_scaffold70911__1_contigs__length_31781	LN:31781
skipping SAM header line:	@SQ	SN:PGA_scaffold70919__1_contigs__length_35080	LN:35080
skipping SAM header line:	@SQ	SN:PGA_scaffold70967__1_contigs__length_30258	LN:30258
skipping SAM header line:	@SQ	SN:PGA_scaffold70990__1_contigs__length_44272	LN:44272
skipping SAM header line:	@SQ	SN:PGA_scaffold71003__1_contigs__length_32258	LN:32258
skipping SAM header line:	@SQ	SN:PGA_scaffold71016__1_contigs__length_52719	LN:52719
skipping SAM header line:	@SQ	SN:PGA_scaffold71023__1_contigs__length_42297	LN:42297
skipping SAM header line:	@SQ	SN:PGA_scaffold71024__1_contigs__length_37906	LN:37906
skipping SAM header line:	@SQ	SN:PGA_scaffold71080__1_contigs__length_35132	LN:35132
skipping SAM header line:	@SQ	SN:PGA_scaffold71087__1_contigs__length_36896	LN:36896
skipping SAM header line:	@SQ	SN:PGA_scaffold71091__1_contigs__length_33646	LN:33646
skipping SAM header line:	@SQ	SN:PGA_scaffold71150__1_contigs__length_30573	LN:30573
skipping SAM header line:	@SQ	SN:PGA_scaffold71155__1_contigs__length_32524	LN:32524
skipping SAM header line:	@SQ	SN:PGA_scaffold71157__1_contigs__length_46861	LN:46861
skipping SAM header line:	@SQ	SN:PGA_scaffold71196__1_contigs__length_54597	LN:54597
skipping SAM header line:	@SQ	SN:PGA_scaffold71206__1_contigs__length_30090	LN:30090
skipping SAM header line:	@SQ	SN:PGA_scaffold71207__1_contigs__length_51143	LN:51143
skipping SAM header line:	@SQ	SN:PGA_scaffold71213__1_contigs__length_30215	LN:30215
skipping SAM header line:	@SQ	SN:PGA_scaffold71232__1_contigs__length_34336	LN:34336
skipping SAM header line:	@SQ	SN:PGA_scaffold71242__1_contigs__length_41800	LN:41800
skipping SAM header line:	@SQ	SN:PGA_scaffold71274__1_contigs__length_40536	LN:40536
skipping SAM header line:	@SQ	SN:PGA_scaffold71303__1_contigs__length_45292	LN:45292
skipping SAM header line:	@SQ	SN:PGA_scaffold71306__1_contigs__length_30481	LN:30481
skipping SAM header line:	@SQ	SN:PGA_scaffold71307__1_contigs__length_42784	LN:42784
skipping SAM header line:	@SQ	SN:PGA_scaffold71310__1_contigs__length_31572	LN:31572
skipping SAM header line:	@SQ	SN:PGA_scaffold71339__1_contigs__length_31076	LN:31076
skipping SAM header line:	@SQ	SN:PGA_scaffold71346__1_contigs__length_42813	LN:42813
skipping SAM header line:	@SQ	SN:PGA_scaffold71395__1_contigs__length_38671	LN:38671
skipping SAM header line:	@SQ	SN:PGA_scaffold71397__1_contigs__length_30669	LN:30669
skipping SAM header line:	@SQ	SN:PGA_scaffold71455__1_contigs__length_57134	LN:57134
skipping SAM header line:	@SQ	SN:PGA_scaffold71488__1_contigs__length_33569	LN:33569
skipping SAM header line:	@SQ	SN:PGA_scaffold71520__1_contigs__length_33829	LN:33829
skipping SAM header line:	@SQ	SN:PGA_scaffold71528__1_contigs__length_39316	LN:39316
skipping SAM header line:	@SQ	SN:PGA_scaffold71579__1_contigs__length_45677	LN:45677
skipping SAM header line:	@SQ	SN:PGA_scaffold71639__1_contigs__length_32497	LN:32497
skipping SAM header line:	@SQ	SN:PGA_scaffold71656__1_contigs__length_30617	LN:30617
skipping SAM header line:	@SQ	SN:PGA_scaffold71660__1_contigs__length_43947	LN:43947
skipping SAM header line:	@SQ	SN:PGA_scaffold71671__1_contigs__length_34003	LN:34003
skipping SAM header line:	@SQ	SN:PGA_scaffold71686__1_contigs__length_54590	LN:54590
skipping SAM header line:	@SQ	SN:PGA_scaffold71700__1_contigs__length_34568	LN:34568
skipping SAM header line:	@SQ	SN:PGA_scaffold71705__1_contigs__length_48045	LN:48045
skipping SAM header line:	@SQ	SN:PGA_scaffold71710__1_contigs__length_40502	LN:40502
skipping SAM header line:	@SQ	SN:PGA_scaffold71755__1_contigs__length_38511	LN:38511
skipping SAM header line:	@SQ	SN:PGA_scaffold71779__1_contigs__length_40693	LN:40693
skipping SAM header line:	@SQ	SN:PGA_scaffold71795__1_contigs__length_34223	LN:34223
skipping SAM header line:	@SQ	SN:PGA_scaffold71803__1_contigs__length_46563	LN:46563
skipping SAM header line:	@SQ	SN:PGA_scaffold71804__1_contigs__length_43907	LN:43907
skipping SAM header line:	@SQ	SN:PGA_scaffold71811__1_contigs__length_63968	LN:63968
skipping SAM header line:	@SQ	SN:PGA_scaffold71834__1_contigs__length_41452	LN:41452
skipping SAM header line:	@SQ	SN:PGA_scaffold71860__1_contigs__length_59628	LN:59628
skipping SAM header line:	@SQ	SN:PGA_scaffold71861__1_contigs__length_58668	LN:58668
skipping SAM header line:	@SQ	SN:PGA_scaffold71870__1_contigs__length_62386	LN:62386
skipping SAM header line:	@SQ	SN:PGA_scaffold71876__1_contigs__length_78251	LN:78251
skipping SAM header line:	@SQ	SN:PGA_scaffold71891__1_contigs__length_32235	LN:32235
skipping SAM header line:	@SQ	SN:PGA_scaffold71897__1_contigs__length_31037	LN:31037
skipping SAM header line:	@SQ	SN:PGA_scaffold71912__1_contigs__length_30188	LN:30188
skipping SAM header line:	@SQ	SN:PGA_scaffold71942__1_contigs__length_31503	LN:31503
skipping SAM header line:	@SQ	SN:PGA_scaffold71943__1_contigs__length_31970	LN:31970
skipping SAM header line:	@SQ	SN:PGA_scaffold71993__1_contigs__length_39379	LN:39379
skipping SAM header line:	@SQ	SN:PGA_scaffold72048__1_contigs__length_41282	LN:41282
skipping SAM header line:	@SQ	SN:PGA_scaffold72054__1_contigs__length_45500	LN:45500
skipping SAM header line:	@SQ	SN:PGA_scaffold72055__1_contigs__length_38448	LN:38448
skipping SAM header line:	@SQ	SN:PGA_scaffold72064__1_contigs__length_49224	LN:49224
skipping SAM header line:	@SQ	SN:PGA_scaffold72068__1_contigs__length_34189	LN:34189
skipping SAM header line:	@SQ	SN:PGA_scaffold72069__1_contigs__length_33571	LN:33571
skipping SAM header line:	@SQ	SN:PGA_scaffold72098__1_contigs__length_32300	LN:32300
skipping SAM header line:	@SQ	SN:PGA_scaffold72102__1_contigs__length_48320	LN:48320
skipping SAM header line:	@SQ	SN:PGA_scaffold72124__1_contigs__length_40033	LN:40033
skipping SAM header line:	@SQ	SN:PGA_scaffold72126__1_contigs__length_39352	LN:39352
skipping SAM header line:	@SQ	SN:PGA_scaffold72140__1_contigs__length_32759	LN:32759
skipping SAM header line:	@SQ	SN:PGA_scaffold72146__1_contigs__length_30253	LN:30253
skipping SAM header line:	@SQ	SN:PGA_scaffold72158__1_contigs__length_30030	LN:30030
skipping SAM header line:	@SQ	SN:PGA_scaffold72192__1_contigs__length_36706	LN:36706
skipping SAM header line:	@SQ	SN:PGA_scaffold72203__1_contigs__length_32495	LN:32495
skipping SAM header line:	@SQ	SN:PGA_scaffold72213__1_contigs__length_50541	LN:50541
skipping SAM header line:	@SQ	SN:PGA_scaffold72225__1_contigs__length_34829	LN:34829
skipping SAM header line:	@SQ	SN:PGA_scaffold72252__1_contigs__length_37979	LN:37979
skipping SAM header line:	@SQ	SN:PGA_scaffold72282__1_contigs__length_53999	LN:53999
skipping SAM header line:	@SQ	SN:PGA_scaffold72348__1_contigs__length_34970	LN:34970
skipping SAM header line:	@SQ	SN:PGA_scaffold72363__1_contigs__length_51108	LN:51108
skipping SAM header line:	@SQ	SN:PGA_scaffold72392__1_contigs__length_64631	LN:64631
skipping SAM header line:	@SQ	SN:PGA_scaffold72407__1_contigs__length_43790	LN:43790
skipping SAM header line:	@SQ	SN:PGA_scaffold72408__1_contigs__length_33946	LN:33946
skipping SAM header line:	@SQ	SN:PGA_scaffold72417__1_contigs__length_30564	LN:30564
skipping SAM header line:	@SQ	SN:PGA_scaffold72453__1_contigs__length_31506	LN:31506
skipping SAM header line:	@SQ	SN:PGA_scaffold72480__1_contigs__length_68331	LN:68331
skipping SAM header line:	@SQ	SN:PGA_scaffold72481__1_contigs__length_33703	LN:33703
skipping SAM header line:	@SQ	SN:PGA_scaffold72488__1_contigs__length_34233	LN:34233
skipping SAM header line:	@SQ	SN:PGA_scaffold72564__1_contigs__length_73514	LN:73514
skipping SAM header line:	@SQ	SN:PGA_scaffold72616__1_contigs__length_45338	LN:45338
skipping SAM header line:	@SQ	SN:PGA_scaffold72628__1_contigs__length_62046	LN:62046
skipping SAM header line:	@SQ	SN:PGA_scaffold72633__1_contigs__length_32334	LN:32334
skipping SAM header line:	@SQ	SN:PGA_scaffold72646__1_contigs__length_42408	LN:42408
skipping SAM header line:	@SQ	SN:PGA_scaffold72695__1_contigs__length_45668	LN:45668
skipping SAM header line:	@SQ	SN:PGA_scaffold72750__1_contigs__length_35341	LN:35341
skipping SAM header line:	@SQ	SN:PGA_scaffold72771__1_contigs__length_32509	LN:32509
skipping SAM header line:	@SQ	SN:PGA_scaffold72781__1_contigs__length_40297	LN:40297
skipping SAM header line:	@SQ	SN:PGA_scaffold72853__1_contigs__length_44414	LN:44414
skipping SAM header line:	@SQ	SN:PGA_scaffold72971__1_contigs__length_35934	LN:35934
skipping SAM header line:	@SQ	SN:PGA_scaffold73010__1_contigs__length_40655	LN:40655
skipping SAM header line:	@SQ	SN:PGA_scaffold73051__1_contigs__length_30566	LN:30566
skipping SAM header line:	@SQ	SN:PGA_scaffold73063__1_contigs__length_31134	LN:31134
skipping SAM header line:	@SQ	SN:PGA_scaffold73106__1_contigs__length_43715	LN:43715
skipping SAM header line:	@SQ	SN:PGA_scaffold73248__1_contigs__length_33079	LN:33079
skipping SAM header line:	@SQ	SN:PGA_scaffold73249__1_contigs__length_30228	LN:30228
skipping SAM header line:	@SQ	SN:PGA_scaffold73264__1_contigs__length_37818	LN:37818
skipping SAM header line:	@SQ	SN:PGA_scaffold74017__1_contigs__length_32278	LN:32278
skipping SAM header line:	@SQ	SN:PGA_scaffold74018__1_contigs__length_32278	LN:32278
skipping SAM header line:	@SQ	SN:PGA_scaffold76166__1_contigs__length_39785	LN:39785
skipping SAM header line:	@SQ	SN:PGA_scaffold76167__1_contigs__length_39785	LN:39785
skipping SAM header line:	@SQ	SN:PGA_scaffold76168__1_contigs__length_39717	LN:39717
skipping SAM header line:	@SQ	SN:PGA_scaffold76169__1_contigs__length_39717	LN:39717
skipping SAM header line:	@SQ	SN:PGA_scaffold79402__1_contigs__length_47506	LN:47506
skipping SAM header line:	@SQ	SN:PGA_scaffold79403__1_contigs__length_47506	LN:47506
skipping SAM header line:	@SQ	SN:PGA_scaffold79404__1_contigs__length_47487	LN:47487
skipping SAM header line:	@SQ	SN:PGA_scaffold79405__1_contigs__length_47487	LN:47487
skipping SAM header line:	@SQ	SN:PGA_scaffold81198__1_contigs__length_30077	LN:30077
skipping SAM header line:	@SQ	SN:PGA_scaffold81199__1_contigs__length_30077	LN:30077
skipping SAM header line:	@SQ	SN:PGA_scaffold82842__1_contigs__length_39037	LN:39037
skipping SAM header line:	@SQ	SN:PGA_scaffold82843__1_contigs__length_39038	LN:39038
skipping SAM header line:	@SQ	SN:PGA_scaffold82844__1_contigs__length_39037	LN:39037
skipping SAM header line:	@SQ	SN:PGA_scaffold82845__1_contigs__length_39038	LN:39038
skipping SAM header line:	@SQ	SN:PGA_scaffold82846__1_contigs__length_30206	LN:30206
skipping SAM header line:	@SQ	SN:PGA_scaffold82847__1_contigs__length_30206	LN:30206
skipping SAM header line:	@SQ	SN:PGA_scaffold83718__1_contigs__length_30091	LN:30091
skipping SAM header line:	@SQ	SN:PGA_scaffold83719__1_contigs__length_30091	LN:30091
skipping SAM header line:	@SQ	SN:PGA_scaffold83732__1_contigs__length_30091	LN:30091
skipping SAM header line:	@SQ	SN:PGA_scaffold83733__1_contigs__length_30091	LN:30091
skipping SAM header line:	@SQ	SN:PGA_scaffold84570__1_contigs__length_34138	LN:34138
skipping SAM header line:	@SQ	SN:PGA_scaffold84571__1_contigs__length_34138	LN:34138
skipping SAM header line:	@SQ	SN:PGA_scaffold86623__1_contigs__length_31971	LN:31971
skipping SAM header line:	@SQ	SN:PGA_scaffold86624__1_contigs__length_31971	LN:31971
skipping SAM header line:	@SQ	SN:PGA_scaffold86625__1_contigs__length_31971	LN:31971
skipping SAM header line:	@SQ	SN:PGA_scaffold86626__1_contigs__length_31971	LN:31971
skipping SAM header line:	@SQ	SN:PGA_scaffold86671__1_contigs__length_30077	LN:30077
skipping SAM header line:	@SQ	SN:PGA_scaffold86672__1_contigs__length_30077	LN:30077
skipping SAM header line:	@SQ	SN:PGA_scaffold87729__1_contigs__length_32896	LN:32896
skipping SAM header line:	@SQ	SN:PGA_scaffold87730__1_contigs__length_32896	LN:32896
skipping SAM header line:	@SQ	SN:PGA_scaffold87737__1_contigs__length_32896	LN:32896
skipping SAM header line:	@SQ	SN:PGA_scaffold87738__1_contigs__length_32896	LN:32896
skipping SAM header line:	@SQ	SN:PGA_scaffold87931__1_contigs__length_38482	LN:38482
skipping SAM header line:	@SQ	SN:PGA_scaffold87935__1_contigs__length_38482	LN:38482
skipping SAM header line:	@SQ	SN:PGA_scaffold92389__1_contigs__length_30012	LN:30012
skipping SAM header line:	@SQ	SN:PGA_scaffold92391__1_contigs__length_30012	LN:30012
skipping SAM header line:	@SQ	SN:PGA_scaffold97179__1_contigs__length_37332	LN:37332
skipping SAM header line:	@SQ	SN:PGA_scaffold97181__1_contigs__length_41673	LN:41673
skipping SAM header line:	@SQ	SN:PGA_scaffold97182__1_contigs__length_37332	LN:37332
skipping SAM header line:	@SQ	SN:PGA_scaffold97184__1_contigs__length_41673	LN:41673
skipping SAM header line:	@SQ	SN:PGA_scaffold99123__1_contigs__length_38482	LN:38482
skipping SAM header line:	@SQ	SN:PGA_scaffold99127__1_contigs__length_38482	LN:38482
skipping SAM header line:	@SQ	SN:PGA_scaffold99731__1_contigs__length_75786	LN:75786
skipping SAM header line:	@SQ	SN:PGA_scaffold99732__1_contigs__length_75786	LN:75786
skipping SAM header line:	@SQ	SN:PGA_scaffold99735__1_contigs__length_75899	LN:75899
skipping SAM header line:	@SQ	SN:PGA_scaffold99736__1_contigs__length_75899	LN:75899
skipping SAM header line:	@SQ	SN:PGA_scaffold101565__1_contigs__length_30499	LN:30499
skipping SAM header line:	@SQ	SN:PGA_scaffold101566__1_contigs__length_30495	LN:30495
skipping SAM header line:	@SQ	SN:PGA_scaffold101567__1_contigs__length_30499	LN:30499
skipping SAM header line:	@SQ	SN:PGA_scaffold101568__1_contigs__length_30495	LN:30495
skipping SAM header line:	@SQ	SN:PGA_scaffold106923__1_contigs__length_30932	LN:30932
skipping SAM header line:	@SQ	SN:PGA_scaffold106925__1_contigs__length_30932	LN:30932
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skipping SAM header line:	@SQ	SN:PGA_scaffold108273__1_contigs__length_30942	LN:30942
skipping SAM header line:	@SQ	SN:PGA_scaffold117375__1_contigs__length_30942	LN:30942
skipping SAM header line:	@SQ	SN:PGA_scaffold117376__1_contigs__length_30942	LN:30942
skipping SAM header line:	@SQ	SN:PGA_scaffold119737__1_contigs__length_33110	LN:33110
skipping SAM header line:	@SQ	SN:PGA_scaffold119738__1_contigs__length_33110	LN:33110
skipping SAM header line:	@SQ	SN:PGA_scaffold119739__1_contigs__length_31617	LN:31617
skipping SAM header line:	@SQ	SN:PGA_scaffold119740__1_contigs__length_31617	LN:31617
skipping SAM header line:	@SQ	SN:PGA_scaffold120239__1_contigs__length_36781	LN:36781
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skipping SAM header line:	@SQ	SN:PGA_scaffold120241__1_contigs__length_36781	LN:36781
skipping SAM header line:	@SQ	SN:PGA_scaffold120242__1_contigs__length_36781	LN:36781
skipping SAM header line:	@SQ	SN:PGA_scaffold120243__1_contigs__length_49726	LN:49726
skipping SAM header line:	@SQ	SN:PGA_scaffold120244__1_contigs__length_49726	LN:49726
skipping SAM header line:	@SQ	SN:PGA_scaffold120245__1_contigs__length_49726	LN:49726
skipping SAM header line:	@SQ	SN:PGA_scaffold120246__1_contigs__length_49726	LN:49726
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skipping SAM header line:	@SQ	SN:PGA_scaffold154515__1_contigs__length_33776	LN:33776
skipping SAM header line:	@SQ	SN:PGA_scaffold154516__1_contigs__length_32931	LN:32931
skipping SAM header line:	@SQ	SN:PGA_scaffold154517__1_contigs__length_33776	LN:33776
skipping SAM header line:	@SQ	SN:PGA_scaffold171090__1_contigs__length_40008	LN:40008
skipping SAM header line:	@SQ	SN:PGA_scaffold171093__1_contigs__length_36014	LN:36014
skipping SAM header line:	@SQ	SN:PGA_scaffold171096__1_contigs__length_40008	LN:40008
skipping SAM header line:	@SQ	SN:PGA_scaffold171099__1_contigs__length_36014	LN:36014
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skipping SAM header line:	@SQ	SN:PGA_scaffold194555__1_contigs__length_30975	LN:30975
skipping SAM header line:	@SQ	SN:PGA_scaffold194556__1_contigs__length_31716	LN:31716
skipping SAM header line:	@SQ	SN:PGA_scaffold194557__1_contigs__length_30975	LN:30975
skipping SAM header line:	@SQ	SN:PGA_scaffold255542__1_contigs__length_50114	LN:50114
skipping SAM header line:	@SQ	SN:PGA_scaffold255543__1_contigs__length_50117	LN:50117
skipping SAM header line:	@SQ	SN:PGA_scaffold255904__1_contigs__length_46780	LN:46780
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skipping SAM header line:	@SQ	SN:PGA_scaffold263124__1_contigs__length_40816	LN:40816
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skipping SAM header line:	@SQ	SN:PGA_scaffold263622__1_contigs__length_39587	LN:39587
skipping SAM header line:	@SQ	SN:PGA_scaffold263623__1_contigs__length_39587	LN:39587
skipping SAM header line:	@SQ	SN:PGA_scaffold263624__1_contigs__length_40134	LN:40134
skipping SAM header line:	@SQ	SN:PGA_scaffold263625__1_contigs__length_40134	LN:40134
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skipping SAM header line:	@SQ	SN:PGA_scaffold268915__1_contigs__length_31931	LN:31931
skipping SAM header line:	@SQ	SN:PGA_scaffold271760__1_contigs__length_33464	LN:33464
skipping SAM header line:	@SQ	SN:PGA_scaffold271761__1_contigs__length_33464	LN:33464
skipping SAM header line:	@SQ	SN:PGA_scaffold272940__1_contigs__length_35972	LN:35972
skipping SAM header line:	@SQ	SN:PGA_scaffold272941__1_contigs__length_35972	LN:35972
skipping SAM header line:	@SQ	SN:PGA_scaffold272956__1_contigs__length_35996	LN:35996
skipping SAM header line:	@SQ	SN:PGA_scaffold272959__1_contigs__length_35996	LN:35996
skipping SAM header line:	@SQ	SN:PGA_scaffold273988__1_contigs__length_31624	LN:31624
skipping SAM header line:	@SQ	SN:PGA_scaffold273989__1_contigs__length_31624	LN:31624
skipping SAM header line:	@SQ	SN:PGA_scaffold277662__1_contigs__length_30051	LN:30051
skipping SAM header line:	@SQ	SN:PGA_scaffold277663__1_contigs__length_30051	LN:30051
skipping SAM header line:	@SQ	SN:PGA_scaffold278160__1_contigs__length_30268	LN:30268
skipping SAM header line:	@SQ	SN:PGA_scaffold278161__1_contigs__length_30273	LN:30273
skipping SAM header line:	@SQ	SN:PGA_scaffold278162__1_contigs__length_30222	LN:30222
skipping SAM header line:	@SQ	SN:PGA_scaffold278163__1_contigs__length_30222	LN:30222
skipping SAM header line:	@SQ	SN:PGA_scaffold278180__1_contigs__length_33717	LN:33717
skipping SAM header line:	@SQ	SN:PGA_scaffold278181__1_contigs__length_33649	LN:33649
skipping SAM header line:	@SQ	SN:PGA_scaffold278184__1_contigs__length_33717	LN:33717
skipping SAM header line:	@SQ	SN:PGA_scaffold278185__1_contigs__length_33649	LN:33649
skipping SAM header line:	@SQ	SN:PGA_scaffold279338__1_contigs__length_30392	LN:30392
skipping SAM header line:	@SQ	SN:PGA_scaffold279341__1_contigs__length_30392	LN:30392
skipping SAM header line:	@SQ	SN:PGA_scaffold279343__1_contigs__length_30179	LN:30179
skipping SAM header line:	@SQ	SN:PGA_scaffold279345__1_contigs__length_30179	LN:30179
skipping SAM header line:	@SQ	SN:PGA_scaffold279502__1_contigs__length_48118	LN:48118
skipping SAM header line:	@SQ	SN:PGA_scaffold279503__1_contigs__length_48118	LN:48118
skipping SAM header line:	@SQ	SN:PGA_scaffold279506__1_contigs__length_48108	LN:48108
skipping SAM header line:	@SQ	SN:PGA_scaffold279509__1_contigs__length_48108	LN:48108
skipping SAM header line:	@SQ	SN:PGA_scaffold279842__1_contigs__length_34049	LN:34049
skipping SAM header line:	@SQ	SN:PGA_scaffold279843__1_contigs__length_34049	LN:34049
skipping SAM header line:	@SQ	SN:PGA_scaffold279844__1_contigs__length_34085	LN:34085
skipping SAM header line:	@SQ	SN:PGA_scaffold279845__1_contigs__length_34085	LN:34085
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skipping SAM header line:	@SQ	SN:PGA_scaffold280227__1_contigs__length_31931	LN:31931
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skipping SAM header line:	@SQ	SN:PGA_scaffold287836__1_contigs__length_32587	LN:32587
skipping SAM header line:	@SQ	SN:PGA_scaffold288596__1_contigs__length_32587	LN:32587
skipping SAM header line:	@SQ	SN:PGA_scaffold288598__1_contigs__length_32587	LN:32587
skipping SAM header line:	@SQ	SN:PGA_scaffold289678__1_contigs__length_30759	LN:30759
skipping SAM header line:	@SQ	SN:PGA_scaffold289679__1_contigs__length_30809	LN:30809
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skipping SAM header line:	@SQ	SN:PGA_scaffold289681__1_contigs__length_30809	LN:30809
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skipping SAM header line:	@SQ	SN:PGA_scaffold290061__1_contigs__length_48647	LN:48647
skipping SAM header line:	@SQ	SN:PGA_scaffold290062__1_contigs__length_49220	LN:49220
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skipping SAM header line:	@SQ	SN:PGA_scaffold290128__1_contigs__length_40039	LN:40039
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skipping SAM header line:	@SQ	SN:PGA_scaffold290131__1_contigs__length_40036	LN:40036
skipping SAM header line:	@SQ	SN:PGA_scaffold290350__1_contigs__length_46122	LN:46122
skipping SAM header line:	@SQ	SN:PGA_scaffold290351__1_contigs__length_46262	LN:46262
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skipping SAM header line:	@SQ	SN:PGA_scaffold291983__1_contigs__length_31951	LN:31951
skipping SAM header line:	@SQ	SN:PGA_scaffold291984__1_contigs__length_41032	LN:41032
skipping SAM header line:	@SQ	SN:PGA_scaffold291985__1_contigs__length_31951	LN:31951
skipping SAM header line:	@SQ	SN:PGA_scaffold292612__1_contigs__length_51603	LN:51603
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skipping SAM header line:	@SQ	SN:PGA_scaffold292818__1_contigs__length_41015	LN:41015
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skipping SAM header line:	@SQ	SN:PGA_scaffold293875__1_contigs__length_43356	LN:43356
skipping SAM header line:	@SQ	SN:PGA_scaffold293876__1_contigs__length_43357	LN:43357
skipping SAM header line:	@SQ	SN:PGA_scaffold293877__1_contigs__length_43356	LN:43356
skipping SAM header line:	@SQ	SN:PGA_scaffold294324__1_contigs__length_47529	LN:47529
skipping SAM header line:	@SQ	SN:PGA_scaffold294325__1_contigs__length_47529	LN:47529
skipping SAM header line:	@SQ	SN:PGA_scaffold294326__1_contigs__length_47768	LN:47768
skipping SAM header line:	@SQ	SN:PGA_scaffold294327__1_contigs__length_47768	LN:47768
skipping SAM header line:	@SQ	SN:PGA_scaffold295690__1_contigs__length_31107	LN:31107
skipping SAM header line:	@SQ	SN:PGA_scaffold295691__1_contigs__length_30960	LN:30960
skipping SAM header line:	@SQ	SN:PGA_scaffold295692__1_contigs__length_31107	LN:31107
skipping SAM header line:	@SQ	SN:PGA_scaffold295693__1_contigs__length_30960	LN:30960
skipping SAM header line:	@SQ	SN:PGA_scaffold296170__1_contigs__length_41015	LN:41015
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skipping SAM header line:	@SQ	SN:PGA_scaffold296350__1_contigs__length_51555	LN:51555
skipping SAM header line:	@SQ	SN:PGA_scaffold296351__1_contigs__length_51555	LN:51555
skipping SAM header line:	@SQ	SN:PGA_scaffold296682__1_contigs__length_45988	LN:45988
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skipping SAM header line:	@SQ	SN:PGA_scaffold313649__2_contigs__length_2716785	LN:2716785
skipping SAM header line:	@PG	ID:Bismark	VN:v0.19.0	CL:"bismark --path_to_bowtie /gscratch/srlab/programs/bowtie2-2.3.4.1-linux-x86_64 --samtools_path /gscratch/srlab/programs/samtools-1.9 --score_min L,0,-1.2 -I 60 -p 28 --genome /gscratch/srlab/strigg/data/Pgenr/Pgenr_070_30K/ -1 /gscratch/srlab/strigg/data/Pgenr/FASTQS/data_for_genome_comparison/EPI-119_S31_L005_R1_001_val_1.fq.gz -2 /gscratch/srlab/strigg/data/Pgenr/FASTQS/data_for_genome_comparison/EPI-119_S31_L005_R2_001_val_2.fq.gz -o /gscratch/srlab/strigg/analyses/20190214_30K"
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Merging individual splitting reports into overall report: '/gscratch/srlab/strigg/analyses/20190214_30K/EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated_splitting_report.txt'
Merging from these individual files:

Processed 13039685 lines in total
Total number of methylation call strings processed: 26079370

Final Cytosine Methylation Report
=================================
Total number of C's analysed:	310042817

Total methylated C's in CpG context:	9991454
Total methylated C's in CHG context:	1473467
Total methylated C's in CHH context:	3407120

Total C to T conversions in CpG context:	33514721
Total C to T conversions in CHG context:	62516201
Total C to T conversions in CHH context:	199139854

C methylated in CpG context:	23.0%
C methylated in CHG context:	2.3%
C methylated in CHH context:	1.7%



Merging individual M-bias reports into overall M-bias statistics from these 28 individual files:
Determining maximum read lengths for M-Bias plots
Maximum read length of Read 1: 101
Maximum read length of Read 2: 99

Perl module GD::Graph::lines is not installed, skipping drawing M-bias plots (only writing out M-bias plot table)
Determining maximum read lengths for M-Bias plots
Maximum read length of Read 1: 101
Maximum read length of Read 2: 99

Perl module GD::Graph::lines is not installed, skipping drawing M-bias plots (only writing out M-bias plot table)
Deleting unused files ...

/gscratch/srlab/strigg/analyses/20190214_30K/CpG_OT_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt contains data ->	kept
/gscratch/srlab/strigg/analyses/20190214_30K/CpG_CTOT_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt was empty ->	deleted
/gscratch/srlab/strigg/analyses/20190214_30K/CpG_CTOB_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt was empty ->	deleted
/gscratch/srlab/strigg/analyses/20190214_30K/CpG_OB_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt contains data ->	kept
/gscratch/srlab/strigg/analyses/20190214_30K/CHG_OT_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt contains data ->	kept
/gscratch/srlab/strigg/analyses/20190214_30K/CHG_CTOT_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt was empty ->	deleted
/gscratch/srlab/strigg/analyses/20190214_30K/CHG_CTOB_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt was empty ->	deleted
/gscratch/srlab/strigg/analyses/20190214_30K/CHG_OB_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt contains data ->	kept
/gscratch/srlab/strigg/analyses/20190214_30K/CHH_OT_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt contains data ->	kept
/gscratch/srlab/strigg/analyses/20190214_30K/CHH_CTOT_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt was empty ->	deleted
/gscratch/srlab/strigg/analyses/20190214_30K/CHH_CTOB_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt was empty ->	deleted
/gscratch/srlab/strigg/analyses/20190214_30K/CHH_OB_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt contains data ->	kept


Using these input files: /gscratch/srlab/strigg/analyses/20190214_30K/CpG_OT_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt /gscratch/srlab/strigg/analyses/20190214_30K/CpG_OB_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt /gscratch/srlab/strigg/analyses/20190214_30K/CHG_OT_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt /gscratch/srlab/strigg/analyses/20190214_30K/CHG_OB_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt /gscratch/srlab/strigg/analyses/20190214_30K/CHH_OT_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt /gscratch/srlab/strigg/analyses/20190214_30K/CHH_OB_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt

Summary of parameters for bismark2bedGraph conversion:
======================================================
bedGraph output:		EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bedGraph.gz
output directory:		>/gscratch/srlab/strigg/analyses/20190214_30K/<
remove whitespaces:		no
CX context:			no (CpG context only, default)
No-header selected:		no
Sorting method:			Unix sort-based (smaller memory footprint, but slower)
Sort buffer size:		2G
Coverage threshold:		1
=============================================================================
Methylation information will now be written into a bedGraph and coverage file
=============================================================================

Using the following files as Input:
Writing bedGraph to file: EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bedGraph.gz
Also writing out a coverage file including counts methylated and unmethylated residues to file: EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bismark.cov.gz

Changed directory to /gscratch/srlab/strigg/analyses/20190214_30K/
The genome of interest was specified to contain gazillions of chromosomes or scaffolds. Merging all input files and sorting everything in memory instead of writing out individual chromosome files...
Writing all merged methylation calls to temp file EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bedGraph.gz.methylation_calls.merged

Finished writing methylation calls from CpG_OT_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt to merged temp file
Finished writing methylation calls from CpG_OB_EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt to merged temp file
Sorting input file EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bedGraph.gz.methylation_calls.merged by positions (using -S of 2G)
Successfully deleted the temporary input file EPI-119_S31_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bedGraph.gz.methylation_calls.merged

Finished BedGraph conversion ...

Checking file >>/gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam<< for signs of file truncation...

...passed!
Writing result file containing methylation information for C in CpG context from the original top strand to /gscratch/srlab/strigg/analyses/20190214_30K/CpG_OT_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CpG context from the complementary to original top strand to /gscratch/srlab/strigg/analyses/20190214_30K/CpG_CTOT_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CpG context from the complementary to original bottom strand to /gscratch/srlab/strigg/analyses/20190214_30K/CpG_CTOB_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CpG context from the original bottom strand to /gscratch/srlab/strigg/analyses/20190214_30K/CpG_OB_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt

Writing result file containing methylation information for C in CHG context from the original top strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHG_OT_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CHG context from the complementary to original top strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHG_CTOT_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CHG context from the complementary to original bottom strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHG_CTOB_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CHG context from the original bottom strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHG_OB_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt

Writing result file containing methylation information for C in CHH context from the original top strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHH_OT_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CHH context from the complementary to original top strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHH_CTOT_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CHH context from the complementary to original bottom strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHH_CTOB_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt
Writing result file containing methylation information for C in CHH context from the original bottom strand to /gscratch/srlab/strigg/analyses/20190214_30K/CHH_OB_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.
Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam


Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.
Warning: unable to close filehandle IN properly.
Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.

Now reading in Bismark result file /gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bam

Warning: unable to close filehandle IN properly.
skipping SAM header line:	@HD	VN:1.0	SO:unsorted
skipping SAM header line:	@SQ	SN:PGA_scaffold1__77_contigs__length_89643857	LN:89643857
skipping SAM header line:	@SQ	SN:PGA_scaffold2__36_contigs__length_69596280	LN:69596280
skipping SAM header line:	@SQ	SN:PGA_scaffold3__111_contigs__length_57743597	LN:57743597
skipping SAM header line:	@SQ	SN:PGA_scaffold4__129_contigs__length_65288255	LN:65288255
skipping SAM header line:	@SQ	SN:PGA_scaffold5__109_contigs__length_67248332	LN:67248332
skipping SAM header line:	@SQ	SN:PGA_scaffold6__104_contigs__length_61759565	LN:61759565
skipping SAM header line:	@SQ	SN:PGA_scaffold7__69_contigs__length_43120122	LN:43120122
skipping SAM header line:	@SQ	SN:PGA_scaffold8__63_contigs__length_61151155	LN:61151155
skipping SAM header line:	@SQ	SN:PGA_scaffold9__45_contigs__length_38581958	LN:38581958
skipping SAM header line:	@SQ	SN:PGA_scaffold10__49_contigs__length_53961475	LN:53961475
skipping SAM header line:	@SQ	SN:PGA_scaffold11__79_contigs__length_51449921	LN:51449921
skipping SAM header line:	@SQ	SN:PGA_scaffold12__71_contigs__length_50438331	LN:50438331
skipping SAM header line:	@SQ	SN:PGA_scaffold13__52_contigs__length_44396874	LN:44396874
skipping SAM header line:	@SQ	SN:PGA_scaffold14__91_contigs__length_45393038	LN:45393038
skipping SAM header line:	@SQ	SN:PGA_scaffold15__101_contigs__length_47938513	LN:47938513
skipping SAM header line:	@SQ	SN:PGA_scaffold16__33_contigs__length_31980953	LN:31980953
skipping SAM header line:	@SQ	SN:PGA_scaffold17__51_contigs__length_34923512	LN:34923512
skipping SAM header line:	@SQ	SN:PGA_scaffold18__69_contigs__length_27737463	LN:27737463
skipping SAM header line:	@SQ	SN:PGA_scaffold100__1_contigs__length_37850	LN:37850
skipping SAM header line:	@SQ	SN:PGA_scaffold101__1_contigs__length_30584	LN:30584
skipping SAM header line:	@SQ	SN:PGA_scaffold102__1_contigs__length_45787	LN:45787
skipping SAM header line:	@SQ	SN:PGA_scaffold104__1_contigs__length_44353	LN:44353
skipping SAM header line:	@SQ	SN:PGA_scaffold105__1_contigs__length_50812	LN:50812
skipping SAM header line:	@SQ	SN:PGA_scaffold108__1_contigs__length_37373	LN:37373
skipping SAM header line:	@SQ	SN:PGA_scaffold109__1_contigs__length_31266	LN:31266
skipping SAM header line:	@SQ	SN:PGA_scaffold117__1_contigs__length_33965	LN:33965
skipping SAM header line:	@SQ	SN:PGA_scaffold118__1_contigs__length_78741	LN:78741
skipping SAM header line:	@SQ	SN:PGA_scaffold120__1_contigs__length_36635	LN:36635
skipping SAM header line:	@SQ	SN:PGA_scaffold122__1_contigs__length_44468	LN:44468
skipping SAM header line:	@SQ	SN:PGA_scaffold123__1_contigs__length_30311	LN:30311
skipping SAM header line:	@SQ	SN:PGA_scaffold124__1_contigs__length_35932	LN:35932
skipping SAM header line:	@SQ	SN:PGA_scaffold126__1_contigs__length_40575	LN:40575
skipping SAM header line:	@SQ	SN:PGA_scaffold130__1_contigs__length_89923	LN:89923
skipping SAM header line:	@SQ	SN:PGA_scaffold142__1_contigs__length_38690	LN:38690
skipping SAM header line:	@SQ	SN:PGA_scaffold143__1_contigs__length_40513	LN:40513
skipping SAM header line:	@SQ	SN:PGA_scaffold149__1_contigs__length_50731	LN:50731
skipping SAM header line:	@SQ	SN:PGA_scaffold156__1_contigs__length_34729	LN:34729
skipping SAM header line:	@SQ	SN:PGA_scaffold160__1_contigs__length_78292	LN:78292
skipping SAM header line:	@SQ	SN:PGA_scaffold162__1_contigs__length_44264	LN:44264
skipping SAM header line:	@SQ	SN:PGA_scaffold169__1_contigs__length_31898	LN:31898
skipping SAM header line:	@SQ	SN:PGA_scaffold170__1_contigs__length_35798	LN:35798
skipping SAM header line:	@SQ	SN:PGA_scaffold176__1_contigs__length_36388	LN:36388
skipping SAM header line:	@SQ	SN:PGA_scaffold183__1_contigs__length_41623	LN:41623
skipping SAM header line:	@SQ	SN:PGA_scaffold187__1_contigs__length_34318	LN:34318
skipping SAM header line:	@SQ	SN:PGA_scaffold192__1_contigs__length_44989	LN:44989
skipping SAM header line:	@SQ	SN:PGA_scaffold195__1_contigs__length_32961	LN:32961
skipping SAM header line:	@SQ	SN:PGA_scaffold198__1_contigs__length_42303	LN:42303
skipping SAM header line:	@SQ	SN:PGA_scaffold204__1_contigs__length_55275	LN:55275
skipping SAM header line:	@SQ	SN:PGA_scaffold208__1_contigs__length_57345	LN:57345
skipping SAM header line:	@SQ	SN:PGA_scaffold210__1_contigs__length_33808	LN:33808
skipping SAM header line:	@SQ	SN:PGA_scaffold218__1_contigs__length_46309	LN:46309
skipping SAM header line:	@SQ	SN:PGA_scaffold219__1_contigs__length_36659	LN:36659
skipping SAM header line:	@SQ	SN:PGA_scaffold222__1_contigs__length_32402	LN:32402
skipping SAM header line:	@SQ	SN:PGA_scaffold224__1_contigs__length_62707	LN:62707
skipping SAM header line:	@SQ	SN:PGA_scaffold227__1_contigs__length_76686	LN:76686
skipping SAM header line:	@SQ	SN:PGA_scaffold232__1_contigs__length_52758	LN:52758
skipping SAM header line:	@SQ	SN:PGA_scaffold233__1_contigs__length_37710	LN:37710
skipping SAM header line:	@SQ	SN:PGA_scaffold241__1_contigs__length_58227	LN:58227
skipping SAM header line:	@SQ	SN:PGA_scaffold248__1_contigs__length_42538	LN:42538
skipping SAM header line:	@SQ	SN:PGA_scaffold250__1_contigs__length_58865	LN:58865
skipping SAM header line:	@SQ	SN:PGA_scaffold252__1_contigs__length_58739	LN:58739
skipping SAM header line:	@SQ	SN:PGA_scaffold258__1_contigs__length_1101056	LN:1101056
skipping SAM header line:	@SQ	SN:PGA_scaffold263__1_contigs__length_39634	LN:39634
skipping SAM header line:	@SQ	SN:PGA_scaffold266__1_contigs__length_45904	LN:45904
skipping SAM header line:	@SQ	SN:PGA_scaffold271__1_contigs__length_30650	LN:30650
skipping SAM header line:	@SQ	SN:PGA_scaffold278__1_contigs__length_30505	LN:30505
skipping SAM header line:	@SQ	SN:PGA_scaffold298__1_contigs__length_47389	LN:47389
skipping SAM header line:	@SQ	SN:PGA_scaffold302__1_contigs__length_34996	LN:34996
skipping SAM header line:	@SQ	SN:PGA_scaffold312__1_contigs__length_71876	LN:71876
skipping SAM header line:	@SQ	SN:PGA_scaffold314__1_contigs__length_44723	LN:44723
skipping SAM header line:	@SQ	SN:PGA_scaffold323__1_contigs__length_1799026	LN:1799026
skipping SAM header line:	@SQ	SN:PGA_scaffold331__1_contigs__length_34410	LN:34410
skipping SAM header line:	@SQ	SN:PGA_scaffold335__1_contigs__length_41679	LN:41679
skipping SAM header line:	@SQ	SN:PGA_scaffold358__1_contigs__length_61761	LN:61761
skipping SAM header line:	@SQ	SN:PGA_scaffold362__1_contigs__length_32622	LN:32622
skipping SAM header line:	@SQ	SN:PGA_scaffold365__1_contigs__length_48417	LN:48417
skipping SAM header line:	@SQ	SN:PGA_scaffold366__1_contigs__length_31395	LN:31395
skipping SAM header line:	@SQ	SN:PGA_scaffold373__1_contigs__length_38341	LN:38341
skipping SAM header line:	@SQ	SN:PGA_scaffold390__1_contigs__length_33430	LN:33430
skipping SAM header line:	@SQ	SN:PGA_scaffold391__1_contigs__length_51723	LN:51723
skipping SAM header line:	@SQ	SN:PGA_scaffold396__1_contigs__length_39796	LN:39796
skipping SAM header line:	@SQ	SN:PGA_scaffold401__1_contigs__length_32839	LN:32839
skipping SAM header line:	@SQ	SN:PGA_scaffold407__1_contigs__length_92797	LN:92797
skipping SAM header line:	@SQ	SN:PGA_scaffold410__1_contigs__length_34202	LN:34202
skipping SAM header line:	@SQ	SN:PGA_scaffold413__1_contigs__length_35409	LN:35409
skipping SAM header line:	@SQ	SN:PGA_scaffold414__1_contigs__length_32258	LN:32258
skipping SAM header line:	@SQ	SN:PGA_scaffold416__1_contigs__length_69472	LN:69472
skipping SAM header line:	@SQ	SN:PGA_scaffold419__1_contigs__length_39080	LN:39080
skipping SAM header line:	@SQ	SN:PGA_scaffold420__1_contigs__length_38263	LN:38263
skipping SAM header line:	@SQ	SN:PGA_scaffold421__1_contigs__length_46195	LN:46195
skipping SAM header line:	@SQ	SN:PGA_scaffold427__1_contigs__length_35190	LN:35190
skipping SAM header line:	@SQ	SN:PGA_scaffold430__1_contigs__length_75279	LN:75279
skipping SAM header line:	@SQ	SN:PGA_scaffold434__1_contigs__length_41015	LN:41015
skipping SAM header line:	@SQ	SN:PGA_scaffold436__1_contigs__length_43688	LN:43688
skipping SAM header line:	@SQ	SN:PGA_scaffold443__1_contigs__length_72424	LN:72424
skipping SAM header line:	@SQ	SN:PGA_scaffold447__1_contigs__length_52487	LN:52487
skipping SAM header line:	@SQ	SN:PGA_scaffold448__1_contigs__length_63737	LN:63737
skipping SAM header line:	@SQ	SN:PGA_scaffold449__1_contigs__length_39915	LN:39915
skipping SAM header line:	@SQ	SN:PGA_scaffold451__1_contigs__length_35032	LN:35032
skipping SAM header line:	@SQ	SN:PGA_scaffold456__1_contigs__length_65608	LN:65608
skipping SAM header line:	@SQ	SN:PGA_scaffold460__1_contigs__length_33778	LN:33778
skipping SAM header line:	@SQ	SN:PGA_scaffold462__1_contigs__length_40118	LN:40118
skipping SAM header line:	@SQ	SN:PGA_scaffold464__1_contigs__length_37366	LN:37366
skipping SAM header line:	@SQ	SN:PGA_scaffold466__1_contigs__length_54285	LN:54285
skipping SAM header line:	@SQ	SN:PGA_scaffold474__1_contigs__length_53531	LN:53531
skipping SAM header line:	@SQ	SN:PGA_scaffold477__1_contigs__length_34283	LN:34283
skipping SAM header line:	@SQ	SN:PGA_scaffold490__1_contigs__length_38803	LN:38803
skipping SAM header line:	@SQ	SN:PGA_scaffold492__1_contigs__length_55775	LN:55775
skipping SAM header line:	@SQ	SN:PGA_scaffold497__1_contigs__length_30850	LN:30850
skipping SAM header line:	@SQ	SN:PGA_scaffold499__1_contigs__length_33044	LN:33044
skipping SAM header line:	@SQ	SN:PGA_scaffold500__1_contigs__length_54033	LN:54033
skipping SAM header line:	@SQ	SN:PGA_scaffold505__1_contigs__length_53330	LN:53330
skipping SAM header line:	@SQ	SN:PGA_scaffold508__1_contigs__length_47880	LN:47880
skipping SAM header line:	@SQ	SN:PGA_scaffold510__1_contigs__length_35714	LN:35714
skipping SAM header line:	@SQ	SN:PGA_scaffold512__1_contigs__length_43118	LN:43118
skipping SAM header line:	@SQ	SN:PGA_scaffold513__1_contigs__length_104957	LN:104957
skipping SAM header line:	@SQ	SN:PGA_scaffold536__1_contigs__length_43921	LN:43921
skipping SAM header line:	@SQ	SN:PGA_scaffold537__1_contigs__length_41859	LN:41859
skipping SAM header line:	@SQ	SN:PGA_scaffold540__1_contigs__length_36898	LN:36898
skipping SAM header line:	@SQ	SN:PGA_scaffold575__1_contigs__length_36508	LN:36508
skipping SAM header line:	@SQ	SN:PGA_scaffold589__1_contigs__length_33182	LN:33182
skipping SAM header line:	@SQ	SN:PGA_scaffold594__1_contigs__length_105065	LN:105065
skipping SAM header line:	@SQ	SN:PGA_scaffold598__1_contigs__length_41658	LN:41658
skipping SAM header line:	@SQ	SN:PGA_scaffold599__1_contigs__length_32117	LN:32117
skipping SAM header line:	@SQ	SN:PGA_scaffold615__1_contigs__length_31178	LN:31178
skipping SAM header line:	@SQ	SN:PGA_scaffold628__1_contigs__length_30879	LN:30879
skipping SAM header line:	@SQ	SN:PGA_scaffold642__1_contigs__length_34464	LN:34464
skipping SAM header line:	@SQ	SN:PGA_scaffold710__1_contigs__length_48694	LN:48694
skipping SAM header line:	@SQ	SN:PGA_scaffold718__1_contigs__length_989392	LN:989392
skipping SAM header line:	@SQ	SN:PGA_scaffold810__1_contigs__length_34885	LN:34885
skipping SAM header line:	@SQ	SN:PGA_scaffold822__1_contigs__length_46947	LN:46947
skipping SAM header line:	@SQ	SN:PGA_scaffold866__1_contigs__length_31993	LN:31993
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skipping SAM header line:	@SQ	SN:PGA_scaffold20466__1_contigs__length_31058	LN:31058
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skipping SAM header line:	@SQ	SN:PGA_scaffold20490__1_contigs__length_34645	LN:34645
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skipping SAM header line:	@SQ	SN:PGA_scaffold23717__1_contigs__length_32333	LN:32333
skipping SAM header line:	@SQ	SN:PGA_scaffold23925__1_contigs__length_34739	LN:34739
skipping SAM header line:	@SQ	SN:PGA_scaffold23979__1_contigs__length_33231	LN:33231
skipping SAM header line:	@SQ	SN:PGA_scaffold24419__1_contigs__length_30110	LN:30110
skipping SAM header line:	@SQ	SN:PGA_scaffold26405__1_contigs__length_34931	LN:34931
skipping SAM header line:	@SQ	SN:PGA_scaffold27028__1_contigs__length_34525	LN:34525
skipping SAM header line:	@SQ	SN:PGA_scaffold29133__1_contigs__length_46329	LN:46329
skipping SAM header line:	@SQ	SN:PGA_scaffold29275__1_contigs__length_41210	LN:41210
skipping SAM header line:	@SQ	SN:PGA_scaffold30719__1_contigs__length_39357	LN:39357
skipping SAM header line:	@SQ	SN:PGA_scaffold31234__1_contigs__length_38472	LN:38472
skipping SAM header line:	@SQ	SN:PGA_scaffold31642__1_contigs__length_33616	LN:33616
skipping SAM header line:	@SQ	SN:PGA_scaffold31747__1_contigs__length_34728	LN:34728
skipping SAM header line:	@SQ	SN:PGA_scaffold31751__1_contigs__length_33342	LN:33342
skipping SAM header line:	@SQ	SN:PGA_scaffold32046__1_contigs__length_31565	LN:31565
skipping SAM header line:	@SQ	SN:PGA_scaffold32514__1_contigs__length_31990	LN:31990
skipping SAM header line:	@SQ	SN:PGA_scaffold35022__1_contigs__length_52621	LN:52621
skipping SAM header line:	@SQ	SN:PGA_scaffold36484__1_contigs__length_32484	LN:32484
skipping SAM header line:	@SQ	SN:PGA_scaffold36907__1_contigs__length_32852	LN:32852
skipping SAM header line:	@SQ	SN:PGA_scaffold37613__1_contigs__length_33568	LN:33568
skipping SAM header line:	@SQ	SN:PGA_scaffold37640__1_contigs__length_36417	LN:36417
skipping SAM header line:	@SQ	SN:PGA_scaffold38417__1_contigs__length_39025	LN:39025
skipping SAM header line:	@SQ	SN:PGA_scaffold38421__1_contigs__length_31964	LN:31964
skipping SAM header line:	@SQ	SN:PGA_scaffold38637__1_contigs__length_46051	LN:46051
skipping SAM header line:	@SQ	SN:PGA_scaffold38663__1_contigs__length_38625	LN:38625
skipping SAM header line:	@SQ	SN:PGA_scaffold39043__1_contigs__length_49862	LN:49862
skipping SAM header line:	@SQ	SN:PGA_scaffold39349__1_contigs__length_30049	LN:30049
skipping SAM header line:	@SQ	SN:PGA_scaffold39386__1_contigs__length_46727	LN:46727
skipping SAM header line:	@SQ	SN:PGA_scaffold40903__1_contigs__length_36654	LN:36654
skipping SAM header line:	@SQ	SN:PGA_scaffold40909__1_contigs__length_44981	LN:44981
skipping SAM header line:	@SQ	SN:PGA_scaffold40911__1_contigs__length_35761	LN:35761
skipping SAM header line:	@SQ	SN:PGA_scaffold41096__1_contigs__length_40847	LN:40847
skipping SAM header line:	@SQ	SN:PGA_scaffold41270__1_contigs__length_55807	LN:55807
skipping SAM header line:	@SQ	SN:PGA_scaffold41708__1_contigs__length_34929	LN:34929
skipping SAM header line:	@SQ	SN:PGA_scaffold41937__1_contigs__length_32645	LN:32645
skipping SAM header line:	@SQ	SN:PGA_scaffold42052__1_contigs__length_36385	LN:36385
skipping SAM header line:	@SQ	SN:PGA_scaffold42329__1_contigs__length_34583	LN:34583
skipping SAM header line:	@SQ	SN:PGA_scaffold42779__1_contigs__length_35983	LN:35983
skipping SAM header line:	@SQ	SN:PGA_scaffold42780__1_contigs__length_33043	LN:33043
skipping SAM header line:	@SQ	SN:PGA_scaffold43063__1_contigs__length_32087	LN:32087
skipping SAM header line:	@SQ	SN:PGA_scaffold43224__1_contigs__length_38120	LN:38120
skipping SAM header line:	@SQ	SN:PGA_scaffold43893__1_contigs__length_39100	LN:39100
skipping SAM header line:	@SQ	SN:PGA_scaffold43927__1_contigs__length_31151	LN:31151
skipping SAM header line:	@SQ	SN:PGA_scaffold43938__1_contigs__length_34922	LN:34922
skipping SAM header line:	@SQ	SN:PGA_scaffold43940__1_contigs__length_31112	LN:31112
skipping SAM header line:	@SQ	SN:PGA_scaffold43956__1_contigs__length_34824	LN:34824
skipping SAM header line:	@SQ	SN:PGA_scaffold43997__1_contigs__length_84241	LN:84241
skipping SAM header line:	@SQ	SN:PGA_scaffold44004__1_contigs__length_56426	LN:56426
skipping SAM header line:	@SQ	SN:PGA_scaffold44021__1_contigs__length_51740	LN:51740
skipping SAM header line:	@SQ	SN:PGA_scaffold44022__1_contigs__length_41140	LN:41140
skipping SAM header line:	@SQ	SN:PGA_scaffold44073__1_contigs__length_36469	LN:36469
skipping SAM header line:	@SQ	SN:PGA_scaffold44113__1_contigs__length_30304	LN:30304
skipping SAM header line:	@SQ	SN:PGA_scaffold44287__1_contigs__length_54447	LN:54447
skipping SAM header line:	@SQ	SN:PGA_scaffold44969__1_contigs__length_31983	LN:31983
skipping SAM header line:	@SQ	SN:PGA_scaffold45030__1_contigs__length_42687	LN:42687
skipping SAM header line:	@SQ	SN:PGA_scaffold45039__1_contigs__length_54558	LN:54558
skipping SAM header line:	@SQ	SN:PGA_scaffold45044__1_contigs__length_42665	LN:42665
skipping SAM header line:	@SQ	SN:PGA_scaffold45169__1_contigs__length_30495	LN:30495
skipping SAM header line:	@SQ	SN:PGA_scaffold45599__1_contigs__length_33507	LN:33507
skipping SAM header line:	@SQ	SN:PGA_scaffold45621__1_contigs__length_37806	LN:37806
skipping SAM header line:	@SQ	SN:PGA_scaffold45713__1_contigs__length_33502	LN:33502
skipping SAM header line:	@SQ	SN:PGA_scaffold45732__1_contigs__length_31304	LN:31304
skipping SAM header line:	@SQ	SN:PGA_scaffold45838__1_contigs__length_39783	LN:39783
skipping SAM header line:	@SQ	SN:PGA_scaffold46006__1_contigs__length_30342	LN:30342
skipping SAM header line:	@SQ	SN:PGA_scaffold46016__1_contigs__length_47336	LN:47336
skipping SAM header line:	@SQ	SN:PGA_scaffold46017__1_contigs__length_32344	LN:32344
skipping SAM header line:	@SQ	SN:PGA_scaffold46021__1_contigs__length_31410	LN:31410
skipping SAM header line:	@SQ	SN:PGA_scaffold46073__1_contigs__length_36458	LN:36458
skipping SAM header line:	@SQ	SN:PGA_scaffold46077__1_contigs__length_35474	LN:35474
skipping SAM header line:	@SQ	SN:PGA_scaffold46091__1_contigs__length_30400	LN:30400
skipping SAM header line:	@SQ	SN:PGA_scaffold46108__1_contigs__length_30532	LN:30532
skipping SAM header line:	@SQ	SN:PGA_scaffold46139__1_contigs__length_39029	LN:39029
skipping SAM header line:	@SQ	SN:PGA_scaffold46144__1_contigs__length_30043	LN:30043
skipping SAM header line:	@SQ	SN:PGA_scaffold46228__1_contigs__length_30260	LN:30260
skipping SAM header line:	@SQ	SN:PGA_scaffold46916__1_contigs__length_36995	LN:36995
skipping SAM header line:	@SQ	SN:PGA_scaffold46924__1_contigs__length_41954	LN:41954
skipping SAM header line:	@SQ	SN:PGA_scaffold48118__1_contigs__length_30764	LN:30764
skipping SAM header line:	@SQ	SN:PGA_scaffold48491__1_contigs__length_44805	LN:44805
skipping SAM header line:	@SQ	SN:PGA_scaffold48498__1_contigs__length_32874	LN:32874
skipping SAM header line:	@SQ	SN:PGA_scaffold48627__1_contigs__length_30570	LN:30570
skipping SAM header line:	@SQ	SN:PGA_scaffold48700__1_contigs__length_41489	LN:41489
skipping SAM header line:	@SQ	SN:PGA_scaffold48890__1_contigs__length_36820	LN:36820
skipping SAM header line:	@SQ	SN:PGA_scaffold49049__1_contigs__length_44862	LN:44862
skipping SAM header line:	@SQ	SN:PGA_scaffold49052__1_contigs__length_30066	LN:30066
skipping SAM header line:	@SQ	SN:PGA_scaffold49140__1_contigs__length_41465	LN:41465
skipping SAM header line:	@SQ	SN:PGA_scaffold49269__1_contigs__length_58629	LN:58629
skipping SAM header line:	@SQ	SN:PGA_scaffold49272__1_contigs__length_48462	LN:48462
skipping SAM header line:	@SQ	SN:PGA_scaffold49286__1_contigs__length_32480	LN:32480
skipping SAM header line:	@SQ	SN:PGA_scaffold49327__1_contigs__length_31386	LN:31386
skipping SAM header line:	@SQ	SN:PGA_scaffold49337__1_contigs__length_44952	LN:44952
skipping SAM header line:	@SQ	SN:PGA_scaffold49402__1_contigs__length_32985	LN:32985
skipping SAM header line:	@SQ	SN:PGA_scaffold49433__1_contigs__length_36204	LN:36204
skipping SAM header line:	@SQ	SN:PGA_scaffold49448__1_contigs__length_40249	LN:40249
skipping SAM header line:	@SQ	SN:PGA_scaffold49600__1_contigs__length_30811	LN:30811
skipping SAM header line:	@SQ	SN:PGA_scaffold49609__1_contigs__length_30653	LN:30653
skipping SAM header line:	@SQ	SN:PGA_scaffold49622__1_contigs__length_34505	LN:34505
skipping SAM header line:	@SQ	SN:PGA_scaffold50268__1_contigs__length_48869	LN:48869
skipping SAM header line:	@SQ	SN:PGA_scaffold50335__1_contigs__length_43040	LN:43040
skipping SAM header line:	@SQ	SN:PGA_scaffold50414__1_contigs__length_43015	LN:43015
skipping SAM header line:	@SQ	SN:PGA_scaffold50424__1_contigs__length_37325	LN:37325
skipping SAM header line:	@SQ	SN:PGA_scaffold50725__1_contigs__length_39725	LN:39725
skipping SAM header line:	@SQ	SN:PGA_scaffold51021__1_contigs__length_35521	LN:35521
skipping SAM header line:	@SQ	SN:PGA_scaffold51544__1_contigs__length_32260	LN:32260
skipping SAM header line:	@SQ	SN:PGA_scaffold51684__1_contigs__length_32586	LN:32586
skipping SAM header line:	@SQ	SN:PGA_scaffold51827__1_contigs__length_44668	LN:44668
skipping SAM header line:	@SQ	SN:PGA_scaffold51925__1_contigs__length_33625	LN:33625
skipping SAM header line:	@SQ	SN:PGA_scaffold52047__1_contigs__length_52540	LN:52540
skipping SAM header line:	@SQ	SN:PGA_scaffold52050__1_contigs__length_46830	LN:46830
skipping SAM header line:	@SQ	SN:PGA_scaffold52113__1_contigs__length_31958	LN:31958
skipping SAM header line:	@SQ	SN:PGA_scaffold52128__1_contigs__length_39877	LN:39877
skipping SAM header line:	@SQ	SN:PGA_scaffold52199__1_contigs__length_32611	LN:32611
skipping SAM header line:	@SQ	SN:PGA_scaffold52211__1_contigs__length_36968	LN:36968
skipping SAM header line:	@SQ	SN:PGA_scaffold52215__1_contigs__length_42996	LN:42996
skipping SAM header line:	@SQ	SN:PGA_scaffold52222__1_contigs__length_39311	LN:39311
skipping SAM header line:	@SQ	SN:PGA_scaffold52266__1_contigs__length_35673	LN:35673
skipping SAM header line:	@SQ	SN:PGA_scaffold52328__1_contigs__length_39984	LN:39984
skipping SAM header line:	@SQ	SN:PGA_scaffold52349__1_contigs__length_37106	LN:37106
skipping SAM header line:	@SQ	SN:PGA_scaffold52350__1_contigs__length_45781	LN:45781
skipping SAM header line:	@SQ	SN:PGA_scaffold52359__1_contigs__length_33365	LN:33365
skipping SAM header line:	@SQ	SN:PGA_scaffold52387__1_contigs__length_40531	LN:40531
skipping SAM header line:	@SQ	SN:PGA_scaffold52390__1_contigs__length_35773	LN:35773
skipping SAM header line:	@SQ	SN:PGA_scaffold52392__1_contigs__length_46240	LN:46240
skipping SAM header line:	@SQ	SN:PGA_scaffold52393__1_contigs__length_36780	LN:36780
skipping SAM header line:	@SQ	SN:PGA_scaffold52394__1_contigs__length_53108	LN:53108
skipping SAM header line:	@SQ	SN:PGA_scaffold52396__1_contigs__length_36505	LN:36505
skipping SAM header line:	@SQ	SN:PGA_scaffold52869__1_contigs__length_35263	LN:35263
skipping SAM header line:	@SQ	SN:PGA_scaffold52872__1_contigs__length_34839	LN:34839
skipping SAM header line:	@SQ	SN:PGA_scaffold52892__1_contigs__length_39173	LN:39173
skipping SAM header line:	@SQ	SN:PGA_scaffold52893__1_contigs__length_36559	LN:36559
skipping SAM header line:	@SQ	SN:PGA_scaffold52914__1_contigs__length_54588	LN:54588
skipping SAM header line:	@SQ	SN:PGA_scaffold52916__1_contigs__length_30509	LN:30509
skipping SAM header line:	@SQ	SN:PGA_scaffold52973__1_contigs__length_33821	LN:33821
skipping SAM header line:	@SQ	SN:PGA_scaffold52979__1_contigs__length_30521	LN:30521
skipping SAM header line:	@SQ	SN:PGA_scaffold53021__1_contigs__length_37828	LN:37828
skipping SAM header line:	@SQ	SN:PGA_scaffold53196__1_contigs__length_30707	LN:30707
skipping SAM header line:	@SQ	SN:PGA_scaffold53343__1_contigs__length_31364	LN:31364
skipping SAM header line:	@SQ	SN:PGA_scaffold53591__1_contigs__length_57201	LN:57201
skipping SAM header line:	@SQ	SN:PGA_scaffold53633__1_contigs__length_37396	LN:37396
skipping SAM header line:	@SQ	SN:PGA_scaffold53639__1_contigs__length_33404	LN:33404
skipping SAM header line:	@SQ	SN:PGA_scaffold53645__1_contigs__length_35399	LN:35399
skipping SAM header line:	@SQ	SN:PGA_scaffold53657__1_contigs__length_30921	LN:30921
skipping SAM header line:	@SQ	SN:PGA_scaffold53658__1_contigs__length_36208	LN:36208
skipping SAM header line:	@SQ	SN:PGA_scaffold53686__1_contigs__length_33430	LN:33430
skipping SAM header line:	@SQ	SN:PGA_scaffold53691__1_contigs__length_40282	LN:40282
skipping SAM header line:	@SQ	SN:PGA_scaffold53698__1_contigs__length_43785	LN:43785
skipping SAM header line:	@SQ	SN:PGA_scaffold53725__1_contigs__length_34176	LN:34176
skipping SAM header line:	@SQ	SN:PGA_scaffold53751__1_contigs__length_33279	LN:33279
skipping SAM header line:	@SQ	SN:PGA_scaffold53762__1_contigs__length_30332	LN:30332
skipping SAM header line:	@SQ	SN:PGA_scaffold53770__1_contigs__length_45803	LN:45803
skipping SAM header line:	@SQ	SN:PGA_scaffold53989__1_contigs__length_55742	LN:55742
skipping SAM header line:	@SQ	SN:PGA_scaffold53990__1_contigs__length_50335	LN:50335
skipping SAM header line:	@SQ	SN:PGA_scaffold53991__1_contigs__length_51016	LN:51016
skipping SAM header line:	@SQ	SN:PGA_scaffold53992__1_contigs__length_30819	LN:30819
skipping SAM header line:	@SQ	SN:PGA_scaffold53994__1_contigs__length_45288	LN:45288
skipping SAM header line:	@SQ	SN:PGA_scaffold53995__1_contigs__length_36326	LN:36326
skipping SAM header line:	@SQ	SN:PGA_scaffold54015__1_contigs__length_30408	LN:30408
skipping SAM header line:	@SQ	SN:PGA_scaffold54205__1_contigs__length_38797	LN:38797
skipping SAM header line:	@SQ	SN:PGA_scaffold54342__1_contigs__length_60814	LN:60814
skipping SAM header line:	@SQ	SN:PGA_scaffold54901__1_contigs__length_37309	LN:37309
skipping SAM header line:	@SQ	SN:PGA_scaffold54965__1_contigs__length_38374	LN:38374
skipping SAM header line:	@SQ	SN:PGA_scaffold54999__1_contigs__length_31291	LN:31291
skipping SAM header line:	@SQ	SN:PGA_scaffold55037__1_contigs__length_32580	LN:32580
skipping SAM header line:	@SQ	SN:PGA_scaffold55083__1_contigs__length_45318	LN:45318
skipping SAM header line:	@SQ	SN:PGA_scaffold55088__1_contigs__length_30665	LN:30665
skipping SAM header line:	@SQ	SN:PGA_scaffold55135__1_contigs__length_48442	LN:48442
skipping SAM header line:	@SQ	SN:PGA_scaffold55199__1_contigs__length_37150	LN:37150
skipping SAM header line:	@SQ	SN:PGA_scaffold55265__1_contigs__length_43075	LN:43075
skipping SAM header line:	@SQ	SN:PGA_scaffold55278__1_contigs__length_54668	LN:54668
skipping SAM header line:	@SQ	SN:PGA_scaffold55296__1_contigs__length_51595	LN:51595
skipping SAM header line:	@SQ	SN:PGA_scaffold55314__1_contigs__length_35295	LN:35295
skipping SAM header line:	@SQ	SN:PGA_scaffold55345__1_contigs__length_69732	LN:69732
skipping SAM header line:	@SQ	SN:PGA_scaffold55359__1_contigs__length_33158	LN:33158
skipping SAM header line:	@SQ	SN:PGA_scaffold55375__1_contigs__length_51625	LN:51625
skipping SAM header line:	@SQ	SN:PGA_scaffold55378__1_contigs__length_34882	LN:34882
skipping SAM header line:	@SQ	SN:PGA_scaffold55381__1_contigs__length_30600	LN:30600
skipping SAM header line:	@SQ	SN:PGA_scaffold55711__1_contigs__length_39787	LN:39787
skipping SAM header line:	@SQ	SN:PGA_scaffold55714__1_contigs__length_36372	LN:36372
skipping SAM header line:	@SQ	SN:PGA_scaffold55745__1_contigs__length_39718	LN:39718
skipping SAM header line:	@SQ	SN:PGA_scaffold55747__1_contigs__length_42692	LN:42692
skipping SAM header line:	@SQ	SN:PGA_scaffold55855__1_contigs__length_34489	LN:34489
skipping SAM header line:	@SQ	SN:PGA_scaffold55860__1_contigs__length_50662	LN:50662
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skipping SAM header line:	@SQ	SN:PGA_scaffold56091__1_contigs__length_39544	LN:39544
skipping SAM header line:	@SQ	SN:PGA_scaffold56365__1_contigs__length_56315	LN:56315
skipping SAM header line:	@SQ	SN:PGA_scaffold56375__1_contigs__length_33113	LN:33113
skipping SAM header line:	@SQ	SN:PGA_scaffold56620__1_contigs__length_30848	LN:30848
skipping SAM header line:	@SQ	SN:PGA_scaffold56625__1_contigs__length_66358	LN:66358
skipping SAM header line:	@SQ	SN:PGA_scaffold56635__1_contigs__length_34227	LN:34227
skipping SAM header line:	@SQ	SN:PGA_scaffold56650__1_contigs__length_33575	LN:33575
skipping SAM header line:	@SQ	SN:PGA_scaffold56652__1_contigs__length_44611	LN:44611
skipping SAM header line:	@SQ	SN:PGA_scaffold56671__1_contigs__length_32469	LN:32469
skipping SAM header line:	@SQ	SN:PGA_scaffold56691__1_contigs__length_31095	LN:31095
skipping SAM header line:	@SQ	SN:PGA_scaffold56720__1_contigs__length_40419	LN:40419
skipping SAM header line:	@SQ	SN:PGA_scaffold56722__1_contigs__length_46018	LN:46018
skipping SAM header line:	@SQ	SN:PGA_scaffold56916__1_contigs__length_32078	LN:32078
skipping SAM header line:	@SQ	SN:PGA_scaffold56946__1_contigs__length_36592	LN:36592
skipping SAM header line:	@SQ	SN:PGA_scaffold57070__1_contigs__length_35859	LN:35859
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skipping SAM header line:	@SQ	SN:PGA_scaffold57298__1_contigs__length_31957	LN:31957
skipping SAM header line:	@SQ	SN:PGA_scaffold57301__1_contigs__length_34452	LN:34452
skipping SAM header line:	@SQ	SN:PGA_scaffold57398__1_contigs__length_30770	LN:30770
skipping SAM header line:	@SQ	SN:PGA_scaffold57419__1_contigs__length_56657	LN:56657
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skipping SAM header line:	@SQ	SN:PGA_scaffold57706__1_contigs__length_40854	LN:40854
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skipping SAM header line:	@SQ	SN:PGA_scaffold57865__1_contigs__length_37453	LN:37453
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skipping SAM header line:	@SQ	SN:PGA_scaffold57901__1_contigs__length_33405	LN:33405
skipping SAM header line:	@SQ	SN:PGA_scaffold58076__1_contigs__length_32943	LN:32943
skipping SAM header line:	@SQ	SN:PGA_scaffold58238__1_contigs__length_68373	LN:68373
skipping SAM header line:	@SQ	SN:PGA_scaffold58264__1_contigs__length_33661	LN:33661
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skipping SAM header line:	@SQ	SN:PGA_scaffold58361__1_contigs__length_52751	LN:52751
skipping SAM header line:	@SQ	SN:PGA_scaffold58366__1_contigs__length_37326	LN:37326
skipping SAM header line:	@SQ	SN:PGA_scaffold58382__1_contigs__length_41713	LN:41713
skipping SAM header line:	@SQ	SN:PGA_scaffold58383__1_contigs__length_44366	LN:44366
skipping SAM header line:	@SQ	SN:PGA_scaffold58388__1_contigs__length_32850	LN:32850
skipping SAM header line:	@SQ	SN:PGA_scaffold58393__1_contigs__length_33434	LN:33434
skipping SAM header line:	@SQ	SN:PGA_scaffold58403__1_contigs__length_40472	LN:40472
skipping SAM header line:	@SQ	SN:PGA_scaffold58406__1_contigs__length_39981	LN:39981
skipping SAM header line:	@SQ	SN:PGA_scaffold58408__1_contigs__length_51130	LN:51130
skipping SAM header line:	@SQ	SN:PGA_scaffold58414__1_contigs__length_31140	LN:31140
skipping SAM header line:	@SQ	SN:PGA_scaffold58423__1_contigs__length_47054	LN:47054
skipping SAM header line:	@SQ	SN:PGA_scaffold58431__1_contigs__length_30555	LN:30555
skipping SAM header line:	@SQ	SN:PGA_scaffold58439__1_contigs__length_35544	LN:35544
skipping SAM header line:	@SQ	SN:PGA_scaffold58443__1_contigs__length_34264	LN:34264
skipping SAM header line:	@SQ	SN:PGA_scaffold58450__1_contigs__length_35181	LN:35181
skipping SAM header line:	@SQ	SN:PGA_scaffold58637__1_contigs__length_30774	LN:30774
skipping SAM header line:	@SQ	SN:PGA_scaffold58638__1_contigs__length_36895	LN:36895
skipping SAM header line:	@SQ	SN:PGA_scaffold58640__1_contigs__length_35005	LN:35005
skipping SAM header line:	@SQ	SN:PGA_scaffold58676__1_contigs__length_42740	LN:42740
skipping SAM header line:	@SQ	SN:PGA_scaffold58700__1_contigs__length_38161	LN:38161
skipping SAM header line:	@SQ	SN:PGA_scaffold58712__1_contigs__length_43972	LN:43972
skipping SAM header line:	@SQ	SN:PGA_scaffold58749__1_contigs__length_42553	LN:42553
skipping SAM header line:	@SQ	SN:PGA_scaffold58976__1_contigs__length_32077	LN:32077
skipping SAM header line:	@SQ	SN:PGA_scaffold58984__1_contigs__length_30766	LN:30766
skipping SAM header line:	@SQ	SN:PGA_scaffold59041__1_contigs__length_49211	LN:49211
skipping SAM header line:	@SQ	SN:PGA_scaffold59054__1_contigs__length_30586	LN:30586
skipping SAM header line:	@SQ	SN:PGA_scaffold59056__1_contigs__length_33360	LN:33360
skipping SAM header line:	@SQ	SN:PGA_scaffold59166__1_contigs__length_30875	LN:30875
skipping SAM header line:	@SQ	SN:PGA_scaffold59171__1_contigs__length_43122	LN:43122
skipping SAM header line:	@SQ	SN:PGA_scaffold59190__1_contigs__length_41883	LN:41883
skipping SAM header line:	@SQ	SN:PGA_scaffold59377__1_contigs__length_38396	LN:38396
skipping SAM header line:	@SQ	SN:PGA_scaffold59388__1_contigs__length_56034	LN:56034
skipping SAM header line:	@SQ	SN:PGA_scaffold59390__1_contigs__length_40508	LN:40508
skipping SAM header line:	@SQ	SN:PGA_scaffold59404__1_contigs__length_40337	LN:40337
skipping SAM header line:	@SQ	SN:PGA_scaffold59464__1_contigs__length_36159	LN:36159
skipping SAM header line:	@SQ	SN:PGA_scaffold59592__1_contigs__length_38404	LN:38404
skipping SAM header line:	@SQ	SN:PGA_scaffold59604__1_contigs__length_46284	LN:46284
skipping SAM header line:	@SQ	SN:PGA_scaffold59620__1_contigs__length_43279	LN:43279
skipping SAM header line:	@SQ	SN:PGA_scaffold59626__1_contigs__length_59819	LN:59819
skipping SAM header line:	@SQ	SN:PGA_scaffold59638__1_contigs__length_36226	LN:36226
skipping SAM header line:	@SQ	SN:PGA_scaffold59686__1_contigs__length_38175	LN:38175
skipping SAM header line:	@SQ	SN:PGA_scaffold59687__1_contigs__length_34469	LN:34469
skipping SAM header line:	@SQ	SN:PGA_scaffold59721__1_contigs__length_42511	LN:42511
skipping SAM header line:	@SQ	SN:PGA_scaffold59723__1_contigs__length_39806	LN:39806
skipping SAM header line:	@SQ	SN:PGA_scaffold59727__1_contigs__length_31211	LN:31211
skipping SAM header line:	@SQ	SN:PGA_scaffold59729__1_contigs__length_32301	LN:32301
skipping SAM header line:	@SQ	SN:PGA_scaffold59750__1_contigs__length_36894	LN:36894
skipping SAM header line:	@SQ	SN:PGA_scaffold59858__1_contigs__length_39712	LN:39712
skipping SAM header line:	@SQ	SN:PGA_scaffold59872__1_contigs__length_51346	LN:51346
skipping SAM header line:	@SQ	SN:PGA_scaffold59907__1_contigs__length_30865	LN:30865
skipping SAM header line:	@SQ	SN:PGA_scaffold59933__1_contigs__length_43116	LN:43116
skipping SAM header line:	@SQ	SN:PGA_scaffold59943__1_contigs__length_33685	LN:33685
skipping SAM header line:	@SQ	SN:PGA_scaffold59992__1_contigs__length_30411	LN:30411
skipping SAM header line:	@SQ	SN:PGA_scaffold60009__1_contigs__length_34709	LN:34709
skipping SAM header line:	@SQ	SN:PGA_scaffold60084__1_contigs__length_34630	LN:34630
skipping SAM header line:	@SQ	SN:PGA_scaffold60127__1_contigs__length_40895	LN:40895
skipping SAM header line:	@SQ	SN:PGA_scaffold60139__1_contigs__length_40879	LN:40879
skipping SAM header line:	@SQ	SN:PGA_scaffold60216__1_contigs__length_40599	LN:40599
skipping SAM header line:	@SQ	SN:PGA_scaffold60236__1_contigs__length_37394	LN:37394
skipping SAM header line:	@SQ	SN:PGA_scaffold60271__1_contigs__length_33335	LN:33335
skipping SAM header line:	@SQ	SN:PGA_scaffold60279__1_contigs__length_36536	LN:36536
skipping SAM header line:	@SQ	SN:PGA_scaffold60286__1_contigs__length_31103	LN:31103
skipping SAM header line:	@SQ	SN:PGA_scaffold60289__1_contigs__length_78725	LN:78725
skipping SAM header line:	@SQ	SN:PGA_scaffold60299__1_contigs__length_52400	LN:52400
skipping SAM header line:	@SQ	SN:PGA_scaffold60318__1_contigs__length_36247	LN:36247
skipping SAM header line:	@SQ	SN:PGA_scaffold60412__1_contigs__length_79597	LN:79597
skipping SAM header line:	@SQ	SN:PGA_scaffold60413__1_contigs__length_42267	LN:42267
skipping SAM header line:	@SQ	SN:PGA_scaffold60414__1_contigs__length_49107	LN:49107
skipping SAM header line:	@SQ	SN:PGA_scaffold60441__1_contigs__length_43835	LN:43835
skipping SAM header line:	@SQ	SN:PGA_scaffold60488__1_contigs__length_50761	LN:50761
skipping SAM header line:	@SQ	SN:PGA_scaffold60490__1_contigs__length_43435	LN:43435
skipping SAM header line:	@SQ	SN:PGA_scaffold60615__1_contigs__length_40286	LN:40286
skipping SAM header line:	@SQ	SN:PGA_scaffold60652__1_contigs__length_52273	LN:52273
skipping SAM header line:	@SQ	SN:PGA_scaffold60657__1_contigs__length_45209	LN:45209
skipping SAM header line:	@SQ	SN:PGA_scaffold60699__1_contigs__length_33841	LN:33841
skipping SAM header line:	@SQ	SN:PGA_scaffold60701__1_contigs__length_53170	LN:53170
skipping SAM header line:	@SQ	SN:PGA_scaffold60731__1_contigs__length_32159	LN:32159
skipping SAM header line:	@SQ	SN:PGA_scaffold60733__1_contigs__length_38523	LN:38523
skipping SAM header line:	@SQ	SN:PGA_scaffold60734__1_contigs__length_32626	LN:32626
skipping SAM header line:	@SQ	SN:PGA_scaffold60739__1_contigs__length_33797	LN:33797
skipping SAM header line:	@SQ	SN:PGA_scaffold60760__1_contigs__length_45282	LN:45282
skipping SAM header line:	@SQ	SN:PGA_scaffold60835__1_contigs__length_31290	LN:31290
skipping SAM header line:	@SQ	SN:PGA_scaffold60836__1_contigs__length_40835	LN:40835
skipping SAM header line:	@SQ	SN:PGA_scaffold60844__1_contigs__length_38798	LN:38798
skipping SAM header line:	@SQ	SN:PGA_scaffold60846__1_contigs__length_40793	LN:40793
skipping SAM header line:	@SQ	SN:PGA_scaffold60985__1_contigs__length_43490	LN:43490
skipping SAM header line:	@SQ	SN:PGA_scaffold61013__1_contigs__length_40757	LN:40757
skipping SAM header line:	@SQ	SN:PGA_scaffold61037__1_contigs__length_31360	LN:31360
skipping SAM header line:	@SQ	SN:PGA_scaffold61040__1_contigs__length_32690	LN:32690
skipping SAM header line:	@SQ	SN:PGA_scaffold61046__1_contigs__length_41502	LN:41502
skipping SAM header line:	@SQ	SN:PGA_scaffold61063__1_contigs__length_47605	LN:47605
skipping SAM header line:	@SQ	SN:PGA_scaffold61072__1_contigs__length_33361	LN:33361
skipping SAM header line:	@SQ	SN:PGA_scaffold61096__1_contigs__length_30606	LN:30606
skipping SAM header line:	@SQ	SN:PGA_scaffold61099__1_contigs__length_49058	LN:49058
skipping SAM header line:	@SQ	SN:PGA_scaffold61103__1_contigs__length_37635	LN:37635
skipping SAM header line:	@SQ	SN:PGA_scaffold61168__1_contigs__length_30806	LN:30806
skipping SAM header line:	@SQ	SN:PGA_scaffold61190__1_contigs__length_38143	LN:38143
skipping SAM header line:	@SQ	SN:PGA_scaffold61242__1_contigs__length_43427	LN:43427
skipping SAM header line:	@SQ	SN:PGA_scaffold61273__1_contigs__length_40703	LN:40703
skipping SAM header line:	@SQ	SN:PGA_scaffold61280__1_contigs__length_40374	LN:40374
skipping SAM header line:	@SQ	SN:PGA_scaffold61312__1_contigs__length_51905	LN:51905
skipping SAM header line:	@SQ	SN:PGA_scaffold61335__1_contigs__length_32633	LN:32633
skipping SAM header line:	@SQ	SN:PGA_scaffold61337__1_contigs__length_43505	LN:43505
skipping SAM header line:	@SQ	SN:PGA_scaffold61343__1_contigs__length_35738	LN:35738
skipping SAM header line:	@SQ	SN:PGA_scaffold61363__1_contigs__length_43856	LN:43856
skipping SAM header line:	@SQ	SN:PGA_scaffold61364__1_contigs__length_58674	LN:58674
skipping SAM header line:	@SQ	SN:PGA_scaffold61370__1_contigs__length_51160	LN:51160
skipping SAM header line:	@SQ	SN:PGA_scaffold61374__1_contigs__length_38921	LN:38921
skipping SAM header line:	@SQ	SN:PGA_scaffold61375__1_contigs__length_39623	LN:39623
skipping SAM header line:	@SQ	SN:PGA_scaffold61388__1_contigs__length_45689	LN:45689
skipping SAM header line:	@SQ	SN:PGA_scaffold61392__1_contigs__length_57213	LN:57213
skipping SAM header line:	@SQ	SN:PGA_scaffold61445__1_contigs__length_33748	LN:33748
skipping SAM header line:	@SQ	SN:PGA_scaffold61589__1_contigs__length_43181	LN:43181
skipping SAM header line:	@SQ	SN:PGA_scaffold61592__1_contigs__length_35695	LN:35695
skipping SAM header line:	@SQ	SN:PGA_scaffold61615__1_contigs__length_40934	LN:40934
skipping SAM header line:	@SQ	SN:PGA_scaffold61619__1_contigs__length_33825	LN:33825
skipping SAM header line:	@SQ	SN:PGA_scaffold61628__1_contigs__length_48494	LN:48494
skipping SAM header line:	@SQ	SN:PGA_scaffold61636__1_contigs__length_47931	LN:47931
skipping SAM header line:	@SQ	SN:PGA_scaffold61640__1_contigs__length_57604	LN:57604
skipping SAM header line:	@SQ	SN:PGA_scaffold61646__1_contigs__length_55250	LN:55250
skipping SAM header line:	@SQ	SN:PGA_scaffold61650__1_contigs__length_31696	LN:31696
skipping SAM header line:	@SQ	SN:PGA_scaffold61652__1_contigs__length_58886	LN:58886
skipping SAM header line:	@SQ	SN:PGA_scaffold61705__1_contigs__length_34844	LN:34844
skipping SAM header line:	@SQ	SN:PGA_scaffold61706__1_contigs__length_34820	LN:34820
skipping SAM header line:	@SQ	SN:PGA_scaffold61707__1_contigs__length_41227	LN:41227
skipping SAM header line:	@SQ	SN:PGA_scaffold61777__1_contigs__length_45224	LN:45224
skipping SAM header line:	@SQ	SN:PGA_scaffold61840__1_contigs__length_33628	LN:33628
skipping SAM header line:	@SQ	SN:PGA_scaffold61847__1_contigs__length_83310	LN:83310
skipping SAM header line:	@SQ	SN:PGA_scaffold61852__1_contigs__length_31557	LN:31557
skipping SAM header line:	@SQ	SN:PGA_scaffold61853__1_contigs__length_48778	LN:48778
skipping SAM header line:	@SQ	SN:PGA_scaffold61879__1_contigs__length_44422	LN:44422
skipping SAM header line:	@SQ	SN:PGA_scaffold61884__1_contigs__length_46735	LN:46735
skipping SAM header line:	@SQ	SN:PGA_scaffold61888__1_contigs__length_43188	LN:43188
skipping SAM header line:	@SQ	SN:PGA_scaffold61897__1_contigs__length_41371	LN:41371
skipping SAM header line:	@SQ	SN:PGA_scaffold61982__1_contigs__length_37118	LN:37118
skipping SAM header line:	@SQ	SN:PGA_scaffold62098__1_contigs__length_77920	LN:77920
skipping SAM header line:	@SQ	SN:PGA_scaffold62138__1_contigs__length_33334	LN:33334
skipping SAM header line:	@SQ	SN:PGA_scaffold62168__1_contigs__length_43227	LN:43227
skipping SAM header line:	@SQ	SN:PGA_scaffold62186__1_contigs__length_43446	LN:43446
skipping SAM header line:	@SQ	SN:PGA_scaffold62192__1_contigs__length_56278	LN:56278
skipping SAM header line:	@SQ	SN:PGA_scaffold62198__1_contigs__length_38255	LN:38255
skipping SAM header line:	@SQ	SN:PGA_scaffold62206__1_contigs__length_67303	LN:67303
skipping SAM header line:	@SQ	SN:PGA_scaffold62224__1_contigs__length_74638	LN:74638
skipping SAM header line:	@SQ	SN:PGA_scaffold62226__1_contigs__length_86027	LN:86027
skipping SAM header line:	@SQ	SN:PGA_scaffold62319__1_contigs__length_36955	LN:36955
skipping SAM header line:	@SQ	SN:PGA_scaffold62364__1_contigs__length_54322	LN:54322
skipping SAM header line:	@SQ	SN:PGA_scaffold62403__1_contigs__length_38564	LN:38564
skipping SAM header line:	@SQ	SN:PGA_scaffold62435__1_contigs__length_59037	LN:59037
skipping SAM header line:	@SQ	SN:PGA_scaffold62443__1_contigs__length_39499	LN:39499
skipping SAM header line:	@SQ	SN:PGA_scaffold62455__1_contigs__length_63754	LN:63754
skipping SAM header line:	@SQ	SN:PGA_scaffold62459__1_contigs__length_42719	LN:42719
skipping SAM header line:	@SQ	SN:PGA_scaffold62475__1_contigs__length_44394	LN:44394
skipping SAM header line:	@SQ	SN:PGA_scaffold62477__1_contigs__length_40507	LN:40507
skipping SAM header line:	@SQ	SN:PGA_scaffold62478__1_contigs__length_48273	LN:48273
skipping SAM header line:	@SQ	SN:PGA_scaffold62492__1_contigs__length_31702	LN:31702
skipping SAM header line:	@SQ	SN:PGA_scaffold62537__1_contigs__length_39343	LN:39343
skipping SAM header line:	@SQ	SN:PGA_scaffold62542__1_contigs__length_32921	LN:32921
skipping SAM header line:	@SQ	SN:PGA_scaffold62544__1_contigs__length_41829	LN:41829
skipping SAM header line:	@SQ	SN:PGA_scaffold62591__1_contigs__length_64464	LN:64464
skipping SAM header line:	@SQ	SN:PGA_scaffold62601__1_contigs__length_36053	LN:36053
skipping SAM header line:	@SQ	SN:PGA_scaffold62602__1_contigs__length_30153	LN:30153
skipping SAM header line:	@SQ	SN:PGA_scaffold62661__1_contigs__length_34648	LN:34648
skipping SAM header line:	@SQ	SN:PGA_scaffold62687__1_contigs__length_56019	LN:56019
skipping SAM header line:	@SQ	SN:PGA_scaffold62752__1_contigs__length_33202	LN:33202
skipping SAM header line:	@SQ	SN:PGA_scaffold62854__1_contigs__length_47148	LN:47148
skipping SAM header line:	@SQ	SN:PGA_scaffold62862__1_contigs__length_31728	LN:31728
skipping SAM header line:	@SQ	SN:PGA_scaffold62865__1_contigs__length_39731	LN:39731
skipping SAM header line:	@SQ	SN:PGA_scaffold62888__1_contigs__length_54043	LN:54043
skipping SAM header line:	@SQ	SN:PGA_scaffold62889__1_contigs__length_48322	LN:48322
skipping SAM header line:	@SQ	SN:PGA_scaffold62893__1_contigs__length_35424	LN:35424
skipping SAM header line:	@SQ	SN:PGA_scaffold62898__1_contigs__length_44677	LN:44677
skipping SAM header line:	@SQ	SN:PGA_scaffold62899__1_contigs__length_48738	LN:48738
skipping SAM header line:	@SQ	SN:PGA_scaffold62907__1_contigs__length_31183	LN:31183
skipping SAM header line:	@SQ	SN:PGA_scaffold62912__1_contigs__length_44717	LN:44717
skipping SAM header line:	@SQ	SN:PGA_scaffold62914__1_contigs__length_47643	LN:47643
skipping SAM header line:	@SQ	SN:PGA_scaffold62917__1_contigs__length_34646	LN:34646
skipping SAM header line:	@SQ	SN:PGA_scaffold62920__1_contigs__length_32719	LN:32719
skipping SAM header line:	@SQ	SN:PGA_scaffold62965__1_contigs__length_46983	LN:46983
skipping SAM header line:	@SQ	SN:PGA_scaffold62974__1_contigs__length_42527	LN:42527
skipping SAM header line:	@SQ	SN:PGA_scaffold62982__1_contigs__length_51892	LN:51892
skipping SAM header line:	@SQ	SN:PGA_scaffold63008__1_contigs__length_40245	LN:40245
skipping SAM header line:	@SQ	SN:PGA_scaffold63022__1_contigs__length_31832	LN:31832
skipping SAM header line:	@SQ	SN:PGA_scaffold63033__1_contigs__length_64137	LN:64137
skipping SAM header line:	@SQ	SN:PGA_scaffold63057__1_contigs__length_30046	LN:30046
skipping SAM header line:	@SQ	SN:PGA_scaffold63059__1_contigs__length_30993	LN:30993
skipping SAM header line:	@SQ	SN:PGA_scaffold63073__1_contigs__length_59843	LN:59843
skipping SAM header line:	@SQ	SN:PGA_scaffold63076__1_contigs__length_65566	LN:65566
skipping SAM header line:	@SQ	SN:PGA_scaffold63085__1_contigs__length_46291	LN:46291
skipping SAM header line:	@SQ	SN:PGA_scaffold63090__1_contigs__length_43963	LN:43963
skipping SAM header line:	@SQ	SN:PGA_scaffold63101__1_contigs__length_45043	LN:45043
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skipping SAM header line:	@SQ	SN:PGA_scaffold63140__1_contigs__length_32392	LN:32392
skipping SAM header line:	@SQ	SN:PGA_scaffold63144__1_contigs__length_70359	LN:70359
skipping SAM header line:	@SQ	SN:PGA_scaffold63154__1_contigs__length_40784	LN:40784
skipping SAM header line:	@SQ	SN:PGA_scaffold63158__1_contigs__length_32781	LN:32781
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skipping SAM header line:	@SQ	SN:PGA_scaffold63196__1_contigs__length_54760	LN:54760
skipping SAM header line:	@SQ	SN:PGA_scaffold63198__1_contigs__length_39852	LN:39852
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skipping SAM header line:	@SQ	SN:PGA_scaffold63282__1_contigs__length_48451	LN:48451
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skipping SAM header line:	@SQ	SN:PGA_scaffold63327__1_contigs__length_41823	LN:41823
skipping SAM header line:	@SQ	SN:PGA_scaffold63330__1_contigs__length_32542	LN:32542
skipping SAM header line:	@SQ	SN:PGA_scaffold63338__1_contigs__length_30825	LN:30825
skipping SAM header line:	@SQ	SN:PGA_scaffold63480__1_contigs__length_39812	LN:39812
skipping SAM header line:	@SQ	SN:PGA_scaffold63504__1_contigs__length_83511	LN:83511
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skipping SAM header line:	@SQ	SN:PGA_scaffold63681__1_contigs__length_35508	LN:35508
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skipping SAM header line:	@SQ	SN:PGA_scaffold63732__1_contigs__length_50829	LN:50829
skipping SAM header line:	@SQ	SN:PGA_scaffold63734__1_contigs__length_31184	LN:31184
skipping SAM header line:	@SQ	SN:PGA_scaffold63741__1_contigs__length_36520	LN:36520
skipping SAM header line:	@SQ	SN:PGA_scaffold63748__1_contigs__length_33842	LN:33842
skipping SAM header line:	@SQ	SN:PGA_scaffold63749__1_contigs__length_42782	LN:42782
skipping SAM header line:	@SQ	SN:PGA_scaffold63751__1_contigs__length_41022	LN:41022
skipping SAM header line:	@SQ	SN:PGA_scaffold63753__1_contigs__length_33280	LN:33280
skipping SAM header line:	@SQ	SN:PGA_scaffold63754__1_contigs__length_42061	LN:42061
skipping SAM header line:	@SQ	SN:PGA_scaffold63762__1_contigs__length_32202	LN:32202
skipping SAM header line:	@SQ	SN:PGA_scaffold63788__1_contigs__length_79173	LN:79173
skipping SAM header line:	@SQ	SN:PGA_scaffold63874__1_contigs__length_36908	LN:36908
skipping SAM header line:	@SQ	SN:PGA_scaffold63883__1_contigs__length_68258	LN:68258
skipping SAM header line:	@SQ	SN:PGA_scaffold63886__1_contigs__length_33964	LN:33964
skipping SAM header line:	@SQ	SN:PGA_scaffold63901__1_contigs__length_33737	LN:33737
skipping SAM header line:	@SQ	SN:PGA_scaffold63902__1_contigs__length_30981	LN:30981
skipping SAM header line:	@SQ	SN:PGA_scaffold63904__1_contigs__length_56940	LN:56940
skipping SAM header line:	@SQ	SN:PGA_scaffold63956__1_contigs__length_32393	LN:32393
skipping SAM header line:	@SQ	SN:PGA_scaffold63976__1_contigs__length_45677	LN:45677
skipping SAM header line:	@SQ	SN:PGA_scaffold63999__1_contigs__length_42041	LN:42041
skipping SAM header line:	@SQ	SN:PGA_scaffold64025__1_contigs__length_40125	LN:40125
skipping SAM header line:	@SQ	SN:PGA_scaffold64049__1_contigs__length_45875	LN:45875
skipping SAM header line:	@SQ	SN:PGA_scaffold64054__1_contigs__length_70679	LN:70679
skipping SAM header line:	@SQ	SN:PGA_scaffold64073__1_contigs__length_36128	LN:36128
skipping SAM header line:	@SQ	SN:PGA_scaffold64074__1_contigs__length_54897	LN:54897
skipping SAM header line:	@SQ	SN:PGA_scaffold64084__1_contigs__length_71263	LN:71263
skipping SAM header line:	@SQ	SN:PGA_scaffold64113__1_contigs__length_37629	LN:37629
skipping SAM header line:	@SQ	SN:PGA_scaffold64144__1_contigs__length_53004	LN:53004
skipping SAM header line:	@SQ	SN:PGA_scaffold64157__1_contigs__length_31528	LN:31528
skipping SAM header line:	@SQ	SN:PGA_scaffold64179__1_contigs__length_31562	LN:31562
skipping SAM header line:	@SQ	SN:PGA_scaffold64197__1_contigs__length_34579	LN:34579
skipping SAM header line:	@SQ	SN:PGA_scaffold64208__1_contigs__length_45484	LN:45484
skipping SAM header line:	@SQ	SN:PGA_scaffold64277__1_contigs__length_37318	LN:37318
skipping SAM header line:	@SQ	SN:PGA_scaffold64339__1_contigs__length_32767	LN:32767
skipping SAM header line:	@SQ	SN:PGA_scaffold64352__1_contigs__length_40037	LN:40037
skipping SAM header line:	@SQ	SN:PGA_scaffold64383__1_contigs__length_88001	LN:88001
skipping SAM header line:	@SQ	SN:PGA_scaffold64394__1_contigs__length_33404	LN:33404
skipping SAM header line:	@SQ	SN:PGA_scaffold64426__1_contigs__length_49077	LN:49077
skipping SAM header line:	@SQ	SN:PGA_scaffold64456__1_contigs__length_38607	LN:38607
skipping SAM header line:	@SQ	SN:PGA_scaffold64462__1_contigs__length_30068	LN:30068
skipping SAM header line:	@SQ	SN:PGA_scaffold64465__1_contigs__length_42085	LN:42085
skipping SAM header line:	@SQ	SN:PGA_scaffold64466__1_contigs__length_38330	LN:38330
skipping SAM header line:	@SQ	SN:PGA_scaffold64470__1_contigs__length_48847	LN:48847
skipping SAM header line:	@SQ	SN:PGA_scaffold64471__1_contigs__length_34271	LN:34271
skipping SAM header line:	@SQ	SN:PGA_scaffold64473__1_contigs__length_33437	LN:33437
skipping SAM header line:	@SQ	SN:PGA_scaffold64529__1_contigs__length_33564	LN:33564
skipping SAM header line:	@SQ	SN:PGA_scaffold64530__1_contigs__length_30567	LN:30567
skipping SAM header line:	@SQ	SN:PGA_scaffold64574__1_contigs__length_46667	LN:46667
skipping SAM header line:	@SQ	SN:PGA_scaffold64593__1_contigs__length_38604	LN:38604
skipping SAM header line:	@SQ	SN:PGA_scaffold64604__1_contigs__length_30801	LN:30801
skipping SAM header line:	@SQ	SN:PGA_scaffold64606__1_contigs__length_35651	LN:35651
skipping SAM header line:	@SQ	SN:PGA_scaffold64607__1_contigs__length_70013	LN:70013
skipping SAM header line:	@SQ	SN:PGA_scaffold64608__1_contigs__length_49602	LN:49602
skipping SAM header line:	@SQ	SN:PGA_scaffold64613__1_contigs__length_42419	LN:42419
skipping SAM header line:	@SQ	SN:PGA_scaffold64639__1_contigs__length_35410	LN:35410
skipping SAM header line:	@SQ	SN:PGA_scaffold64660__1_contigs__length_45703	LN:45703
skipping SAM header line:	@SQ	SN:PGA_scaffold64695__1_contigs__length_70541	LN:70541
skipping SAM header line:	@SQ	SN:PGA_scaffold64697__1_contigs__length_43204	LN:43204
skipping SAM header line:	@SQ	SN:PGA_scaffold64699__1_contigs__length_32242	LN:32242
skipping SAM header line:	@SQ	SN:PGA_scaffold64701__1_contigs__length_57865	LN:57865
skipping SAM header line:	@SQ	SN:PGA_scaffold64702__1_contigs__length_30546	LN:30546
skipping SAM header line:	@SQ	SN:PGA_scaffold64737__1_contigs__length_40853	LN:40853
skipping SAM header line:	@SQ	SN:PGA_scaffold64742__1_contigs__length_65506	LN:65506
skipping SAM header line:	@SQ	SN:PGA_scaffold64773__1_contigs__length_73184	LN:73184
skipping SAM header line:	@SQ	SN:PGA_scaffold64789__1_contigs__length_47691	LN:47691
skipping SAM header line:	@SQ	SN:PGA_scaffold64790__1_contigs__length_34222	LN:34222
skipping SAM header line:	@SQ	SN:PGA_scaffold64825__1_contigs__length_54777	LN:54777
skipping SAM header line:	@SQ	SN:PGA_scaffold64826__1_contigs__length_30214	LN:30214
skipping SAM header line:	@SQ	SN:PGA_scaffold64882__1_contigs__length_39867	LN:39867
skipping SAM header line:	@SQ	SN:PGA_scaffold64903__1_contigs__length_42771	LN:42771
skipping SAM header line:	@SQ	SN:PGA_scaffold64931__1_contigs__length_44617	LN:44617
skipping SAM header line:	@SQ	SN:PGA_scaffold64934__1_contigs__length_30286	LN:30286
skipping SAM header line:	@SQ	SN:PGA_scaffold64954__1_contigs__length_35731	LN:35731
skipping SAM header line:	@SQ	SN:PGA_scaffold64964__1_contigs__length_54048	LN:54048
skipping SAM header line:	@SQ	SN:PGA_scaffold64971__1_contigs__length_96233	LN:96233
skipping SAM header line:	@SQ	SN:PGA_scaffold65021__1_contigs__length_40132	LN:40132
skipping SAM header line:	@SQ	SN:PGA_scaffold65031__1_contigs__length_52072	LN:52072
skipping SAM header line:	@SQ	SN:PGA_scaffold65077__1_contigs__length_78086	LN:78086
skipping SAM header line:	@SQ	SN:PGA_scaffold65079__1_contigs__length_38850	LN:38850
skipping SAM header line:	@SQ	SN:PGA_scaffold65086__1_contigs__length_44941	LN:44941
skipping SAM header line:	@SQ	SN:PGA_scaffold65089__1_contigs__length_56911	LN:56911
skipping SAM header line:	@SQ	SN:PGA_scaffold65091__1_contigs__length_44371	LN:44371
skipping SAM header line:	@SQ	SN:PGA_scaffold65116__1_contigs__length_38844	LN:38844
skipping SAM header line:	@SQ	SN:PGA_scaffold65119__1_contigs__length_57101	LN:57101
skipping SAM header line:	@SQ	SN:PGA_scaffold65171__1_contigs__length_46480	LN:46480
skipping SAM header line:	@SQ	SN:PGA_scaffold65174__1_contigs__length_38341	LN:38341
skipping SAM header line:	@SQ	SN:PGA_scaffold65186__1_contigs__length_41412	LN:41412
skipping SAM header line:	@SQ	SN:PGA_scaffold65198__1_contigs__length_44989	LN:44989
skipping SAM header line:	@SQ	SN:PGA_scaffold65255__1_contigs__length_59866	LN:59866
skipping SAM header line:	@SQ	SN:PGA_scaffold65278__1_contigs__length_62003	LN:62003
skipping SAM header line:	@SQ	SN:PGA_scaffold65284__1_contigs__length_50840	LN:50840
skipping SAM header line:	@SQ	SN:PGA_scaffold65305__1_contigs__length_40067	LN:40067
skipping SAM header line:	@SQ	SN:PGA_scaffold65307__1_contigs__length_57187	LN:57187
skipping SAM header line:	@SQ	SN:PGA_scaffold65313__1_contigs__length_38893	LN:38893
skipping SAM header line:	@SQ	SN:PGA_scaffold65329__1_contigs__length_30096	LN:30096
skipping SAM header line:	@SQ	SN:PGA_scaffold65356__1_contigs__length_44587	LN:44587
skipping SAM header line:	@SQ	SN:PGA_scaffold65398__1_contigs__length_63537	LN:63537
skipping SAM header line:	@SQ	SN:PGA_scaffold65399__1_contigs__length_61838	LN:61838
skipping SAM header line:	@SQ	SN:PGA_scaffold65461__1_contigs__length_37665	LN:37665
skipping SAM header line:	@SQ	SN:PGA_scaffold65465__1_contigs__length_31799	LN:31799
skipping SAM header line:	@SQ	SN:PGA_scaffold65505__1_contigs__length_41126	LN:41126
skipping SAM header line:	@SQ	SN:PGA_scaffold65585__1_contigs__length_31567	LN:31567
skipping SAM header line:	@SQ	SN:PGA_scaffold65600__1_contigs__length_32016	LN:32016
skipping SAM header line:	@SQ	SN:PGA_scaffold65653__1_contigs__length_32424	LN:32424
skipping SAM header line:	@SQ	SN:PGA_scaffold65693__1_contigs__length_34648	LN:34648
skipping SAM header line:	@SQ	SN:PGA_scaffold65737__1_contigs__length_37231	LN:37231
skipping SAM header line:	@SQ	SN:PGA_scaffold65765__1_contigs__length_39217	LN:39217
skipping SAM header line:	@SQ	SN:PGA_scaffold65777__1_contigs__length_32724	LN:32724
skipping SAM header line:	@SQ	SN:PGA_scaffold65781__1_contigs__length_42302	LN:42302
skipping SAM header line:	@SQ	SN:PGA_scaffold65786__1_contigs__length_56597	LN:56597
skipping SAM header line:	@SQ	SN:PGA_scaffold65807__1_contigs__length_35379	LN:35379
skipping SAM header line:	@SQ	SN:PGA_scaffold65809__1_contigs__length_36632	LN:36632
skipping SAM header line:	@SQ	SN:PGA_scaffold65815__1_contigs__length_49308	LN:49308
skipping SAM header line:	@SQ	SN:PGA_scaffold65846__1_contigs__length_33986	LN:33986
skipping SAM header line:	@SQ	SN:PGA_scaffold65851__1_contigs__length_44621	LN:44621
skipping SAM header line:	@SQ	SN:PGA_scaffold65866__1_contigs__length_90471	LN:90471
skipping SAM header line:	@SQ	SN:PGA_scaffold65911__1_contigs__length_48303	LN:48303
skipping SAM header line:	@SQ	SN:PGA_scaffold65912__1_contigs__length_34561	LN:34561
skipping SAM header line:	@SQ	SN:PGA_scaffold65945__1_contigs__length_40559	LN:40559
skipping SAM header line:	@SQ	SN:PGA_scaffold65949__1_contigs__length_35336	LN:35336
skipping SAM header line:	@SQ	SN:PGA_scaffold65954__1_contigs__length_39725	LN:39725
skipping SAM header line:	@SQ	SN:PGA_scaffold65967__1_contigs__length_36096	LN:36096
skipping SAM header line:	@SQ	SN:PGA_scaffold65987__1_contigs__length_52560	LN:52560
skipping SAM header line:	@SQ	SN:PGA_scaffold66001__1_contigs__length_39013	LN:39013
skipping SAM header line:	@SQ	SN:PGA_scaffold66037__1_contigs__length_37904	LN:37904
skipping SAM header line:	@SQ	SN:PGA_scaffold66060__1_contigs__length_47051	LN:47051
skipping SAM header line:	@SQ	SN:PGA_scaffold66062__1_contigs__length_35720	LN:35720
skipping SAM header line:	@SQ	SN:PGA_scaffold66079__1_contigs__length_37644	LN:37644
skipping SAM header line:	@SQ	SN:PGA_scaffold66102__1_contigs__length_38669	LN:38669
skipping SAM header line:	@SQ	SN:PGA_scaffold66132__1_contigs__length_39192	LN:39192
skipping SAM header line:	@SQ	SN:PGA_scaffold66172__1_contigs__length_62844	LN:62844
skipping SAM header line:	@SQ	SN:PGA_scaffold66173__1_contigs__length_34319	LN:34319
skipping SAM header line:	@SQ	SN:PGA_scaffold66178__1_contigs__length_49601	LN:49601
skipping SAM header line:	@SQ	SN:PGA_scaffold66186__1_contigs__length_45928	LN:45928
skipping SAM header line:	@SQ	SN:PGA_scaffold66196__1_contigs__length_53841	LN:53841
skipping SAM header line:	@SQ	SN:PGA_scaffold66212__1_contigs__length_32503	LN:32503
skipping SAM header line:	@SQ	SN:PGA_scaffold66276__1_contigs__length_39820	LN:39820
skipping SAM header line:	@SQ	SN:PGA_scaffold66293__1_contigs__length_33304	LN:33304
skipping SAM header line:	@SQ	SN:PGA_scaffold66318__1_contigs__length_45619	LN:45619
skipping SAM header line:	@SQ	SN:PGA_scaffold66338__1_contigs__length_30756	LN:30756
skipping SAM header line:	@SQ	SN:PGA_scaffold66399__1_contigs__length_42456	LN:42456
skipping SAM header line:	@SQ	SN:PGA_scaffold66419__1_contigs__length_49715	LN:49715
skipping SAM header line:	@SQ	SN:PGA_scaffold66434__1_contigs__length_46589	LN:46589
skipping SAM header line:	@SQ	SN:PGA_scaffold66452__1_contigs__length_42482	LN:42482
skipping SAM header line:	@SQ	SN:PGA_scaffold66481__1_contigs__length_32127	LN:32127
skipping SAM header line:	@SQ	SN:PGA_scaffold66513__1_contigs__length_33853	LN:33853
skipping SAM header line:	@SQ	SN:PGA_scaffold66519__1_contigs__length_33851	LN:33851
skipping SAM header line:	@SQ	SN:PGA_scaffold66554__1_contigs__length_46378	LN:46378
skipping SAM header line:	@SQ	SN:PGA_scaffold66557__1_contigs__length_39298	LN:39298
skipping SAM header line:	@SQ	SN:PGA_scaffold66594__1_contigs__length_45007	LN:45007
skipping SAM header line:	@SQ	SN:PGA_scaffold66641__1_contigs__length_41123	LN:41123
skipping SAM header line:	@SQ	SN:PGA_scaffold66642__1_contigs__length_33139	LN:33139
skipping SAM header line:	@SQ	SN:PGA_scaffold66656__1_contigs__length_57103	LN:57103
skipping SAM header line:	@SQ	SN:PGA_scaffold66666__1_contigs__length_58206	LN:58206
skipping SAM header line:	@SQ	SN:PGA_scaffold66674__1_contigs__length_30853	LN:30853
skipping SAM header line:	@SQ	SN:PGA_scaffold66682__1_contigs__length_34382	LN:34382
skipping SAM header line:	@SQ	SN:PGA_scaffold66713__1_contigs__length_84867	LN:84867
skipping SAM header line:	@SQ	SN:PGA_scaffold66717__1_contigs__length_43668	LN:43668
skipping SAM header line:	@SQ	SN:PGA_scaffold66721__1_contigs__length_30932	LN:30932
skipping SAM header line:	@SQ	SN:PGA_scaffold66729__1_contigs__length_32971	LN:32971
skipping SAM header line:	@SQ	SN:PGA_scaffold66737__1_contigs__length_35128	LN:35128
skipping SAM header line:	@SQ	SN:PGA_scaffold66767__1_contigs__length_30996	LN:30996
skipping SAM header line:	@SQ	SN:PGA_scaffold66795__1_contigs__length_33697	LN:33697
skipping SAM header line:	@SQ	SN:PGA_scaffold66797__1_contigs__length_36926	LN:36926
skipping SAM header line:	@SQ	SN:PGA_scaffold66804__1_contigs__length_31229	LN:31229
skipping SAM header line:	@SQ	SN:PGA_scaffold66854__1_contigs__length_42887	LN:42887
skipping SAM header line:	@SQ	SN:PGA_scaffold66861__1_contigs__length_33604	LN:33604
skipping SAM header line:	@SQ	SN:PGA_scaffold66907__1_contigs__length_30664	LN:30664
skipping SAM header line:	@SQ	SN:PGA_scaffold66932__1_contigs__length_31539	LN:31539
skipping SAM header line:	@SQ	SN:PGA_scaffold67057__1_contigs__length_30266	LN:30266
skipping SAM header line:	@SQ	SN:PGA_scaffold67070__1_contigs__length_50493	LN:50493
skipping SAM header line:	@SQ	SN:PGA_scaffold67145__1_contigs__length_36418	LN:36418
skipping SAM header line:	@SQ	SN:PGA_scaffold67154__1_contigs__length_38445	LN:38445
skipping SAM header line:	@SQ	SN:PGA_scaffold67214__1_contigs__length_49673	LN:49673
skipping SAM header line:	@SQ	SN:PGA_scaffold67280__1_contigs__length_31885	LN:31885
skipping SAM header line:	@SQ	SN:PGA_scaffold67294__1_contigs__length_50832	LN:50832
skipping SAM header line:	@SQ	SN:PGA_scaffold67337__1_contigs__length_52553	LN:52553
skipping SAM header line:	@SQ	SN:PGA_scaffold67346__1_contigs__length_32090	LN:32090
skipping SAM header line:	@SQ	SN:PGA_scaffold67399__1_contigs__length_33211	LN:33211
skipping SAM header line:	@SQ	SN:PGA_scaffold67407__1_contigs__length_73205	LN:73205
skipping SAM header line:	@SQ	SN:PGA_scaffold67409__1_contigs__length_30272	LN:30272
skipping SAM header line:	@SQ	SN:PGA_scaffold67460__1_contigs__length_63707	LN:63707
skipping SAM header line:	@SQ	SN:PGA_scaffold67469__1_contigs__length_34100	LN:34100
skipping SAM header line:	@SQ	SN:PGA_scaffold67491__1_contigs__length_36666	LN:36666
skipping SAM header line:	@SQ	SN:PGA_scaffold67492__1_contigs__length_32377	LN:32377
skipping SAM header line:	@SQ	SN:PGA_scaffold67500__1_contigs__length_32321	LN:32321
skipping SAM header line:	@SQ	SN:PGA_scaffold67501__1_contigs__length_45282	LN:45282
skipping SAM header line:	@SQ	SN:PGA_scaffold67506__1_contigs__length_34916	LN:34916
skipping SAM header line:	@SQ	SN:PGA_scaffold67532__1_contigs__length_45886	LN:45886
skipping SAM header line:	@SQ	SN:PGA_scaffold67555__1_contigs__length_42738	LN:42738
skipping SAM header line:	@SQ	SN:PGA_scaffold67566__1_contigs__length_131359	LN:131359
skipping SAM header line:	@SQ	SN:PGA_scaffold67576__1_contigs__length_71513	LN:71513
skipping SAM header line:	@SQ	SN:PGA_scaffold67579__1_contigs__length_30606	LN:30606
skipping SAM header line:	@SQ	SN:PGA_scaffold67604__1_contigs__length_30533	LN:30533
skipping SAM header line:	@SQ	SN:PGA_scaffold67614__1_contigs__length_45881	LN:45881
skipping SAM header line:	@SQ	SN:PGA_scaffold67629__1_contigs__length_41418	LN:41418
skipping SAM header line:	@SQ	SN:PGA_scaffold67633__1_contigs__length_49909	LN:49909
skipping SAM header line:	@SQ	SN:PGA_scaffold67641__1_contigs__length_35654	LN:35654
skipping SAM header line:	@SQ	SN:PGA_scaffold67666__1_contigs__length_32329	LN:32329
skipping SAM header line:	@SQ	SN:PGA_scaffold67687__1_contigs__length_62665	LN:62665
skipping SAM header line:	@SQ	SN:PGA_scaffold67702__1_contigs__length_30259	LN:30259
skipping SAM header line:	@SQ	SN:PGA_scaffold67709__1_contigs__length_32364	LN:32364
skipping SAM header line:	@SQ	SN:PGA_scaffold67745__1_contigs__length_41387	LN:41387
skipping SAM header line:	@SQ	SN:PGA_scaffold67754__1_contigs__length_46865	LN:46865
skipping SAM header line:	@SQ	SN:PGA_scaffold67781__1_contigs__length_42225	LN:42225
skipping SAM header line:	@SQ	SN:PGA_scaffold67782__1_contigs__length_31631	LN:31631
skipping SAM header line:	@SQ	SN:PGA_scaffold67794__1_contigs__length_36514	LN:36514
skipping SAM header line:	@SQ	SN:PGA_scaffold67874__1_contigs__length_35874	LN:35874
skipping SAM header line:	@SQ	SN:PGA_scaffold67908__1_contigs__length_39573	LN:39573
skipping SAM header line:	@SQ	SN:PGA_scaffold67909__1_contigs__length_30059	LN:30059
skipping SAM header line:	@SQ	SN:PGA_scaffold67921__1_contigs__length_42945	LN:42945
skipping SAM header line:	@SQ	SN:PGA_scaffold67942__1_contigs__length_32835	LN:32835
skipping SAM header line:	@SQ	SN:PGA_scaffold67967__1_contigs__length_40481	LN:40481
skipping SAM header line:	@SQ	SN:PGA_scaffold67981__1_contigs__length_35686	LN:35686
skipping SAM header line:	@SQ	SN:PGA_scaffold68035__1_contigs__length_42103	LN:42103
skipping SAM header line:	@SQ	SN:PGA_scaffold68039__1_contigs__length_32241	LN:32241
skipping SAM header line:	@SQ	SN:PGA_scaffold68042__1_contigs__length_43179	LN:43179
skipping SAM header line:	@SQ	SN:PGA_scaffold68044__1_contigs__length_31992	LN:31992
skipping SAM header line:	@SQ	SN:PGA_scaffold68049__1_contigs__length_34344	LN:34344
skipping SAM header line:	@SQ	SN:PGA_scaffold68053__1_contigs__length_31000	LN:31000
skipping SAM header line:	@SQ	SN:PGA_scaffold68092__1_contigs__length_33414	LN:33414
skipping SAM header line:	@SQ	SN:PGA_scaffold68150__1_contigs__length_50783	LN:50783
skipping SAM header line:	@SQ	SN:PGA_scaffold68157__1_contigs__length_34106	LN:34106
skipping SAM header line:	@SQ	SN:PGA_scaffold68184__1_contigs__length_41355	LN:41355
skipping SAM header line:	@SQ	SN:PGA_scaffold68193__1_contigs__length_46031	LN:46031
skipping SAM header line:	@SQ	SN:PGA_scaffold68205__1_contigs__length_30954	LN:30954
skipping SAM header line:	@SQ	SN:PGA_scaffold68252__1_contigs__length_37078	LN:37078
skipping SAM header line:	@SQ	SN:PGA_scaffold68273__1_contigs__length_46075	LN:46075
skipping SAM header line:	@SQ	SN:PGA_scaffold68274__1_contigs__length_63866	LN:63866
skipping SAM header line:	@SQ	SN:PGA_scaffold68332__1_contigs__length_52891	LN:52891
skipping SAM header line:	@SQ	SN:PGA_scaffold68355__1_contigs__length_44244	LN:44244
skipping SAM header line:	@SQ	SN:PGA_scaffold68382__1_contigs__length_35256	LN:35256
skipping SAM header line:	@SQ	SN:PGA_scaffold68387__1_contigs__length_39768	LN:39768
skipping SAM header line:	@SQ	SN:PGA_scaffold68394__1_contigs__length_31191	LN:31191
skipping SAM header line:	@SQ	SN:PGA_scaffold68395__1_contigs__length_45596	LN:45596
skipping SAM header line:	@SQ	SN:PGA_scaffold68397__1_contigs__length_46584	LN:46584
skipping SAM header line:	@SQ	SN:PGA_scaffold68425__1_contigs__length_32148	LN:32148
skipping SAM header line:	@SQ	SN:PGA_scaffold68455__1_contigs__length_49171	LN:49171
skipping SAM header line:	@SQ	SN:PGA_scaffold68463__1_contigs__length_36019	LN:36019
skipping SAM header line:	@SQ	SN:PGA_scaffold68476__1_contigs__length_31493	LN:31493
skipping SAM header line:	@SQ	SN:PGA_scaffold68483__1_contigs__length_57370	LN:57370
skipping SAM header line:	@SQ	SN:PGA_scaffold68484__1_contigs__length_47467	LN:47467
skipping SAM header line:	@SQ	SN:PGA_scaffold68495__1_contigs__length_36431	LN:36431
skipping SAM header line:	@SQ	SN:PGA_scaffold68498__1_contigs__length_33054	LN:33054
skipping SAM header line:	@SQ	SN:PGA_scaffold68529__1_contigs__length_45929	LN:45929
skipping SAM header line:	@SQ	SN:PGA_scaffold68536__1_contigs__length_53547	LN:53547
skipping SAM header line:	@SQ	SN:PGA_scaffold68576__1_contigs__length_34428	LN:34428
skipping SAM header line:	@SQ	SN:PGA_scaffold68613__1_contigs__length_44262	LN:44262
skipping SAM header line:	@SQ	SN:PGA_scaffold68674__1_contigs__length_32423	LN:32423
skipping SAM header line:	@SQ	SN:PGA_scaffold68721__1_contigs__length_42259	LN:42259
skipping SAM header line:	@SQ	SN:PGA_scaffold68747__1_contigs__length_49906	LN:49906
skipping SAM header line:	@SQ	SN:PGA_scaffold68765__1_contigs__length_40132	LN:40132
skipping SAM header line:	@SQ	SN:PGA_scaffold68777__1_contigs__length_38286	LN:38286
skipping SAM header line:	@SQ	SN:PGA_scaffold68795__1_contigs__length_49952	LN:49952
skipping SAM header line:	@SQ	SN:PGA_scaffold68798__1_contigs__length_41851	LN:41851
skipping SAM header line:	@SQ	SN:PGA_scaffold68816__1_contigs__length_39953	LN:39953
skipping SAM header line:	@SQ	SN:PGA_scaffold68822__1_contigs__length_40525	LN:40525
skipping SAM header line:	@SQ	SN:PGA_scaffold68849__1_contigs__length_42390	LN:42390
skipping SAM header line:	@SQ	SN:PGA_scaffold68855__1_contigs__length_38462	LN:38462
skipping SAM header line:	@SQ	SN:PGA_scaffold68858__1_contigs__length_37103	LN:37103
skipping SAM header line:	@SQ	SN:PGA_scaffold68888__1_contigs__length_30760	LN:30760
skipping SAM header line:	@SQ	SN:PGA_scaffold68902__1_contigs__length_32565	LN:32565
skipping SAM header line:	@SQ	SN:PGA_scaffold68916__1_contigs__length_32130	LN:32130
skipping SAM header line:	@SQ	SN:PGA_scaffold68959__1_contigs__length_34473	LN:34473
skipping SAM header line:	@SQ	SN:PGA_scaffold68980__1_contigs__length_31650	LN:31650
skipping SAM header line:	@SQ	SN:PGA_scaffold69000__1_contigs__length_31325	LN:31325
skipping SAM header line:	@SQ	SN:PGA_scaffold69031__1_contigs__length_49096	LN:49096
skipping SAM header line:	@SQ	SN:PGA_scaffold69064__1_contigs__length_30263	LN:30263
skipping SAM header line:	@SQ	SN:PGA_scaffold69066__1_contigs__length_41967	LN:41967
skipping SAM header line:	@SQ	SN:PGA_scaffold69075__1_contigs__length_43631	LN:43631
skipping SAM header line:	@SQ	SN:PGA_scaffold69088__1_contigs__length_46450	LN:46450
skipping SAM header line:	@SQ	SN:PGA_scaffold69098__1_contigs__length_35440	LN:35440
skipping SAM header line:	@SQ	SN:PGA_scaffold69099__1_contigs__length_56136	LN:56136
skipping SAM header line:	@SQ	SN:PGA_scaffold69107__1_contigs__length_36690	LN:36690
skipping SAM header line:	@SQ	SN:PGA_scaffold69130__1_contigs__length_52115	LN:52115
skipping SAM header line:	@SQ	SN:PGA_scaffold69149__1_contigs__length_34885	LN:34885
skipping SAM header line:	@SQ	SN:PGA_scaffold69173__1_contigs__length_31383	LN:31383
skipping SAM header line:	@SQ	SN:PGA_scaffold69251__1_contigs__length_36385	LN:36385
skipping SAM header line:	@SQ	SN:PGA_scaffold69286__1_contigs__length_32034	LN:32034
skipping SAM header line:	@SQ	SN:PGA_scaffold69294__1_contigs__length_33022	LN:33022
skipping SAM header line:	@SQ	SN:PGA_scaffold69311__1_contigs__length_34239	LN:34239
skipping SAM header line:	@SQ	SN:PGA_scaffold69332__1_contigs__length_37657	LN:37657
skipping SAM header line:	@SQ	SN:PGA_scaffold69353__1_contigs__length_32912	LN:32912
skipping SAM header line:	@SQ	SN:PGA_scaffold69354__1_contigs__length_42598	LN:42598
skipping SAM header line:	@SQ	SN:PGA_scaffold69362__1_contigs__length_32911	LN:32911
skipping SAM header line:	@SQ	SN:PGA_scaffold69376__1_contigs__length_34929	LN:34929
skipping SAM header line:	@SQ	SN:PGA_scaffold69388__1_contigs__length_51830	LN:51830
skipping SAM header line:	@SQ	SN:PGA_scaffold69435__1_contigs__length_57426	LN:57426
skipping SAM header line:	@SQ	SN:PGA_scaffold69439__1_contigs__length_41542	LN:41542
skipping SAM header line:	@SQ	SN:PGA_scaffold69451__1_contigs__length_39160	LN:39160
skipping SAM header line:	@SQ	SN:PGA_scaffold69459__1_contigs__length_45501	LN:45501
skipping SAM header line:	@SQ	SN:PGA_scaffold69477__1_contigs__length_38210	LN:38210
skipping SAM header line:	@SQ	SN:PGA_scaffold69479__1_contigs__length_32808	LN:32808
skipping SAM header line:	@SQ	SN:PGA_scaffold69484__1_contigs__length_31150	LN:31150
skipping SAM header line:	@SQ	SN:PGA_scaffold69495__1_contigs__length_53052	LN:53052
skipping SAM header line:	@SQ	SN:PGA_scaffold69529__1_contigs__length_33639	LN:33639
skipping SAM header line:	@SQ	SN:PGA_scaffold69555__1_contigs__length_42966	LN:42966
skipping SAM header line:	@SQ	SN:PGA_scaffold69556__1_contigs__length_33961	LN:33961
skipping SAM header line:	@SQ	SN:PGA_scaffold69619__1_contigs__length_30388	LN:30388
skipping SAM header line:	@SQ	SN:PGA_scaffold69621__1_contigs__length_30422	LN:30422
skipping SAM header line:	@SQ	SN:PGA_scaffold69622__1_contigs__length_37660	LN:37660
skipping SAM header line:	@SQ	SN:PGA_scaffold69631__1_contigs__length_44909	LN:44909
skipping SAM header line:	@SQ	SN:PGA_scaffold69645__1_contigs__length_46339	LN:46339
skipping SAM header line:	@SQ	SN:PGA_scaffold69669__1_contigs__length_34799	LN:34799
skipping SAM header line:	@SQ	SN:PGA_scaffold69683__1_contigs__length_40360	LN:40360
skipping SAM header line:	@SQ	SN:PGA_scaffold69711__1_contigs__length_31728	LN:31728
skipping SAM header line:	@SQ	SN:PGA_scaffold69724__1_contigs__length_36238	LN:36238
skipping SAM header line:	@SQ	SN:PGA_scaffold69769__1_contigs__length_67326	LN:67326
skipping SAM header line:	@SQ	SN:PGA_scaffold69780__1_contigs__length_36085	LN:36085
skipping SAM header line:	@SQ	SN:PGA_scaffold69798__1_contigs__length_44809	LN:44809
skipping SAM header line:	@SQ	SN:PGA_scaffold69800__1_contigs__length_33144	LN:33144
skipping SAM header line:	@SQ	SN:PGA_scaffold69807__1_contigs__length_45521	LN:45521
skipping SAM header line:	@SQ	SN:PGA_scaffold69829__1_contigs__length_34810	LN:34810
skipping SAM header line:	@SQ	SN:PGA_scaffold69869__1_contigs__length_52996	LN:52996
skipping SAM header line:	@SQ	SN:PGA_scaffold69890__1_contigs__length_34157	LN:34157
skipping SAM header line:	@SQ	SN:PGA_scaffold69901__1_contigs__length_33452	LN:33452
skipping SAM header line:	@SQ	SN:PGA_scaffold69924__1_contigs__length_44446	LN:44446
skipping SAM header line:	@SQ	SN:PGA_scaffold69935__1_contigs__length_32162	LN:32162
skipping SAM header line:	@SQ	SN:PGA_scaffold69949__1_contigs__length_34320	LN:34320
skipping SAM header line:	@SQ	SN:PGA_scaffold69958__1_contigs__length_74035	LN:74035
skipping SAM header line:	@SQ	SN:PGA_scaffold69967__1_contigs__length_33074	LN:33074
skipping SAM header line:	@SQ	SN:PGA_scaffold69970__1_contigs__length_36785	LN:36785
skipping SAM header line:	@SQ	SN:PGA_scaffold69984__1_contigs__length_60451	LN:60451
skipping SAM header line:	@SQ	SN:PGA_scaffold70035__1_contigs__length_36658	LN:36658
skipping SAM header line:	@SQ	SN:PGA_scaffold70070__1_contigs__length_49697	LN:49697
skipping SAM header line:	@SQ	SN:PGA_scaffold70086__1_contigs__length_42850	LN:42850
skipping SAM header line:	@SQ	SN:PGA_scaffold70089__1_contigs__length_30721	LN:30721
skipping SAM header line:	@SQ	SN:PGA_scaffold70108__1_contigs__length_34192	LN:34192
skipping SAM header line:	@SQ	SN:PGA_scaffold70142__1_contigs__length_30446	LN:30446
skipping SAM header line:	@SQ	SN:PGA_scaffold70148__1_contigs__length_34259	LN:34259
skipping SAM header line:	@SQ	SN:PGA_scaffold70159__1_contigs__length_39306	LN:39306
skipping SAM header line:	@SQ	SN:PGA_scaffold70172__1_contigs__length_32250	LN:32250
skipping SAM header line:	@SQ	SN:PGA_scaffold70187__1_contigs__length_37612	LN:37612
skipping SAM header line:	@SQ	SN:PGA_scaffold70197__1_contigs__length_58642	LN:58642
skipping SAM header line:	@SQ	SN:PGA_scaffold70204__1_contigs__length_36625	LN:36625
skipping SAM header line:	@SQ	SN:PGA_scaffold70218__1_contigs__length_31585	LN:31585
skipping SAM header line:	@SQ	SN:PGA_scaffold70228__1_contigs__length_47471	LN:47471
skipping SAM header line:	@SQ	SN:PGA_scaffold70241__1_contigs__length_36884	LN:36884
skipping SAM header line:	@SQ	SN:PGA_scaffold70287__1_contigs__length_50534	LN:50534
skipping SAM header line:	@SQ	SN:PGA_scaffold70301__1_contigs__length_33670	LN:33670
skipping SAM header line:	@SQ	SN:PGA_scaffold70359__1_contigs__length_31823	LN:31823
skipping SAM header line:	@SQ	SN:PGA_scaffold70409__1_contigs__length_30379	LN:30379
skipping SAM header line:	@SQ	SN:PGA_scaffold70448__1_contigs__length_39500	LN:39500
skipping SAM header line:	@SQ	SN:PGA_scaffold70468__1_contigs__length_51685	LN:51685
skipping SAM header line:	@SQ	SN:PGA_scaffold70474__1_contigs__length_50365	LN:50365
skipping SAM header line:	@SQ	SN:PGA_scaffold70476__1_contigs__length_49360	LN:49360
skipping SAM header line:	@SQ	SN:PGA_scaffold70489__1_contigs__length_43424	LN:43424
skipping SAM header line:	@SQ	SN:PGA_scaffold70492__1_contigs__length_45967	LN:45967
skipping SAM header line:	@SQ	SN:PGA_scaffold70506__1_contigs__length_45721	LN:45721
skipping SAM header line:	@SQ	SN:PGA_scaffold70524__1_contigs__length_38508	LN:38508
skipping SAM header line:	@SQ	SN:PGA_scaffold70527__1_contigs__length_47656	LN:47656
skipping SAM header line:	@SQ	SN:PGA_scaffold70530__1_contigs__length_39511	LN:39511
skipping SAM header line:	@SQ	SN:PGA_scaffold70597__1_contigs__length_32895	LN:32895
skipping SAM header line:	@SQ	SN:PGA_scaffold70628__1_contigs__length_97563	LN:97563
skipping SAM header line:	@SQ	SN:PGA_scaffold70637__1_contigs__length_38808	LN:38808
skipping SAM header line:	@SQ	SN:PGA_scaffold70639__1_contigs__length_30384	LN:30384
skipping SAM header line:	@SQ	SN:PGA_scaffold70640__1_contigs__length_30940	LN:30940
skipping SAM header line:	@SQ	SN:PGA_scaffold70650__1_contigs__length_36340	LN:36340
skipping SAM header line:	@SQ	SN:PGA_scaffold70652__1_contigs__length_42814	LN:42814
skipping SAM header line:	@SQ	SN:PGA_scaffold70653__1_contigs__length_42188	LN:42188
skipping SAM header line:	@SQ	SN:PGA_scaffold70667__1_contigs__length_31073	LN:31073
skipping SAM header line:	@SQ	SN:PGA_scaffold70744__1_contigs__length_41353	LN:41353
skipping SAM header line:	@SQ	SN:PGA_scaffold70751__1_contigs__length_35732	LN:35732
skipping SAM header line:	@SQ	SN:PGA_scaffold70770__1_contigs__length_37647	LN:37647
skipping SAM header line:	@SQ	SN:PGA_scaffold70785__1_contigs__length_35848	LN:35848
skipping SAM header line:	@SQ	SN:PGA_scaffold70788__1_contigs__length_34232	LN:34232
skipping SAM header line:	@SQ	SN:PGA_scaffold70791__1_contigs__length_36664	LN:36664
skipping SAM header line:	@SQ	SN:PGA_scaffold70793__1_contigs__length_31797	LN:31797
skipping SAM header line:	@SQ	SN:PGA_scaffold70795__1_contigs__length_35890	LN:35890
skipping SAM header line:	@SQ	SN:PGA_scaffold70814__1_contigs__length_47056	LN:47056
skipping SAM header line:	@SQ	SN:PGA_scaffold70837__1_contigs__length_33454	LN:33454
skipping SAM header line:	@SQ	SN:PGA_scaffold70839__1_contigs__length_41296	LN:41296
skipping SAM header line:	@SQ	SN:PGA_scaffold70880__1_contigs__length_31372	LN:31372
skipping SAM header line:	@SQ	SN:PGA_scaffold70894__1_contigs__length_47158	LN:47158
skipping SAM header line:	@SQ	SN:PGA_scaffold70911__1_contigs__length_31781	LN:31781
skipping SAM header line:	@SQ	SN:PGA_scaffold70919__1_contigs__length_35080	LN:35080
skipping SAM header line:	@SQ	SN:PGA_scaffold70967__1_contigs__length_30258	LN:30258
skipping SAM header line:	@SQ	SN:PGA_scaffold70990__1_contigs__length_44272	LN:44272
skipping SAM header line:	@SQ	SN:PGA_scaffold71003__1_contigs__length_32258	LN:32258
skipping SAM header line:	@SQ	SN:PGA_scaffold71016__1_contigs__length_52719	LN:52719
skipping SAM header line:	@SQ	SN:PGA_scaffold71023__1_contigs__length_42297	LN:42297
skipping SAM header line:	@SQ	SN:PGA_scaffold71024__1_contigs__length_37906	LN:37906
skipping SAM header line:	@SQ	SN:PGA_scaffold71080__1_contigs__length_35132	LN:35132
skipping SAM header line:	@SQ	SN:PGA_scaffold71087__1_contigs__length_36896	LN:36896
skipping SAM header line:	@SQ	SN:PGA_scaffold71091__1_contigs__length_33646	LN:33646
skipping SAM header line:	@SQ	SN:PGA_scaffold71150__1_contigs__length_30573	LN:30573
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skipping SAM header line:	@SQ	SN:PGA_scaffold71157__1_contigs__length_46861	LN:46861
skipping SAM header line:	@SQ	SN:PGA_scaffold71196__1_contigs__length_54597	LN:54597
skipping SAM header line:	@SQ	SN:PGA_scaffold71206__1_contigs__length_30090	LN:30090
skipping SAM header line:	@SQ	SN:PGA_scaffold71207__1_contigs__length_51143	LN:51143
skipping SAM header line:	@SQ	SN:PGA_scaffold71213__1_contigs__length_30215	LN:30215
skipping SAM header line:	@SQ	SN:PGA_scaffold71232__1_contigs__length_34336	LN:34336
skipping SAM header line:	@SQ	SN:PGA_scaffold71242__1_contigs__length_41800	LN:41800
skipping SAM header line:	@SQ	SN:PGA_scaffold71274__1_contigs__length_40536	LN:40536
skipping SAM header line:	@SQ	SN:PGA_scaffold71303__1_contigs__length_45292	LN:45292
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skipping SAM header line:	@SQ	SN:PGA_scaffold71307__1_contigs__length_42784	LN:42784
skipping SAM header line:	@SQ	SN:PGA_scaffold71310__1_contigs__length_31572	LN:31572
skipping SAM header line:	@SQ	SN:PGA_scaffold71339__1_contigs__length_31076	LN:31076
skipping SAM header line:	@SQ	SN:PGA_scaffold71346__1_contigs__length_42813	LN:42813
skipping SAM header line:	@SQ	SN:PGA_scaffold71395__1_contigs__length_38671	LN:38671
skipping SAM header line:	@SQ	SN:PGA_scaffold71397__1_contigs__length_30669	LN:30669
skipping SAM header line:	@SQ	SN:PGA_scaffold71455__1_contigs__length_57134	LN:57134
skipping SAM header line:	@SQ	SN:PGA_scaffold71488__1_contigs__length_33569	LN:33569
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skipping SAM header line:	@SQ	SN:PGA_scaffold71528__1_contigs__length_39316	LN:39316
skipping SAM header line:	@SQ	SN:PGA_scaffold71579__1_contigs__length_45677	LN:45677
skipping SAM header line:	@SQ	SN:PGA_scaffold71639__1_contigs__length_32497	LN:32497
skipping SAM header line:	@SQ	SN:PGA_scaffold71656__1_contigs__length_30617	LN:30617
skipping SAM header line:	@SQ	SN:PGA_scaffold71660__1_contigs__length_43947	LN:43947
skipping SAM header line:	@SQ	SN:PGA_scaffold71671__1_contigs__length_34003	LN:34003
skipping SAM header line:	@SQ	SN:PGA_scaffold71686__1_contigs__length_54590	LN:54590
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skipping SAM header line:	@SQ	SN:PGA_scaffold71705__1_contigs__length_48045	LN:48045
skipping SAM header line:	@SQ	SN:PGA_scaffold71710__1_contigs__length_40502	LN:40502
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skipping SAM header line:	@SQ	SN:PGA_scaffold71779__1_contigs__length_40693	LN:40693
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skipping SAM header line:	@SQ	SN:PGA_scaffold71811__1_contigs__length_63968	LN:63968
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skipping SAM header line:	@SQ	SN:PGA_scaffold71870__1_contigs__length_62386	LN:62386
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skipping SAM header line:	@SQ	SN:PGA_scaffold71897__1_contigs__length_31037	LN:31037
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skipping SAM header line:	@SQ	SN:PGA_scaffold71942__1_contigs__length_31503	LN:31503
skipping SAM header line:	@SQ	SN:PGA_scaffold71943__1_contigs__length_31970	LN:31970
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skipping SAM header line:	@SQ	SN:PGA_scaffold72055__1_contigs__length_38448	LN:38448
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skipping SAM header line:	@SQ	SN:PGA_scaffold72069__1_contigs__length_33571	LN:33571
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skipping SAM header line:	@SQ	SN:PGA_scaffold72126__1_contigs__length_39352	LN:39352
skipping SAM header line:	@SQ	SN:PGA_scaffold72140__1_contigs__length_32759	LN:32759
skipping SAM header line:	@SQ	SN:PGA_scaffold72146__1_contigs__length_30253	LN:30253
skipping SAM header line:	@SQ	SN:PGA_scaffold72158__1_contigs__length_30030	LN:30030
skipping SAM header line:	@SQ	SN:PGA_scaffold72192__1_contigs__length_36706	LN:36706
skipping SAM header line:	@SQ	SN:PGA_scaffold72203__1_contigs__length_32495	LN:32495
skipping SAM header line:	@SQ	SN:PGA_scaffold72213__1_contigs__length_50541	LN:50541
skipping SAM header line:	@SQ	SN:PGA_scaffold72225__1_contigs__length_34829	LN:34829
skipping SAM header line:	@SQ	SN:PGA_scaffold72252__1_contigs__length_37979	LN:37979
skipping SAM header line:	@SQ	SN:PGA_scaffold72282__1_contigs__length_53999	LN:53999
skipping SAM header line:	@SQ	SN:PGA_scaffold72348__1_contigs__length_34970	LN:34970
skipping SAM header line:	@SQ	SN:PGA_scaffold72363__1_contigs__length_51108	LN:51108
skipping SAM header line:	@SQ	SN:PGA_scaffold72392__1_contigs__length_64631	LN:64631
skipping SAM header line:	@SQ	SN:PGA_scaffold72407__1_contigs__length_43790	LN:43790
skipping SAM header line:	@SQ	SN:PGA_scaffold72408__1_contigs__length_33946	LN:33946
skipping SAM header line:	@SQ	SN:PGA_scaffold72417__1_contigs__length_30564	LN:30564
skipping SAM header line:	@SQ	SN:PGA_scaffold72453__1_contigs__length_31506	LN:31506
skipping SAM header line:	@SQ	SN:PGA_scaffold72480__1_contigs__length_68331	LN:68331
skipping SAM header line:	@SQ	SN:PGA_scaffold72481__1_contigs__length_33703	LN:33703
skipping SAM header line:	@SQ	SN:PGA_scaffold72488__1_contigs__length_34233	LN:34233
skipping SAM header line:	@SQ	SN:PGA_scaffold72564__1_contigs__length_73514	LN:73514
skipping SAM header line:	@SQ	SN:PGA_scaffold72616__1_contigs__length_45338	LN:45338
skipping SAM header line:	@SQ	SN:PGA_scaffold72628__1_contigs__length_62046	LN:62046
skipping SAM header line:	@SQ	SN:PGA_scaffold72633__1_contigs__length_32334	LN:32334
skipping SAM header line:	@SQ	SN:PGA_scaffold72646__1_contigs__length_42408	LN:42408
skipping SAM header line:	@SQ	SN:PGA_scaffold72695__1_contigs__length_45668	LN:45668
skipping SAM header line:	@SQ	SN:PGA_scaffold72750__1_contigs__length_35341	LN:35341
skipping SAM header line:	@SQ	SN:PGA_scaffold72771__1_contigs__length_32509	LN:32509
skipping SAM header line:	@SQ	SN:PGA_scaffold72781__1_contigs__length_40297	LN:40297
skipping SAM header line:	@SQ	SN:PGA_scaffold72853__1_contigs__length_44414	LN:44414
skipping SAM header line:	@SQ	SN:PGA_scaffold72971__1_contigs__length_35934	LN:35934
skipping SAM header line:	@SQ	SN:PGA_scaffold73010__1_contigs__length_40655	LN:40655
skipping SAM header line:	@SQ	SN:PGA_scaffold73051__1_contigs__length_30566	LN:30566
skipping SAM header line:	@SQ	SN:PGA_scaffold73063__1_contigs__length_31134	LN:31134
skipping SAM header line:	@SQ	SN:PGA_scaffold73106__1_contigs__length_43715	LN:43715
skipping SAM header line:	@SQ	SN:PGA_scaffold73248__1_contigs__length_33079	LN:33079
skipping SAM header line:	@SQ	SN:PGA_scaffold73249__1_contigs__length_30228	LN:30228
skipping SAM header line:	@SQ	SN:PGA_scaffold73264__1_contigs__length_37818	LN:37818
skipping SAM header line:	@SQ	SN:PGA_scaffold74017__1_contigs__length_32278	LN:32278
skipping SAM header line:	@SQ	SN:PGA_scaffold74018__1_contigs__length_32278	LN:32278
skipping SAM header line:	@SQ	SN:PGA_scaffold76166__1_contigs__length_39785	LN:39785
skipping SAM header line:	@SQ	SN:PGA_scaffold76167__1_contigs__length_39785	LN:39785
skipping SAM header line:	@SQ	SN:PGA_scaffold76168__1_contigs__length_39717	LN:39717
skipping SAM header line:	@SQ	SN:PGA_scaffold76169__1_contigs__length_39717	LN:39717
skipping SAM header line:	@SQ	SN:PGA_scaffold79402__1_contigs__length_47506	LN:47506
skipping SAM header line:	@SQ	SN:PGA_scaffold79403__1_contigs__length_47506	LN:47506
skipping SAM header line:	@SQ	SN:PGA_scaffold79404__1_contigs__length_47487	LN:47487
skipping SAM header line:	@SQ	SN:PGA_scaffold79405__1_contigs__length_47487	LN:47487
skipping SAM header line:	@SQ	SN:PGA_scaffold81198__1_contigs__length_30077	LN:30077
skipping SAM header line:	@SQ	SN:PGA_scaffold81199__1_contigs__length_30077	LN:30077
skipping SAM header line:	@SQ	SN:PGA_scaffold82842__1_contigs__length_39037	LN:39037
skipping SAM header line:	@SQ	SN:PGA_scaffold82843__1_contigs__length_39038	LN:39038
skipping SAM header line:	@SQ	SN:PGA_scaffold82844__1_contigs__length_39037	LN:39037
skipping SAM header line:	@SQ	SN:PGA_scaffold82845__1_contigs__length_39038	LN:39038
skipping SAM header line:	@SQ	SN:PGA_scaffold82846__1_contigs__length_30206	LN:30206
skipping SAM header line:	@SQ	SN:PGA_scaffold82847__1_contigs__length_30206	LN:30206
skipping SAM header line:	@SQ	SN:PGA_scaffold83718__1_contigs__length_30091	LN:30091
skipping SAM header line:	@SQ	SN:PGA_scaffold83719__1_contigs__length_30091	LN:30091
skipping SAM header line:	@SQ	SN:PGA_scaffold83732__1_contigs__length_30091	LN:30091
skipping SAM header line:	@SQ	SN:PGA_scaffold83733__1_contigs__length_30091	LN:30091
skipping SAM header line:	@SQ	SN:PGA_scaffold84570__1_contigs__length_34138	LN:34138
skipping SAM header line:	@SQ	SN:PGA_scaffold84571__1_contigs__length_34138	LN:34138
skipping SAM header line:	@SQ	SN:PGA_scaffold86623__1_contigs__length_31971	LN:31971
skipping SAM header line:	@SQ	SN:PGA_scaffold86624__1_contigs__length_31971	LN:31971
skipping SAM header line:	@SQ	SN:PGA_scaffold86625__1_contigs__length_31971	LN:31971
skipping SAM header line:	@SQ	SN:PGA_scaffold86626__1_contigs__length_31971	LN:31971
skipping SAM header line:	@SQ	SN:PGA_scaffold86671__1_contigs__length_30077	LN:30077
skipping SAM header line:	@SQ	SN:PGA_scaffold86672__1_contigs__length_30077	LN:30077
skipping SAM header line:	@SQ	SN:PGA_scaffold87729__1_contigs__length_32896	LN:32896
skipping SAM header line:	@SQ	SN:PGA_scaffold87730__1_contigs__length_32896	LN:32896
skipping SAM header line:	@SQ	SN:PGA_scaffold87737__1_contigs__length_32896	LN:32896
skipping SAM header line:	@SQ	SN:PGA_scaffold87738__1_contigs__length_32896	LN:32896
skipping SAM header line:	@SQ	SN:PGA_scaffold87931__1_contigs__length_38482	LN:38482
skipping SAM header line:	@SQ	SN:PGA_scaffold87935__1_contigs__length_38482	LN:38482
skipping SAM header line:	@SQ	SN:PGA_scaffold92389__1_contigs__length_30012	LN:30012
skipping SAM header line:	@SQ	SN:PGA_scaffold92391__1_contigs__length_30012	LN:30012
skipping SAM header line:	@SQ	SN:PGA_scaffold97179__1_contigs__length_37332	LN:37332
skipping SAM header line:	@SQ	SN:PGA_scaffold97181__1_contigs__length_41673	LN:41673
skipping SAM header line:	@SQ	SN:PGA_scaffold97182__1_contigs__length_37332	LN:37332
skipping SAM header line:	@SQ	SN:PGA_scaffold97184__1_contigs__length_41673	LN:41673
skipping SAM header line:	@SQ	SN:PGA_scaffold99123__1_contigs__length_38482	LN:38482
skipping SAM header line:	@SQ	SN:PGA_scaffold99127__1_contigs__length_38482	LN:38482
skipping SAM header line:	@SQ	SN:PGA_scaffold99731__1_contigs__length_75786	LN:75786
skipping SAM header line:	@SQ	SN:PGA_scaffold99732__1_contigs__length_75786	LN:75786
skipping SAM header line:	@SQ	SN:PGA_scaffold99735__1_contigs__length_75899	LN:75899
skipping SAM header line:	@SQ	SN:PGA_scaffold99736__1_contigs__length_75899	LN:75899
skipping SAM header line:	@SQ	SN:PGA_scaffold101565__1_contigs__length_30499	LN:30499
skipping SAM header line:	@SQ	SN:PGA_scaffold101566__1_contigs__length_30495	LN:30495
skipping SAM header line:	@SQ	SN:PGA_scaffold101567__1_contigs__length_30499	LN:30499
skipping SAM header line:	@SQ	SN:PGA_scaffold101568__1_contigs__length_30495	LN:30495
skipping SAM header line:	@SQ	SN:PGA_scaffold106923__1_contigs__length_30932	LN:30932
skipping SAM header line:	@SQ	SN:PGA_scaffold106925__1_contigs__length_30932	LN:30932
skipping SAM header line:	@SQ	SN:PGA_scaffold108272__1_contigs__length_30942	LN:30942
skipping SAM header line:	@SQ	SN:PGA_scaffold108273__1_contigs__length_30942	LN:30942
skipping SAM header line:	@SQ	SN:PGA_scaffold117375__1_contigs__length_30942	LN:30942
skipping SAM header line:	@SQ	SN:PGA_scaffold117376__1_contigs__length_30942	LN:30942
skipping SAM header line:	@SQ	SN:PGA_scaffold119737__1_contigs__length_33110	LN:33110
skipping SAM header line:	@SQ	SN:PGA_scaffold119738__1_contigs__length_33110	LN:33110
skipping SAM header line:	@SQ	SN:PGA_scaffold119739__1_contigs__length_31617	LN:31617
skipping SAM header line:	@SQ	SN:PGA_scaffold119740__1_contigs__length_31617	LN:31617
skipping SAM header line:	@SQ	SN:PGA_scaffold120239__1_contigs__length_36781	LN:36781
skipping SAM header line:	@SQ	SN:PGA_scaffold120240__1_contigs__length_36781	LN:36781
skipping SAM header line:	@SQ	SN:PGA_scaffold120241__1_contigs__length_36781	LN:36781
skipping SAM header line:	@SQ	SN:PGA_scaffold120242__1_contigs__length_36781	LN:36781
skipping SAM header line:	@SQ	SN:PGA_scaffold120243__1_contigs__length_49726	LN:49726
skipping SAM header line:	@SQ	SN:PGA_scaffold120244__1_contigs__length_49726	LN:49726
skipping SAM header line:	@SQ	SN:PGA_scaffold120245__1_contigs__length_49726	LN:49726
skipping SAM header line:	@SQ	SN:PGA_scaffold120246__1_contigs__length_49726	LN:49726
skipping SAM header line:	@SQ	SN:PGA_scaffold154514__1_contigs__length_32931	LN:32931
skipping SAM header line:	@SQ	SN:PGA_scaffold154515__1_contigs__length_33776	LN:33776
skipping SAM header line:	@SQ	SN:PGA_scaffold154516__1_contigs__length_32931	LN:32931
skipping SAM header line:	@SQ	SN:PGA_scaffold154517__1_contigs__length_33776	LN:33776
skipping SAM header line:	@SQ	SN:PGA_scaffold171090__1_contigs__length_40008	LN:40008
skipping SAM header line:	@SQ	SN:PGA_scaffold171093__1_contigs__length_36014	LN:36014
skipping SAM header line:	@SQ	SN:PGA_scaffold171096__1_contigs__length_40008	LN:40008
skipping SAM header line:	@SQ	SN:PGA_scaffold171099__1_contigs__length_36014	LN:36014
skipping SAM header line:	@SQ	SN:PGA_scaffold178416__1_contigs__length_31685	LN:31685
skipping SAM header line:	@SQ	SN:PGA_scaffold178417__1_contigs__length_31685	LN:31685
skipping SAM header line:	@SQ	SN:PGA_scaffold194554__1_contigs__length_31716	LN:31716
skipping SAM header line:	@SQ	SN:PGA_scaffold194555__1_contigs__length_30975	LN:30975
skipping SAM header line:	@SQ	SN:PGA_scaffold194556__1_contigs__length_31716	LN:31716
skipping SAM header line:	@SQ	SN:PGA_scaffold194557__1_contigs__length_30975	LN:30975
skipping SAM header line:	@SQ	SN:PGA_scaffold255542__1_contigs__length_50114	LN:50114
skipping SAM header line:	@SQ	SN:PGA_scaffold255543__1_contigs__length_50117	LN:50117
skipping SAM header line:	@SQ	SN:PGA_scaffold255904__1_contigs__length_46780	LN:46780
skipping SAM header line:	@SQ	SN:PGA_scaffold255905__1_contigs__length_46780	LN:46780
skipping SAM header line:	@SQ	SN:PGA_scaffold256026__1_contigs__length_46675	LN:46675
skipping SAM header line:	@SQ	SN:PGA_scaffold256027__1_contigs__length_46675	LN:46675
skipping SAM header line:	@SQ	SN:PGA_scaffold256724__1_contigs__length_33824	LN:33824
skipping SAM header line:	@SQ	SN:PGA_scaffold256725__1_contigs__length_34249	LN:34249
skipping SAM header line:	@SQ	SN:PGA_scaffold256956__1_contigs__length_49629	LN:49629
skipping SAM header line:	@SQ	SN:PGA_scaffold256957__1_contigs__length_49632	LN:49632
skipping SAM header line:	@SQ	SN:PGA_scaffold259441__1_contigs__length_35838	LN:35838
skipping SAM header line:	@SQ	SN:PGA_scaffold259445__1_contigs__length_35838	LN:35838
skipping SAM header line:	@SQ	SN:PGA_scaffold260227__1_contigs__length_34249	LN:34249
skipping SAM header line:	@SQ	SN:PGA_scaffold260228__1_contigs__length_33824	LN:33824
skipping SAM header line:	@SQ	SN:PGA_scaffold263124__1_contigs__length_40816	LN:40816
skipping SAM header line:	@SQ	SN:PGA_scaffold263125__1_contigs__length_40816	LN:40816
skipping SAM header line:	@SQ	SN:PGA_scaffold263614__1_contigs__length_54943	LN:54943
skipping SAM header line:	@SQ	SN:PGA_scaffold263615__1_contigs__length_54943	LN:54943
skipping SAM header line:	@SQ	SN:PGA_scaffold263616__1_contigs__length_54622	LN:54622
skipping SAM header line:	@SQ	SN:PGA_scaffold263617__1_contigs__length_54622	LN:54622
skipping SAM header line:	@SQ	SN:PGA_scaffold263622__1_contigs__length_39587	LN:39587
skipping SAM header line:	@SQ	SN:PGA_scaffold263623__1_contigs__length_39587	LN:39587
skipping SAM header line:	@SQ	SN:PGA_scaffold263624__1_contigs__length_40134	LN:40134
skipping SAM header line:	@SQ	SN:PGA_scaffold263625__1_contigs__length_40134	LN:40134
skipping SAM header line:	@SQ	SN:PGA_scaffold268914__1_contigs__length_31931	LN:31931
skipping SAM header line:	@SQ	SN:PGA_scaffold268915__1_contigs__length_31931	LN:31931
skipping SAM header line:	@SQ	SN:PGA_scaffold271760__1_contigs__length_33464	LN:33464
skipping SAM header line:	@SQ	SN:PGA_scaffold271761__1_contigs__length_33464	LN:33464
skipping SAM header line:	@SQ	SN:PGA_scaffold272940__1_contigs__length_35972	LN:35972
skipping SAM header line:	@SQ	SN:PGA_scaffold272941__1_contigs__length_35972	LN:35972
skipping SAM header line:	@SQ	SN:PGA_scaffold272956__1_contigs__length_35996	LN:35996
skipping SAM header line:	@SQ	SN:PGA_scaffold272959__1_contigs__length_35996	LN:35996
skipping SAM header line:	@SQ	SN:PGA_scaffold273988__1_contigs__length_31624	LN:31624
skipping SAM header line:	@SQ	SN:PGA_scaffold273989__1_contigs__length_31624	LN:31624
skipping SAM header line:	@SQ	SN:PGA_scaffold277662__1_contigs__length_30051	LN:30051
skipping SAM header line:	@SQ	SN:PGA_scaffold277663__1_contigs__length_30051	LN:30051
skipping SAM header line:	@SQ	SN:PGA_scaffold278160__1_contigs__length_30268	LN:30268
skipping SAM header line:	@SQ	SN:PGA_scaffold278161__1_contigs__length_30273	LN:30273
skipping SAM header line:	@SQ	SN:PGA_scaffold278162__1_contigs__length_30222	LN:30222
skipping SAM header line:	@SQ	SN:PGA_scaffold278163__1_contigs__length_30222	LN:30222
skipping SAM header line:	@SQ	SN:PGA_scaffold278180__1_contigs__length_33717	LN:33717
skipping SAM header line:	@SQ	SN:PGA_scaffold278181__1_contigs__length_33649	LN:33649
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skipping SAM header line:	@SQ	SN:PGA_scaffold279338__1_contigs__length_30392	LN:30392
skipping SAM header line:	@SQ	SN:PGA_scaffold279341__1_contigs__length_30392	LN:30392
skipping SAM header line:	@SQ	SN:PGA_scaffold279343__1_contigs__length_30179	LN:30179
skipping SAM header line:	@SQ	SN:PGA_scaffold279345__1_contigs__length_30179	LN:30179
skipping SAM header line:	@SQ	SN:PGA_scaffold279502__1_contigs__length_48118	LN:48118
skipping SAM header line:	@SQ	SN:PGA_scaffold279503__1_contigs__length_48118	LN:48118
skipping SAM header line:	@SQ	SN:PGA_scaffold279506__1_contigs__length_48108	LN:48108
skipping SAM header line:	@SQ	SN:PGA_scaffold279509__1_contigs__length_48108	LN:48108
skipping SAM header line:	@SQ	SN:PGA_scaffold279842__1_contigs__length_34049	LN:34049
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skipping SAM header line:	@SQ	SN:PGA_scaffold279844__1_contigs__length_34085	LN:34085
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skipping SAM header line:	@SQ	SN:PGA_scaffold287836__1_contigs__length_32587	LN:32587
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skipping SAM header line:	@SQ	SN:PGA_scaffold289680__1_contigs__length_30759	LN:30759
skipping SAM header line:	@SQ	SN:PGA_scaffold289681__1_contigs__length_30809	LN:30809
skipping SAM header line:	@SQ	SN:PGA_scaffold290060__1_contigs__length_49220	LN:49220
skipping SAM header line:	@SQ	SN:PGA_scaffold290061__1_contigs__length_48647	LN:48647
skipping SAM header line:	@SQ	SN:PGA_scaffold290062__1_contigs__length_49220	LN:49220
skipping SAM header line:	@SQ	SN:PGA_scaffold290063__1_contigs__length_48647	LN:48647
skipping SAM header line:	@SQ	SN:PGA_scaffold290128__1_contigs__length_40039	LN:40039
skipping SAM header line:	@SQ	SN:PGA_scaffold290129__1_contigs__length_40036	LN:40036
skipping SAM header line:	@SQ	SN:PGA_scaffold290130__1_contigs__length_40039	LN:40039
skipping SAM header line:	@SQ	SN:PGA_scaffold290131__1_contigs__length_40036	LN:40036
skipping SAM header line:	@SQ	SN:PGA_scaffold290350__1_contigs__length_46122	LN:46122
skipping SAM header line:	@SQ	SN:PGA_scaffold290351__1_contigs__length_46262	LN:46262
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skipping SAM header line:	@SQ	SN:PGA_scaffold292613__1_contigs__length_51603	LN:51603
skipping SAM header line:	@SQ	SN:PGA_scaffold292818__1_contigs__length_41015	LN:41015
skipping SAM header line:	@SQ	SN:PGA_scaffold292819__1_contigs__length_41015	LN:41015
skipping SAM header line:	@SQ	SN:PGA_scaffold293874__1_contigs__length_43357	LN:43357
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skipping SAM header line:	@SQ	SN:PGA_scaffold293876__1_contigs__length_43357	LN:43357
skipping SAM header line:	@SQ	SN:PGA_scaffold293877__1_contigs__length_43356	LN:43356
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skipping SAM header line:	@SQ	SN:PGA_scaffold294326__1_contigs__length_47768	LN:47768
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Merging individual splitting reports into overall report: '/gscratch/srlab/strigg/analyses/20190214_30K/EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated_splitting_report.txt'
Merging from these individual files:

Processed 11806794 lines in total
Total number of methylation call strings processed: 23613588

Final Cytosine Methylation Report
=================================
Total number of C's analysed:	275846395

Total methylated C's in CpG context:	9522649
Total methylated C's in CHG context:	1364555
Total methylated C's in CHH context:	3110238

Total C to T conversions in CpG context:	28107159
Total C to T conversions in CHG context:	55763455
Total C to T conversions in CHH context:	177978339

C methylated in CpG context:	25.3%
C methylated in CHG context:	2.4%
C methylated in CHH context:	1.7%



Merging individual M-bias reports into overall M-bias statistics from these 28 individual files:
Determining maximum read lengths for M-Bias plots
Maximum read length of Read 1: 101
Maximum read length of Read 2: 99

Perl module GD::Graph::lines is not installed, skipping drawing M-bias plots (only writing out M-bias plot table)
Determining maximum read lengths for M-Bias plots
Maximum read length of Read 1: 101
Maximum read length of Read 2: 99

Perl module GD::Graph::lines is not installed, skipping drawing M-bias plots (only writing out M-bias plot table)
Deleting unused files ...

/gscratch/srlab/strigg/analyses/20190214_30K/CpG_OT_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt contains data ->	kept
/gscratch/srlab/strigg/analyses/20190214_30K/CpG_CTOT_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt was empty ->	deleted
/gscratch/srlab/strigg/analyses/20190214_30K/CpG_CTOB_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt was empty ->	deleted
/gscratch/srlab/strigg/analyses/20190214_30K/CpG_OB_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt contains data ->	kept
/gscratch/srlab/strigg/analyses/20190214_30K/CHG_OT_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt contains data ->	kept
/gscratch/srlab/strigg/analyses/20190214_30K/CHG_CTOT_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt was empty ->	deleted
/gscratch/srlab/strigg/analyses/20190214_30K/CHG_CTOB_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt was empty ->	deleted
/gscratch/srlab/strigg/analyses/20190214_30K/CHG_OB_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt contains data ->	kept
/gscratch/srlab/strigg/analyses/20190214_30K/CHH_OT_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt contains data ->	kept
/gscratch/srlab/strigg/analyses/20190214_30K/CHH_CTOT_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt was empty ->	deleted
/gscratch/srlab/strigg/analyses/20190214_30K/CHH_CTOB_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt was empty ->	deleted
/gscratch/srlab/strigg/analyses/20190214_30K/CHH_OB_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt contains data ->	kept


Using these input files: /gscratch/srlab/strigg/analyses/20190214_30K/CpG_OT_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt /gscratch/srlab/strigg/analyses/20190214_30K/CpG_OB_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt /gscratch/srlab/strigg/analyses/20190214_30K/CHG_OT_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt /gscratch/srlab/strigg/analyses/20190214_30K/CHG_OB_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt /gscratch/srlab/strigg/analyses/20190214_30K/CHH_OT_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt /gscratch/srlab/strigg/analyses/20190214_30K/CHH_OB_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt

Summary of parameters for bismark2bedGraph conversion:
======================================================
bedGraph output:		EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bedGraph.gz
output directory:		>/gscratch/srlab/strigg/analyses/20190214_30K/<
remove whitespaces:		no
CX context:			no (CpG context only, default)
No-header selected:		no
Sorting method:			Unix sort-based (smaller memory footprint, but slower)
Sort buffer size:		2G
Coverage threshold:		1
=============================================================================
Methylation information will now be written into a bedGraph and coverage file
=============================================================================

Using the following files as Input:
Writing bedGraph to file: EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bedGraph.gz
Also writing out a coverage file including counts methylated and unmethylated residues to file: EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bismark.cov.gz

Changed directory to /gscratch/srlab/strigg/analyses/20190214_30K/
The genome of interest was specified to contain gazillions of chromosomes or scaffolds. Merging all input files and sorting everything in memory instead of writing out individual chromosome files...
Writing all merged methylation calls to temp file EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bedGraph.gz.methylation_calls.merged

Finished writing methylation calls from CpG_OT_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt to merged temp file
Finished writing methylation calls from CpG_OB_EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.txt to merged temp file
Sorting input file EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bedGraph.gz.methylation_calls.merged by positions (using -S of 2G)
Successfully deleted the temporary input file EPI-120_S32_L005_R1_001_val_1_bismark_bt2_pe.deduplicated.bedGraph.gz.methylation_calls.merged

Finished BedGraph conversion ...