Contents of pair:
EF07-EM01-Zygote_R1_001.fastp-trim.fq.gz EF07-EM01-Zygote_R2_001.fastp-trim.fq.gz

Contents of sample_name: EF07-EM01-Zygote

chr NC_035780.1 (65668440 bp)
chr NC_035781.1 (61752955 bp)
chr NC_035782.1 (77061148 bp)
chr NC_035783.1 (59691872 bp)
chr NC_035784.1 (98698416 bp)
chr NC_035785.1 (51258098 bp)
chr NC_035786.1 (57830854 bp)
chr NC_035787.1 (75944018 bp)
chr NC_035788.1 (104168038 bp)
chr NC_035789.1 (32650045 bp)
chr NC_007175.2 (17244 bp)

Number of paired-end alignments with a unique best hit:	5894094
Mapping efficiency:	10.0%

Sequence pairs with no alignments under any condition:	50739044
Sequence pairs did not map uniquely:	2502393
Sequence pairs which were discarded because genomic sequence could not be extracted:	14

Number of sequence pairs with unique best (first) alignment came from the bowtie output:
CT/GA/CT:	1742768	((converted) top strand)
GA/CT/CT:	1212208	(complementary to (converted) top strand)
GA/CT/GA:	1206966	(complementary to (converted) bottom strand)
CT/GA/GA:	1732138	((converted) bottom strand)

Number of paired-end alignments with a unique best hit:	5893842
Mapping efficiency:	10.0%

Sequence pairs with no alignments under any condition:	50739985
Sequence pairs did not map uniquely:	2501704
Sequence pairs which were discarded because genomic sequence could not be extracted:	9

Number of sequence pairs with unique best (first) alignment came from the bowtie output:
CT/GA/CT:	1740949	((converted) top strand)
GA/CT/CT:	1213073	(complementary to (converted) top strand)
GA/CT/GA:	1206937	(complementary to (converted) bottom strand)
CT/GA/GA:	1732874	((converted) bottom strand)

Number of paired-end alignments with a unique best hit:	5895750
Mapping efficiency:	10.0%

Sequence pairs with no alignments under any condition:	50734892
Sequence pairs did not map uniquely:	2504890
Sequence pairs which were discarded because genomic sequence could not be extracted:	15

Number of sequence pairs with unique best (first) alignment came from the bowtie output:
CT/GA/CT:	1743384	((converted) top strand)
GA/CT/CT:	1214212	(complementary to (converted) top strand)
GA/CT/GA:	1205637	(complementary to (converted) bottom strand)
CT/GA/GA:	1732502	((converted) bottom strand)

Number of paired-end alignments with a unique best hit:	5896073
Mapping efficiency:	10.0%

Sequence pairs with no alignments under any condition:	50735540
Sequence pairs did not map uniquely:	2503919
Sequence pairs which were discarded because genomic sequence could not be extracted:	15

Number of sequence pairs with unique best (first) alignment came from the bowtie output:
CT/GA/CT:	1742989	((converted) top strand)
GA/CT/CT:	1212702	(complementary to (converted) top strand)
GA/CT/GA:	1208365	(complementary to (converted) bottom strand)
CT/GA/GA:	1732002	((converted) bottom strand)

All child process successfully finished.EF07-EM01-Zygote_R1_001.fastp-trim.fq.gz.temp.1.gz	EF07-EM01-Zygote_R2_001.fastp-trim.fq.gz.temp.1.gz	EF07-EM01-Zygote_R1_001.fastp-trim.fq.gz.temp.2.gz	EF07-EM01-Zygote_R2_001.fastp-trim.fq.gz.temp.2.gz	EF07-EM01-Zygote_R1_001.fastp-trim.fq.gz.temp.3.gz	EF07-EM01-Zygote_R2_001.fastp-trim.fq.gz.temp.3.gz	EF07-EM01-Zygote_R1_001.fastp-trim.fq.gz.temp.4.gz	EF07-EM01-Zygote_R2_001.fastp-trim.fq.gz.temp.4.gz	

/gscratch/srlab/kdurkin1/kathleen-coral/project/output/02.01-bismark-bowtie2-alignment-SLURM-array/EF07-EM01-Zygote_R1_001.fastp-trim.fq.gz.temp.1.gz_bismark_bt2_pe.bam	/gscratch/srlab/kdurkin1/kathleen-coral/project/output/02.01-bismark-bowtie2-alignment-SLURM-array/EF07-EM01-Zygote_R1_001.fastp-trim.fq.gz.temp.2.gz_bismark_bt2_pe.bam	/gscratch/srlab/kdurkin1/kathleen-coral/project/output/02.01-bismark-bowtie2-alignment-SLURM-array/EF07-EM01-Zygote_R1_001.fastp-trim.fq.gz.temp.3.gz_bismark_bt2_pe.bam	/gscratch/srlab/kdurkin1/kathleen-coral/project/output/02.01-bismark-bowtie2-alignment-SLURM-array/EF07-EM01-Zygote_R1_001.fastp-trim.fq.gz.temp.4.gz_bismark_bt2_pe.bam	

Number of paired-end alignments with a unique best hit:	23579759
Mapping efficiency:	10.0%

Sequence pairs with no alignments under any condition:	202949461
Sequence pairs did not map uniquely:	10012906
Sequence pairs which were discarded because genomic sequence could not be extracted:	53

Number of sequence pairs with unique best (first) alignment came from the bowtie output:
CT/GA/CT:	6970090	((converted) top strand)
GA/CT/CT:	4852195	(complementary to (converted) top strand)
GA/CT/GA:	4827905	(complementary to (converted) bottom strand)
CT/GA/GA:	6929516	((converted) bottom strand)

EF07-EM01-Zygote_R1_001.fastp-trim.fq.gz.temp.1.gz_bismark_bt2_PE_report.txt	EF07-EM01-Zygote_R1_001.fastp-trim.fq.gz.temp.2.gz_bismark_bt2_PE_report.txt	EF07-EM01-Zygote_R1_001.fastp-trim.fq.gz.temp.3.gz_bismark_bt2_PE_report.txt	EF07-EM01-Zygote_R1_001.fastp-trim.fq.gz.temp.4.gz_bismark_bt2_PE_report.txt