Contents of pair:
EF06-EM02-Larvae_R1_001.fastp-trim.fq.gz EF06-EM02-Larvae_R2_001.fastp-trim.fq.gz

Contents of sample_name: EF06-EM02-Larvae

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:	10138611
Mapping efficiency:	35.2%

Sequence pairs with no alignments under any condition:	15012428
Sequence pairs did not map uniquely:	3674708
Sequence pairs which were discarded because genomic sequence could not be extracted:	6

Number of sequence pairs with unique best (first) alignment came from the bowtie output:
CT/GA/CT:	2474157	((converted) top strand)
GA/CT/CT:	2593080	(complementary to (converted) top strand)
GA/CT/GA:	2596368	(complementary to (converted) bottom strand)
CT/GA/GA:	2475000	((converted) bottom strand)

Number of paired-end alignments with a unique best hit:	10133639
Mapping efficiency:	35.2%

Sequence pairs with no alignments under any condition:	15015696
Sequence pairs did not map uniquely:	3676412
Sequence pairs which were discarded because genomic sequence could not be extracted:	10

Number of sequence pairs with unique best (first) alignment came from the bowtie output:
CT/GA/CT:	2468848	((converted) top strand)
GA/CT/CT:	2589916	(complementary to (converted) top strand)
GA/CT/GA:	2597583	(complementary to (converted) bottom strand)
CT/GA/GA:	2477282	((converted) bottom strand)

Number of paired-end alignments with a unique best hit:	10130914
Mapping efficiency:	35.1%

Sequence pairs with no alignments under any condition:	15017379
Sequence pairs did not map uniquely:	3677454
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:	2473169	((converted) top strand)
GA/CT/CT:	2587375	(complementary to (converted) top strand)
GA/CT/GA:	2595080	(complementary to (converted) bottom strand)
CT/GA/GA:	2475281	((converted) bottom strand)

Number of paired-end alignments with a unique best hit:	10135044
Mapping efficiency:	35.2%

Sequence pairs with no alignments under any condition:	15016388
Sequence pairs did not map uniquely:	3674316
Sequence pairs which were discarded because genomic sequence could not be extracted:	6

Number of sequence pairs with unique best (first) alignment came from the bowtie output:
CT/GA/CT:	2472731	((converted) top strand)
GA/CT/CT:	2587706	(complementary to (converted) top strand)
GA/CT/GA:	2597574	(complementary to (converted) bottom strand)
CT/GA/GA:	2477027	((converted) bottom strand)

All child process successfully finished.EF06-EM02-Larvae_R1_001.fastp-trim.fq.gz.temp.1.gz	EF06-EM02-Larvae_R2_001.fastp-trim.fq.gz.temp.1.gz	EF06-EM02-Larvae_R1_001.fastp-trim.fq.gz.temp.2.gz	EF06-EM02-Larvae_R2_001.fastp-trim.fq.gz.temp.2.gz	EF06-EM02-Larvae_R1_001.fastp-trim.fq.gz.temp.3.gz	EF06-EM02-Larvae_R2_001.fastp-trim.fq.gz.temp.3.gz	EF06-EM02-Larvae_R1_001.fastp-trim.fq.gz.temp.4.gz	EF06-EM02-Larvae_R2_001.fastp-trim.fq.gz.temp.4.gz	

/gscratch/srlab/kdurkin1/kathleen-coral/project/output/02.01-bismark-bowtie2-alignment-SLURM-array/EF06-EM02-Larvae_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/EF06-EM02-Larvae_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/EF06-EM02-Larvae_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/EF06-EM02-Larvae_R1_001.fastp-trim.fq.gz.temp.4.gz_bismark_bt2_pe.bam	

Number of paired-end alignments with a unique best hit:	40538208
Mapping efficiency:	35.2%

Sequence pairs with no alignments under any condition:	60061891
Sequence pairs did not map uniquely:	14702890
Sequence pairs which were discarded because genomic sequence could not be extracted:	31

Number of sequence pairs with unique best (first) alignment came from the bowtie output:
CT/GA/CT:	9888905	((converted) top strand)
GA/CT/CT:	10358077	(complementary to (converted) top strand)
GA/CT/GA:	10386605	(complementary to (converted) bottom strand)
CT/GA/GA:	9904590	((converted) bottom strand)

EF06-EM02-Larvae_R1_001.fastp-trim.fq.gz.temp.1.gz_bismark_bt2_PE_report.txt	EF06-EM02-Larvae_R1_001.fastp-trim.fq.gz.temp.2.gz_bismark_bt2_PE_report.txt	EF06-EM02-Larvae_R1_001.fastp-trim.fq.gz.temp.3.gz_bismark_bt2_PE_report.txt	EF06-EM02-Larvae_R1_001.fastp-trim.fq.gz.temp.4.gz_bismark_bt2_PE_report.txt