Contents of pair:
EF02-EM02-Zygote_R1_001.fastp-trim.fq.gz EF02-EM02-Zygote_R2_001.fastp-trim.fq.gz

Contents of sample_name: EF02-EM02-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:	8062311
Mapping efficiency:	22.6%

Sequence pairs with no alignments under any condition:	23960425
Sequence pairs did not map uniquely:	3682901
Sequence pairs which were discarded because genomic sequence could not be extracted:	13

Number of sequence pairs with unique best (first) alignment came from the bowtie output:
CT/GA/CT:	2287265	((converted) top strand)
GA/CT/CT:	1762989	(complementary to (converted) top strand)
GA/CT/GA:	1745416	(complementary to (converted) bottom strand)
CT/GA/GA:	2266628	((converted) bottom strand)

Number of paired-end alignments with a unique best hit:	8065235
Mapping efficiency:	22.6%

Sequence pairs with no alignments under any condition:	23959005
Sequence pairs did not map uniquely:	3681397
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:	2289494	((converted) top strand)
GA/CT/CT:	1762672	(complementary to (converted) top strand)
GA/CT/GA:	1743146	(complementary to (converted) bottom strand)
CT/GA/GA:	2269913	((converted) bottom strand)

Number of paired-end alignments with a unique best hit:	8064054
Mapping efficiency:	22.6%

Sequence pairs with no alignments under any condition:	23961312
Sequence pairs did not map uniquely:	3680270
Sequence pairs which were discarded because genomic sequence could not be extracted:	16

Number of sequence pairs with unique best (first) alignment came from the bowtie output:
CT/GA/CT:	2288719	((converted) top strand)
GA/CT/CT:	1762367	(complementary to (converted) top strand)
GA/CT/GA:	1743816	(complementary to (converted) bottom strand)
CT/GA/GA:	2269136	((converted) bottom strand)

Number of paired-end alignments with a unique best hit:	8064797
Mapping efficiency:	22.6%

Sequence pairs with no alignments under any condition:	23960790
Sequence pairs did not map uniquely:	3680049
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:	2287961	((converted) top strand)
GA/CT/CT:	1762944	(complementary to (converted) top strand)
GA/CT/GA:	1744973	(complementary to (converted) bottom strand)
CT/GA/GA:	2268909	((converted) bottom strand)

All child process successfully finished.EF02-EM02-Zygote_R1_001.fastp-trim.fq.gz.temp.1.gz	EF02-EM02-Zygote_R2_001.fastp-trim.fq.gz.temp.1.gz	EF02-EM02-Zygote_R1_001.fastp-trim.fq.gz.temp.2.gz	EF02-EM02-Zygote_R2_001.fastp-trim.fq.gz.temp.2.gz	EF02-EM02-Zygote_R1_001.fastp-trim.fq.gz.temp.3.gz	EF02-EM02-Zygote_R2_001.fastp-trim.fq.gz.temp.3.gz	EF02-EM02-Zygote_R1_001.fastp-trim.fq.gz.temp.4.gz	EF02-EM02-Zygote_R2_001.fastp-trim.fq.gz.temp.4.gz	

/gscratch/srlab/kdurkin1/kathleen-coral/project/output/02.01-bismark-bowtie2-alignment-SLURM-array/EF02-EM02-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/EF02-EM02-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/EF02-EM02-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/EF02-EM02-Zygote_R1_001.fastp-trim.fq.gz.temp.4.gz_bismark_bt2_pe.bam	

Number of paired-end alignments with a unique best hit:	32256397
Mapping efficiency:	22.6%

Sequence pairs with no alignments under any condition:	95841532
Sequence pairs did not map uniquely:	14724617
Sequence pairs which were discarded because genomic sequence could not be extracted:	49

Number of sequence pairs with unique best (first) alignment came from the bowtie output:
CT/GA/CT:	9153439	((converted) top strand)
GA/CT/CT:	7050972	(complementary to (converted) top strand)
GA/CT/GA:	6977351	(complementary to (converted) bottom strand)
CT/GA/GA:	9074586	((converted) bottom strand)

EF02-EM02-Zygote_R1_001.fastp-trim.fq.gz.temp.1.gz_bismark_bt2_PE_report.txt	EF02-EM02-Zygote_R1_001.fastp-trim.fq.gz.temp.2.gz_bismark_bt2_PE_report.txt	EF02-EM02-Zygote_R1_001.fastp-trim.fq.gz.temp.3.gz_bismark_bt2_PE_report.txt	EF02-EM02-Zygote_R1_001.fastp-trim.fq.gz.temp.4.gz_bismark_bt2_PE_report.txt