Contents of pair:
EF03-EM03-Zygote_R1_001.fastp-trim.REPAIRED.fq.gz EF03-EM03-Zygote_R2_001.fastp-trim.REPAIRED.fq.gz

Contents of sample_name: EF03-EM03-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:	5380486
Mapping efficiency:	16.1%

Sequence pairs with no alignments under any condition:	25890348
Sequence pairs did not map uniquely:	2063498
Sequence pairs which were discarded because genomic sequence could not be extracted:	4

Number of sequence pairs with unique best (first) alignment came from the bowtie output:
CT/GA/CT:	1512195	((converted) top strand)
GA/CT/CT:	1172080	(complementary to (converted) top strand)
GA/CT/GA:	1175454	(complementary to (converted) bottom strand)
CT/GA/GA:	1520753	((converted) bottom strand)

Number of paired-end alignments with a unique best hit:	5384712
Mapping efficiency:	16.2%

Sequence pairs with no alignments under any condition:	25886671
Sequence pairs did not map uniquely:	2062949
Sequence pairs which were discarded because genomic sequence could not be extracted:	7

Number of sequence pairs with unique best (first) alignment came from the bowtie output:
CT/GA/CT:	1513410	((converted) top strand)
GA/CT/CT:	1173542	(complementary to (converted) top strand)
GA/CT/GA:	1175134	(complementary to (converted) bottom strand)
CT/GA/GA:	1522619	((converted) bottom strand)

Number of paired-end alignments with a unique best hit:	5380962
Mapping efficiency:	16.1%

Sequence pairs with no alignments under any condition:	25889934
Sequence pairs did not map uniquely:	2063435
Sequence pairs which were discarded because genomic sequence could not be extracted:	4

Number of sequence pairs with unique best (first) alignment came from the bowtie output:
CT/GA/CT:	1512911	((converted) top strand)
GA/CT/CT:	1170618	(complementary to (converted) top strand)
GA/CT/GA:	1176395	(complementary to (converted) bottom strand)
CT/GA/GA:	1521034	((converted) bottom strand)

Number of paired-end alignments with a unique best hit:	5378473
Mapping efficiency:	16.1%

Sequence pairs with no alignments under any condition:	25888714
Sequence pairs did not map uniquely:	2067145
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:	1511038	((converted) top strand)
GA/CT/CT:	1171240	(complementary to (converted) top strand)
GA/CT/GA:	1176329	(complementary to (converted) bottom strand)
CT/GA/GA:	1519860	((converted) bottom strand)

All child process successfully finished.EF03-EM03-Zygote_R1_001.fastp-trim.REPAIRED.fq.gz.temp.1.gz	EF03-EM03-Zygote_R2_001.fastp-trim.REPAIRED.fq.gz.temp.1.gz	EF03-EM03-Zygote_R1_001.fastp-trim.REPAIRED.fq.gz.temp.2.gz	EF03-EM03-Zygote_R2_001.fastp-trim.REPAIRED.fq.gz.temp.2.gz	EF03-EM03-Zygote_R1_001.fastp-trim.REPAIRED.fq.gz.temp.3.gz	EF03-EM03-Zygote_R2_001.fastp-trim.REPAIRED.fq.gz.temp.3.gz	EF03-EM03-Zygote_R1_001.fastp-trim.REPAIRED.fq.gz.temp.4.gz	EF03-EM03-Zygote_R2_001.fastp-trim.REPAIRED.fq.gz.temp.4.gz	

/gscratch/srlab/kdurkin1/kathleen-coral/project/output/02.01-bismark-bowtie2-alignment-SLURM-array/EF03-EM03-Zygote_R1_001.fastp-trim.REPAIRED.fq.gz.temp.1.gz_bismark_bt2_pe.bam	/gscratch/srlab/kdurkin1/kathleen-coral/project/output/02.01-bismark-bowtie2-alignment-SLURM-array/EF03-EM03-Zygote_R1_001.fastp-trim.REPAIRED.fq.gz.temp.2.gz_bismark_bt2_pe.bam	/gscratch/srlab/kdurkin1/kathleen-coral/project/output/02.01-bismark-bowtie2-alignment-SLURM-array/EF03-EM03-Zygote_R1_001.fastp-trim.REPAIRED.fq.gz.temp.3.gz_bismark_bt2_pe.bam	/gscratch/srlab/kdurkin1/kathleen-coral/project/output/02.01-bismark-bowtie2-alignment-SLURM-array/EF03-EM03-Zygote_R1_001.fastp-trim.REPAIRED.fq.gz.temp.4.gz_bismark_bt2_pe.bam	

Number of paired-end alignments with a unique best hit:	21524633
Mapping efficiency:	16.1%

Sequence pairs with no alignments under any condition:	103555667
Sequence pairs did not map uniquely:	8257027
Sequence pairs which were discarded because genomic sequence could not be extracted:	21

Number of sequence pairs with unique best (first) alignment came from the bowtie output:
CT/GA/CT:	6049554	((converted) top strand)
GA/CT/CT:	4687480	(complementary to (converted) top strand)
GA/CT/GA:	4703312	(complementary to (converted) bottom strand)
CT/GA/GA:	6084266	((converted) bottom strand)

EF03-EM03-Zygote_R1_001.fastp-trim.REPAIRED.fq.gz.temp.1.gz_bismark_bt2_PE_report.txt	EF03-EM03-Zygote_R1_001.fastp-trim.REPAIRED.fq.gz.temp.2.gz_bismark_bt2_PE_report.txt	EF03-EM03-Zygote_R1_001.fastp-trim.REPAIRED.fq.gz.temp.3.gz_bismark_bt2_PE_report.txt	EF03-EM03-Zygote_R1_001.fastp-trim.REPAIRED.fq.gz.temp.4.gz_bismark_bt2_PE_report.txt