Contents of pair:
EF04-EM04-Zygote_R1_001.fastp-trim.fq.gz EF04-EM04-Zygote_R2_001.fastp-trim.fq.gz

Contents of sample_name: EF04-EM04-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:	3275382
Mapping efficiency:	8.4%

Sequence pairs with no alignments under any condition:	34287779
Sequence pairs did not map uniquely:	1449765
Sequence pairs which were discarded because genomic sequence could not be extracted:	11

Number of sequence pairs with unique best (first) alignment came from the bowtie output:
CT/GA/CT:	806669	((converted) top strand)
GA/CT/CT:	823196	(complementary to (converted) top strand)
GA/CT/GA:	831555	(complementary to (converted) bottom strand)
CT/GA/GA:	813951	((converted) bottom strand)

Number of paired-end alignments with a unique best hit:	3278303
Mapping efficiency:	8.4%

Sequence pairs with no alignments under any condition:	34286665
Sequence pairs did not map uniquely:	1447958
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:	807768	((converted) top strand)
GA/CT/CT:	823390	(complementary to (converted) top strand)
GA/CT/GA:	832609	(complementary to (converted) bottom strand)
CT/GA/GA:	814526	((converted) bottom strand)

Number of paired-end alignments with a unique best hit:	3274748
Mapping efficiency:	8.4%

Sequence pairs with no alignments under any condition:	34289143
Sequence pairs did not map uniquely:	1449035
Sequence pairs which were discarded because genomic sequence could not be extracted:	11

Number of sequence pairs with unique best (first) alignment came from the bowtie output:
CT/GA/CT:	806175	((converted) top strand)
GA/CT/CT:	824307	(complementary to (converted) top strand)
GA/CT/GA:	831298	(complementary to (converted) bottom strand)
CT/GA/GA:	812957	((converted) bottom strand)

Number of paired-end alignments with a unique best hit:	3273413
Mapping efficiency:	8.4%

Sequence pairs with no alignments under any condition:	34289267
Sequence pairs did not map uniquely:	1450247
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:	806487	((converted) top strand)
GA/CT/CT:	822305	(complementary to (converted) top strand)
GA/CT/GA:	831605	(complementary to (converted) bottom strand)
CT/GA/GA:	813009	((converted) bottom strand)

All child process successfully finished.EF04-EM04-Zygote_R1_001.fastp-trim.fq.gz.temp.1.gz	EF04-EM04-Zygote_R2_001.fastp-trim.fq.gz.temp.1.gz	EF04-EM04-Zygote_R1_001.fastp-trim.fq.gz.temp.2.gz	EF04-EM04-Zygote_R2_001.fastp-trim.fq.gz.temp.2.gz	EF04-EM04-Zygote_R1_001.fastp-trim.fq.gz.temp.3.gz	EF04-EM04-Zygote_R2_001.fastp-trim.fq.gz.temp.3.gz	EF04-EM04-Zygote_R1_001.fastp-trim.fq.gz.temp.4.gz	EF04-EM04-Zygote_R2_001.fastp-trim.fq.gz.temp.4.gz	

/gscratch/srlab/kdurkin1/kathleen-coral/project/output/02.01-bismark-bowtie2-alignment-SLURM-array/EF04-EM04-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/EF04-EM04-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/EF04-EM04-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/EF04-EM04-Zygote_R1_001.fastp-trim.fq.gz.temp.4.gz_bismark_bt2_pe.bam	

Number of paired-end alignments with a unique best hit:	13101846
Mapping efficiency:	8.4%

Sequence pairs with no alignments under any condition:	137152854
Sequence pairs did not map uniquely:	5797005
Sequence pairs which were discarded because genomic sequence could not be extracted:	39

Number of sequence pairs with unique best (first) alignment came from the bowtie output:
CT/GA/CT:	3227099	((converted) top strand)
GA/CT/CT:	3293198	(complementary to (converted) top strand)
GA/CT/GA:	3327067	(complementary to (converted) bottom strand)
CT/GA/GA:	3254443	((converted) bottom strand)

EF04-EM04-Zygote_R1_001.fastp-trim.fq.gz.temp.1.gz_bismark_bt2_PE_report.txt	EF04-EM04-Zygote_R1_001.fastp-trim.fq.gz.temp.2.gz_bismark_bt2_PE_report.txt	EF04-EM04-Zygote_R1_001.fastp-trim.fq.gz.temp.3.gz_bismark_bt2_PE_report.txt	EF04-EM04-Zygote_R1_001.fastp-trim.fq.gz.temp.4.gz_bismark_bt2_PE_report.txt