Bismark

Bismark Processing Report

/sibcb2/bioinformatics/JupyterLab/cromwell-executions/bismarkBS/75430e07-ec0f-445c-bca2-822bd3fe1686/call-trim_galore/execution/trimmed/SRX1869508_R1_val_1.fq.gz and /sibcb2/bioinformatics/JupyterLab/cromwell-executions/bismarkBS/75430e07-ec0f-445c-bca2-822bd3fe1686/call-trim_galore/execution/trimmed/SRX1869508_R2_val_2.fq.gz

Data processed at 12:48 on 2020-09-11

Alignment Stats

Sequence pairs analysed in total 924661
Paired-end alignments with a unique best hit 659797
Pairs without alignments under any condition 93156
Pairs that did not map uniquely 171708
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 29999880
Methylated C's in CpG context 2132812
Methylated C's in CHG context 8965
Methylated C's in CHH context 13443
Methylated C's in Unknown context 100
Unmethylated C's in CpG context 3364846
Unmethylated C's in CHG context 7706427
Unmethylated C's in CHH context 16773387
Unmethylated C's in Unknown context 3239
Percentage methylation (CpG context) 38.8%
Percentage methylation (CHG context) 0.1%
Percentage methylation (CHH context) 0.1%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 328253 original top strand
CTOT 0 complementary to original top strand
CTOB 0 complementary to original bottom strand
OB 331544 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 19445457
Methylated C's in CpG context 1504387
Methylated C's in CHG context 6815
Methylated C's in CHH context 9243
Unmethylated C's in CpG context 2142584
Unmethylated C's in CHG context 4870295
Unmethylated C's in CHH context 10912133
Percentage methylation (CpG context) 41.3%
Percentage methylation (CHG context) 0.1%
Percentage methylation (CHH context) 0.1%

M-Bias Plot