Bismark

Bismark Processing Report

/gscratch/scrubbed/yaaminiv/Manchester/analyses/trimgalore-2/poly-G/zr3616_6_R1_val_1_val_1_val_1.fq.gz and /gscratch/scrubbed/yaaminiv/Manchester/analyses/trimgalore-2/poly-G/zr3616_6_R2_val_2_val_2_val_2.fq.gz

Data processed at 02:09:07 on 2021-03-22


Alignment Stats

Sequence pairs analysed in total 191560039
Paired-end alignments with a unique best hit 117720000
Pairs without alignments under any condition 35348777
Pairs that did not map uniquely 38491262
Genomic sequence context not extractable (edges of chromosomes) 395

Cytosine Methylation

Total C's analysed 3775636196
Methylated C's in CpG context 55725063
Methylated C's in CHG context 3515562
Methylated C's in CHH context 14731836
Methylated C's in Unknown context 156635
Unmethylated C's in CpG context 459604112
Unmethylated C's in CHG context 681604014
Unmethylated C's in CHH context 2560455609
Unmethylated C's in Unknown context 8711916
Percentage methylation (CpG context) 10.8%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.6%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 29538900 original top strand
CTOT 29329081 complementary to original top strand
CTOB 29318937 complementary to original bottom strand
OB 29532687 original bottom strand

Deduplication

Alignments analysed 117719605
Unique alignments 86593544
Duplicates removed 31126061
Duplicated alignments were found at 22657982 different positions

Cytosine Methylation after Extraction

Total C's analysed 1606395418
Methylated C's in CpG context 23293580
Methylated C's in CHG context 1487557
Methylated C's in CHH context 6426616
Unmethylated C's in CpG context 191271219
Unmethylated C's in CHG context 286752999
Unmethylated C's in CHH context 1097163447
Percentage methylation (CpG context) 10.9%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.6%

M-Bias Plot