Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cg-big/zrtg3644_23_R1.fq.gz and /gscratch/srlab/sr320/data/cg-big/zrtg3644_23_R2.fq.gz

Data processed at 23:10:14 on 2021-06-09


Alignment Stats

Sequence pairs analysed in total 100000
Paired-end alignments with a unique best hit 61099
Pairs without alignments under any condition 21844
Pairs that did not map uniquely 17057
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 2149766
Methylated C's in CpG context 28319
Methylated C's in CHG context 1908
Methylated C's in CHH context 7403
Methylated C's in Unknown context 43
Unmethylated C's in CpG context 252710
Unmethylated C's in CHG context 375553
Unmethylated C's in CHH context 1483873
Unmethylated C's in Unknown context 5247
Percentage methylation (CpG context) 10.1%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.5%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 15266 original top strand
CTOT 15111 complementary to original top strand
CTOB 15014 complementary to original bottom strand
OB 15708 original bottom strand

Deduplication

Alignments analysed 61099
Unique alignments 57018
Duplicates removed 4081
Duplicated alignments were found at 3824 different positions

Cytosine Methylation after Extraction

Total C's analysed 1359016
Methylated C's in CpG context 17577
Methylated C's in CHG context 1190
Methylated C's in CHH context 4695
Unmethylated C's in CpG context 158275
Unmethylated C's in CHG context 234950
Unmethylated C's in CHH context 942329
Percentage methylation (CpG context) 10.0%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.5%

M-Bias Plot