Bismark

Bismark Processing Report

MethylC-Seq_mm_fc_2wk_SRR921696_1_trimmed.fq.gz

Data processed at 09:00 on 2015-11-11


Alignment

Sequences analysed in total 116247060
Single-end alignments with a unique best hit 89616441
Sequences without alignments under any condition 9698581
Sequences that did not map uniquely 16932038
Genomic sequence context not extractable (edges of chromosomes) 6

Cytosine Methylation

Total C's analysed 1442198467
Methylated C's in CpG context 60606273
Methylated C's in CHG context 3485852
Methylated C's in CHH context 11271838
Methylated C's in Unknown context 12
Unmethylated C's in CpG context 18830815
Unmethylated C's in CHG context 367405979
Unmethylated C's in CHH context 980597710
Unmethylated C's in Unknown context 243
Percentage methylation (CpG context) 76.3%
Percentage methylation (CHG context) 0.9%
Percentage methylation (CHH context) 1.1%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 45302673 original top strand
CTOT 0 complementary to original top strand
CTOB 0 complementary to original bottom strand
OB 44313762 original bottom strand

Deduplication

Alignments analysed 89616435
Unique alignments 84134391
Duplicates removed 5482044
Duplicated alignments were found at 2023343 different positions

Cytosine Methylation after Extraction

Total C's analysed 1366729142
Methylated C's in CpG context 51721327
Methylated C's in CHG context 3340228
Methylated C's in CHH context 10598154
Unmethylated C's in CpG context 16593466
Unmethylated C's in CHG context 350489608
Unmethylated C's in CHH context 933986359
Percentage methylation (CpG context) 75.7%
Percentage methylation (CHG context) 0.9%
Percentage methylation (CHH context) 1.1%

M-Bias Plot