Bismark

Bismark Processing Report

/gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-227_S35_L004_R1_001_val_1.fq.gz and /gscratch/srlab/strigg/data/Pgenr/FASTQS/EPI-227_S35_L004_R2_001_val_2.fq.gz

Data processed at 18:21 on 2019-07-02

Alignment Stats

Sequence pairs analysed in total 100000
Paired-end alignments with a unique best hit 44661
Pairs without alignments under any condition 43895
Pairs that did not map uniquely 11444
Genomic sequence context not extractable (edges of chromosomes) 0

Cytosine Methylation

Total C's analysed 1329207
Methylated C's in CpG context 53928
Methylated C's in CHG context 7314
Methylated C's in CHH context 51209
Methylated C's in Unknown context 647
Unmethylated C's in CpG context 126519
Unmethylated C's in CHG context 269265
Unmethylated C's in CHH context 820972
Unmethylated C's in Unknown context 2980
Percentage methylation (CpG context) 29.9%
Percentage methylation (CHG context) 2.6%
Percentage methylation (CHH context) 5.9%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 20749 original top strand
CTOT 1239 complementary to original top strand
CTOB 1231 complementary to original bottom strand
OB 21442 original bottom strand

Cytosine Methylation after Extraction

Total C's analysed 921294
Methylated C's in CpG context 37684
Methylated C's in CHG context 4996
Methylated C's in CHH context 32844
Unmethylated C's in CpG context 87669
Unmethylated C's in CHG context 185674
Unmethylated C's in CHH context 572427
Percentage methylation (CpG context) 30.1%
Percentage methylation (CHG context) 2.6%
Percentage methylation (CHH context) 5.4%

M-Bias Plot