Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cvirg/44F_R1_val_1.fq.gz and /gscratch/srlab/sr320/data/cvirg/44F_R2_val_2.fq.gz

Data processed at 13:36:55 on 2021-08-12


Alignment Stats

Sequence pairs analysed in total 308919236
Paired-end alignments with a unique best hit 175961500
Pairs without alignments under any condition 88375390
Pairs that did not map uniquely 44582346
Genomic sequence context not extractable (edges of chromosomes) 933

Cytosine Methylation

Total C's analysed 7480514122
Methylated C's in CpG context 109273103
Methylated C's in CHG context 5254054
Methylated C's in CHH context 21855128
Methylated C's in Unknown context 475606
Unmethylated C's in CpG context 845598808
Unmethylated C's in CHG context 1308578802
Unmethylated C's in CHH context 5189954227
Unmethylated C's in Unknown context 24907669
Percentage methylation (CpG context) 11.4%
Percentage methylation (CHG context) 0.4%
Percentage methylation (CHH context) 0.4%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 44288358 original top strand
CTOT 43850154 complementary to original top strand
CTOB 43681468 complementary to original bottom strand
OB 44140587 original bottom strand

Deduplication

Alignments analysed 175960567
Unique alignments 157156371
Duplicates removed 18804196
Duplicated alignments were found at 16371933 different positions

Cytosine Methylation after Extraction

Total C's analysed 4359634563
Methylated C's in CpG context 62164671
Methylated C's in CHG context 2974806
Methylated C's in CHH context 12301418
Unmethylated C's in CpG context 486787004
Unmethylated C's in CHG context 754995811
Unmethylated C's in CHH context 3040410853
Percentage methylation (CpG context) 11.3%
Percentage methylation (CHG context) N/A%
Percentage methylation (CHH context) N/A%

M-Bias Plot