Bismark

Bismark Processing Report

/gscratch/srlab/sr320/data/cvirg/53F_R1_val_1.fq.gz and /gscratch/srlab/sr320/data/cvirg/53F_R2_val_2.fq.gz

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


Alignment Stats

Sequence pairs analysed in total 171116745
Paired-end alignments with a unique best hit 99736023
Pairs without alignments under any condition 47365652
Pairs that did not map uniquely 24015070
Genomic sequence context not extractable (edges of chromosomes) 1297

Cytosine Methylation

Total C's analysed 4213397728
Methylated C's in CpG context 63588936
Methylated C's in CHG context 2999855
Methylated C's in CHH context 12088410
Methylated C's in Unknown context 265748
Unmethylated C's in CpG context 468154619
Unmethylated C's in CHG context 732034413
Unmethylated C's in CHH context 2934531495
Unmethylated C's in Unknown context 13679528
Percentage methylation (CpG context) 12.0%
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 25110290 original top strand
CTOT 24871801 complementary to original top strand
CTOB 24748499 complementary to original bottom strand
OB 25004136 original bottom strand

Deduplication

Alignments analysed 99734726
Unique alignments 90488807
Duplicates removed 9245919
Duplicated alignments were found at 7993096 different positions

Cytosine Methylation after Extraction

Total C's analysed 2495589632
Methylated C's in CpG context 36895767
Methylated C's in CHG context 1730940
Methylated C's in CHH context 7042696
Unmethylated C's in CpG context 273790381
Unmethylated C's in CHG context 429246884
Unmethylated C's in CHH context 1746882964
Percentage methylation (CpG context) 11.9%
Percentage methylation (CHG context) N/A%
Percentage methylation (CHH context) N/A%

M-Bias Plot