Bismark

Bismark Processing Report

/gscratch/scrubbed/yaaminiv/Manchester/analyses/trimgalore-2/poly-G/zr3616_8_R1_val_1_val_1_val_1.fq.gz and /gscratch/scrubbed/yaaminiv/Manchester/analyses/trimgalore-2/poly-G/zr3616_8_R2_val_2_val_2_val_2.fq.gz

Data processed at 02:09:07 on 2021-03-22


Alignment Stats

Sequence pairs analysed in total 159382736
Paired-end alignments with a unique best hit 98194103
Pairs without alignments under any condition 30246691
Pairs that did not map uniquely 30941942
Genomic sequence context not extractable (edges of chromosomes) 334

Cytosine Methylation

Total C's analysed 3240697758
Methylated C's in CpG context 48308489
Methylated C's in CHG context 3121497
Methylated C's in CHH context 13021467
Methylated C's in Unknown context 133034
Unmethylated C's in CpG context 394826323
Unmethylated C's in CHG context 583925074
Unmethylated C's in CHH context 2197494908
Unmethylated C's in Unknown context 7570756
Percentage methylation (CpG context) 10.9%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.6%
Methylated C's in Unknown context N/A%

Alignment to Individual Bisulfite Strands

OT 24591855 original top strand
CTOT 24474256 complementary to original top strand
CTOB 24506903 complementary to original bottom strand
OB 24620755 original bottom strand

Deduplication

Alignments analysed 98193769
Unique alignments 75170623
Duplicates removed 23023146
Duplicated alignments were found at 17320875 different positions

Cytosine Methylation after Extraction

Total C's analysed 1476972567
Methylated C's in CpG context 21640032
Methylated C's in CHG context 1412896
Methylated C's in CHH context 6060604
Unmethylated C's in CpG context 175541372
Unmethylated C's in CHG context 262956537
Unmethylated C's in CHH context 1009361126
Percentage methylation (CpG context) 11.0%
Percentage methylation (CHG context) 0.5%
Percentage methylation (CHH context) 0.6%

M-Bias Plot