Bismark report for: sampleB.fastq.gz (version: v0.25.1)
Bismark was run with Bowtie 2 against the bisulfite genome of /genomes/GRCh38/ with the specified options: -q --score-min L,0,-0.2

Final Alignment report
======================
Sequences analysed in total:	100000
Number of alignments with a unique best hit from the different alignments:	85000
Mapping efficiency:	85.00%
Sequences with no alignments under any condition:	10000
Sequences did not map uniquely:	5000
Sequences which were discarded because genomic sequence could not be extracted:	0

Number of sequences with unique best (first) alignment came from the bowtie output:
CT/CT:	42500	((converted) top strand)
GA/CT:	0	(complementary to (converted) top strand)
GA/GA:	0	(complementary to (converted) bottom strand)
CT/GA:	42500	((converted) bottom strand)

Final Cytosine Methylation Report
=================================
Total number of C's analysed:	4000000

Total methylated C's in CpG context:	200000
Total methylated C's in CHG context:	1400
Total methylated C's in CHH context:	4000

Total unmethylated C's in CpG context:	60000
Total unmethylated C's in CHG context:	1050000
Total unmethylated C's in CHH context:	2684600

C methylated in CpG context:	76.9%
C methylated in CHG context:	0.1%
C methylated in CHH context:	0.1%
