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author | engineson |
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date | Mon, 24 Jul 2017 08:43:45 -0400 |
parents | 8f25feb85166 |
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Bismark report for: /omaha-beach/cloud_26/files/000/dataset_33.dat (version: v0.10.0) Option '--directional' specified: alignments to complementary strands will be ignored (i.e. not performed!) Bowtie was run against the bisulfite genome of /root/galaxy/database/tmp/tmpvNBPSF/ with the specified options: -q -L 20 -D 15 -R 2 --score-min L,0,-0.2 --ignore-quals --quiet Final Alignment report ====================== Sequences analysed in total: 316390 Number of alignments with a unique best hit from the different alignments: 220558 Mapping efficiency: 69.7% Sequences with no alignments under any condition: 93928 Sequences did not map uniquely: 1904 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: 108352 ((converted) top strand) CT/GA: 112206 ((converted) bottom strand) GA/CT: 0 (complementary to (converted) top strand) GA/GA: 0 (complementary to (converted) bottom strand) Number of alignments to (merely theoretical) complementary strands being rejected in total: 0 Final Cytosine Methylation Report ================================= Total number of C's analysed: 5291918 Total methylated C's in CpG context: 465068 Total methylated C's in CHG context: 1358074 Total methylated C's in CHH context: 3449120 Total methylated C's in Unknown context: 1499 Total unmethylated C's in CpG context: 6399 Total unmethylated C's in CHG context: 2988 Total unmethylated C's in CHH context: 10269 Total unmethylated C's in Unknown context: 454 C methylated in CpG context: 98.6% C methylated in CHG context: 99.8% C methylated in CHH context: 99.7% C methylated in Unknown context (CN or CHN): 76.8%