Mercurial > repos > iuc > qualimap_counts
view test-data/genome_results_default.txt @ 1:1672b9bea89b draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/qualimap commit 08beeabf7a8e91d0e95f5cdb71249dd6efe2bd46"
| author | iuc |
|---|---|
| date | Tue, 29 Oct 2019 09:13:45 -0400 |
| parents | e020be4f281b |
| children |
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BamQC report ----------------------------------- >>>>>>> Input bam file = /tmp/tmprT4oZK/files/b/1/f/dataset_b1fbaad4-1b5a-4769-8a15-b4cec4de5731.dat outfile = results/genome_results.txt >>>>>>> Reference number of bases = 650 bp number of contigs = 1 >>>>>>> Globals number of windows = 325 number of reads = 100 number of mapped reads = 100 (100%) number of secondary alignments = 1 number of mapped bases = 12,665 bp number of sequenced bases = 7,465 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 18 duplication rate = 15.85% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 115.8402 >>>>>>> ACTG content number of A's = 1,910 bp (25.59%) number of C's = 1,902 bp (25.48%) number of T's = 1,497 bp (20.05%) number of G's = 2,156 bp (28.88%) number of N's = 0 bp (0%) GC percentage = 54.36% >>>>>>> Mismatches and indels general error rate = 0.0118 number of mismatches = 149 >>>>>>> Coverage mean coverageData = 19.4846X std coverageData = 16.5813X There is a 45.85% of reference with a coverageData >= 1X There is a 45.38% of reference with a coverageData >= 2X There is a 44.92% of reference with a coverageData >= 3X There is a 44.62% of reference with a coverageData >= 4X There is a 43.85% of reference with a coverageData >= 5X There is a 41.85% of reference with a coverageData >= 6X There is a 40.46% of reference with a coverageData >= 7X There is a 39.85% of reference with a coverageData >= 8X There is a 38.77% of reference with a coverageData >= 9X There is a 38% of reference with a coverageData >= 10X There is a 37.23% of reference with a coverageData >= 11X There is a 36.92% of reference with a coverageData >= 12X There is a 36.46% of reference with a coverageData >= 13X There is a 36.15% of reference with a coverageData >= 14X There is a 35.54% of reference with a coverageData >= 15X There is a 35.23% of reference with a coverageData >= 16X There is a 34.77% of reference with a coverageData >= 17X There is a 34% of reference with a coverageData >= 18X There is a 33.38% of reference with a coverageData >= 19X There is a 33.38% of reference with a coverageData >= 20X There is a 33.23% of reference with a coverageData >= 21X There is a 31.85% of reference with a coverageData >= 22X There is a 31.54% of reference with a coverageData >= 23X There is a 30.92% of reference with a coverageData >= 24X There is a 30.62% of reference with a coverageData >= 25X There is a 28.62% of reference with a coverageData >= 26X There is a 27.54% of reference with a coverageData >= 27X There is a 26.92% of reference with a coverageData >= 28X There is a 25.23% of reference with a coverageData >= 29X There is a 23.38% of reference with a coverageData >= 30X There is a 20.77% of reference with a coverageData >= 31X There is a 16.77% of reference with a coverageData >= 32X There is a 12.15% of reference with a coverageData >= 33X There is a 10.15% of reference with a coverageData >= 34X There is a 8.62% of reference with a coverageData >= 35X There is a 7.38% of reference with a coverageData >= 36X There is a 4% of reference with a coverageData >= 37X There is a 1.85% of reference with a coverageData >= 38X There is a 0.31% of reference with a coverageData >= 39X There is a 0% of reference with a coverageData >= 40X There is a 0% of reference with a coverageData >= 41X There is a 0% of reference with a coverageData >= 42X There is a 0% of reference with a coverageData >= 43X There is a 0% of reference with a coverageData >= 44X There is a 0% of reference with a coverageData >= 45X There is a 0% of reference with a coverageData >= 46X There is a 0% of reference with a coverageData >= 47X There is a 0% of reference with a coverageData >= 48X There is a 0% of reference with a coverageData >= 49X There is a 0% of reference with a coverageData >= 50X There is a 0% of reference with a coverageData >= 51X >>>>>>> Coverage per contig test_chromosome 650 12665 19.484615384615385 16.581284452141826