BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714123.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/ERP137498/ERP137498.result/quality.files/genome_results.txt >>>>>>> Reference number of bases = 3,095,693,983 bp number of contigs = 25 >>>>>>> Globals number of windows = 424 number of reads = 26,288 number of mapped reads = 8,095 (30.79%) number of supplementary alignments = 291 (1.11%) number of secondary alignments = 0 number of mapped bases = 985,244 bp number of sequenced bases = 965,665 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 5,392 duplication rate = 37.27% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 39.8729 >>>>>>> ACTG content number of A's = 254,490 bp (26.35%) number of C's = 178,586 bp (18.49%) number of T's = 241,071 bp (24.96%) number of G's = 291,506 bp (30.19%) number of N's = 12 bp (0%) GC percentage = 48.68% >>>>>>> Mismatches and indels general error rate = 0.0431 number of mismatches = 38,260 number of insertions = 979 mapped reads with insertion percentage = 11.28% number of deletions = 3,162 mapped reads with deletion percentage = 37.13% homopolymer indels = 31.66% >>>>>>> Coverage mean coverageData = 0.0003X std coverageData = 0.1473X There is a 0% of reference with a coverageData >= 1X There is a 0% of reference with a coverageData >= 2X There is a 0% of reference with a coverageData >= 3X There is a 0% of reference with a coverageData >= 4X There is a 0% of reference with a coverageData >= 5X There is a 0% of reference with a coverageData >= 6X There is a 0% of reference with a coverageData >= 7X There is a 0% of reference with a coverageData >= 8X There is a 0% of reference with a coverageData >= 9X There is a 0% of reference with a coverageData >= 10X There is a 0% of reference with a coverageData >= 11X There is a 0% of reference with a coverageData >= 12X There is a 0% of reference with a coverageData >= 13X There is a 0% of reference with a coverageData >= 14X There is a 0% of reference with a coverageData >= 15X There is a 0% of reference with a coverageData >= 16X There is a 0% of reference with a coverageData >= 17X There is a 0% of reference with a coverageData >= 18X There is a 0% of reference with a coverageData >= 19X There is a 0% of reference with a coverageData >= 20X There is a 0% of reference with a coverageData >= 21X There is a 0% of reference with a coverageData >= 22X There is a 0% of reference with a coverageData >= 23X There is a 0% of reference with a coverageData >= 24X There is a 0% of reference with a coverageData >= 25X There is a 0% of reference with a coverageData >= 26X There is a 0% of reference with a coverageData >= 27X There is a 0% of reference with a coverageData >= 28X There is a 0% of reference with a coverageData >= 29X There is a 0% of reference with a coverageData >= 30X There is a 0% of reference with a coverageData >= 31X There is a 0% of reference with a coverageData >= 32X There is a 0% of reference with a coverageData >= 33X There is a 0% of reference with a coverageData >= 34X There is a 0% of reference with a coverageData >= 35X There is a 0% of reference with a coverageData >= 36X There is a 0% of reference with a coverageData >= 37X There is a 0% of reference with a coverageData >= 38X There is a 0% 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 chr1 249250621 72581 2.9119686726878806E-4 0.06533204423797603 chr2 243199373 176759 7.268069724834364E-4 0.4511708817096344 chr3 198022430 50276 2.538904304931517E-4 0.0583790434762175 chr4 191154276 48491 2.536746810727896E-4 0.0786798140872784 chr5 180915260 52471 2.9003081332110956E-4 0.06724152243294142 chr6 171115067 34678 2.0265895112556043E-4 0.04884106309258236 chr7 159138663 33514 2.1059621444727104E-4 0.06371558182671462 chr8 146364022 29132 1.9903798489494912E-4 0.048821298753848504 chr9 141213431 55458 3.9272468353240424E-4 0.12695965121251412 chr10 135534747 27424 2.023392569582175E-4 0.04758345395265587 chr11 135006516 29410 2.1784133737663447E-4 0.0496171061295538 chr12 133851895 45396 3.391509698088324E-4 0.0705836071093395 chr13 115169878 24253 2.105845766373044E-4 0.05463470115692124 chr14 107349540 15555 1.4490048117579265E-4 0.033200265224984954 chr15 102531392 20182 1.9683727691905325E-4 0.041375777033957374 chr16 90354753 22831 2.5268178199767754E-4 0.05489589528173267 chr17 81195210 13602 1.6752219743011934E-4 0.041898481994893516 chr18 78077248 9081 1.1630789036007006E-4 0.024787948704280572 chr19 59128983 26856 4.541935043936068E-4 0.11311690859975276 chr20 63025520 46891 7.440002081696431E-4 0.26496205786908217 chr21 48129895 5520 1.1468963312718634E-4 0.03242902114855746 chr22 51304566 3942 7.683526647511257E-5 0.023961908989897186 chrMT 16571 12521 0.7555971275119184 6.197120217302343 chrX 155270560 128099 8.250050750122882E-4 0.11277225451162441 chrY 59373566 321 5.406446363689862E-6 0.002325170345163463