BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714179.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 = 42,286 number of mapped reads = 14,299 (33.81%) number of supplementary alignments = 607 (1.44%) number of secondary alignments = 0 number of mapped bases = 1,662,750 bp number of sequenced bases = 1,628,598 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 11,275 duplication rate = 50.43% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 31.567 >>>>>>> ACTG content number of A's = 368,266 bp (22.61%) number of C's = 322,426 bp (19.8%) number of T's = 346,056 bp (21.25%) number of G's = 591,825 bp (36.34%) number of N's = 25 bp (0%) GC percentage = 56.14% >>>>>>> Mismatches and indels general error rate = 0.0385 number of mismatches = 59,561 number of insertions = 906 mapped reads with insertion percentage = 5.25% number of deletions = 4,350 mapped reads with deletion percentage = 29.39% homopolymer indels = 30.38% >>>>>>> Coverage mean coverageData = 0.0005X std coverageData = 0.3744X 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 32524 1.3048713728179638E-4 0.047151502696550315 chr2 243199373 317642 0.0013060971172816306 1.1722599626128247 chr3 198022430 18107 9.14391364655004E-5 0.022674117176201075 chr4 191154276 17581 9.197283141079199E-5 0.03347754811822815 chr5 180915260 24953 1.3792645241755727E-4 0.0381301090737428 chr6 171115067 35361 2.0665041728908654E-4 0.09173944102706381 chr7 159138663 42709 2.6837601369065166E-4 0.16380067566599849 chr8 146364022 79814 5.453116067007232E-4 0.2676982206969831 chr9 141213431 7784 5.5122235504638365E-5 0.019143607931673884 chr10 135534747 17301 1.2764992286442973E-4 0.04667293781510398 chr11 135006516 19948 1.4775583128150645E-4 0.03555922476011528 chr12 133851895 20973 1.566881066569883E-4 0.037884089004217414 chr13 115169878 7085 6.151782152621538E-5 0.015639698741632055 chr14 107349540 11651 1.085333015865741E-4 0.04082652452962327 chr15 102531392 20156 1.9658369604501225E-4 0.056584913395196154 chr16 90354753 8453 9.35534625389325E-5 0.023205167496488953 chr17 81195210 25337 3.1205042760527375E-4 0.07410994323429135 chr18 78077248 8697 1.1138968422657519E-4 0.023812102316756584 chr19 59128983 12631 2.1361774478685012E-4 0.05228179842858092 chr20 63025520 38857 6.165280349928093E-4 0.2464657747424044 chr21 48129895 1444 3.0002143158633526E-5 0.01071704225707611 chr22 51304566 3639 7.092935938684287E-5 0.022430505460108604 chrMT 16571 395 0.023836823366121536 0.2268331313362203 chrX 155270560 886438 0.005708989521258891 0.7026745856603345 chrY 59373566 3270 5.5075014359083635E-5 0.010876528295239803