BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714255.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 = 420,460 number of mapped reads = 60,540 (14.4%) number of supplementary alignments = 1,943 (0.46%) number of secondary alignments = 0 number of mapped bases = 6,297,296 bp number of sequenced bases = 6,283,681 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 59,402 duplication rate = 24.47% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 17.0555 >>>>>>> ACTG content number of A's = 172,540 bp (2.75%) number of C's = 61,070 bp (0.97%) number of T's = 79,658 bp (1.27%) number of G's = 5,970,259 bp (95.01%) number of N's = 154 bp (0%) GC percentage = 95.98% >>>>>>> Mismatches and indels general error rate = 0.033 number of mismatches = 153,664 number of insertions = 7,398 mapped reads with insertion percentage = 7.81% number of deletions = 3,017 mapped reads with deletion percentage = 4.78% homopolymer indels = 66.47% >>>>>>> Coverage mean coverageData = 0.002X std coverageData = 7.6114X 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 10369 4.160069876014471E-5 0.012351988656286221 chr2 243199373 5995586 0.024652966518955623 27.155283796963214 chr3 198022430 8815 4.451515921706445E-5 0.011706111406054617 chr4 191154276 10295 5.385702174928067E-5 0.014096488614458561 chr5 180915260 10210 5.6435261458873064E-5 0.015455279861495272 chr6 171115067 11560 6.755687972234497E-5 0.019501907285338318 chr7 159138663 15419 9.689034524564279E-5 0.07981898138435717 chr8 146364022 6205 4.2394298238128496E-5 0.0181972069990877 chr9 141213431 6296 4.4584994185149426E-5 0.016521952242175904 chr10 135534747 6432 4.745646516756327E-5 0.012845365392652179 chr11 135006516 8842 6.549313516097252E-5 0.03776164403145171 chr12 133851895 19535 1.4594488931217597E-4 0.10089153859498215 chr13 115169878 9517 8.26344541234992E-5 0.04660921506250723 chr14 107349540 8642 8.05033724410929E-5 0.07190952540961784 chr15 102531392 5813 5.6694831569242715E-5 0.019128114060509082 chr16 90354753 4307 4.766766392466371E-5 0.01001511234137905 chr17 81195210 14525 1.7888986308428785E-4 0.12219704517617541 chr18 78077248 3894 4.9873684072471407E-5 0.011743060373492478 chr19 59128983 4147 7.013481019959366E-5 0.01478805225056601 chr20 63025520 3196 5.0709617310575147E-5 0.012644565913527882 chr21 48129895 3800 7.895300831219349E-5 0.031709322973546096 chr22 51304566 935 1.8224498770733194E-5 0.004443478272271638 chrMT 16571 13117 0.791563574920041 3.2957359899231977 chrX 155270560 114229 7.356771302943713E-4 0.11055873622147981 chrY 59373566 1610 2.7116444378631392E-5 0.008318963350272207