BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714079.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 = 20,022 number of mapped reads = 3,774 (18.85%) number of supplementary alignments = 112 (0.56%) number of secondary alignments = 0 number of mapped bases = 424,349 bp number of sequenced bases = 418,547 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 2,998 duplication rate = 49.89% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 13.6714 >>>>>>> ACTG content number of A's = 61,335 bp (14.65%) number of C's = 49,751 bp (11.89%) number of T's = 55,282 bp (13.21%) number of G's = 252,166 bp (60.25%) number of N's = 13 bp (0%) GC percentage = 72.13% >>>>>>> Mismatches and indels general error rate = 0.0371 number of mismatches = 13,122 number of insertions = 386 mapped reads with insertion percentage = 7.18% number of deletions = 797 mapped reads with deletion percentage = 20.19% homopolymer indels = 42.6% >>>>>>> Coverage mean coverageData = 0.0001X std coverageData = 0.256X 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 8259 3.313532366284455E-5 0.023117023779270024 chr2 243199373 213845 8.792991419431003E-4 0.9041006681078706 chr3 198022430 3128 1.5796190360859626E-5 0.0056085460037727 chr4 191154276 4225 2.2102565992298283E-5 0.016045614013528126 chr5 180915260 1729 9.556960535004067E-6 0.005506175649282898 chr6 171115067 5458 3.189666518378537E-5 0.015349479629018507 chr7 159138663 5920 3.720026226436249E-5 0.0213851129649789 chr8 146364022 17823 1.217717288474076E-4 0.08151896121579034 chr9 141213431 2059 1.458076604625519E-5 0.007618372316162405 chr10 135534747 2938 2.1677098050730857E-5 0.015552205581175588 chr11 135006516 1428 1.0577267248345258E-5 0.005094525586282784 chr12 133851895 2643 1.974570475823297E-5 0.010763435996734344 chr13 115169878 288 2.500653860204662E-6 0.0026845370637459363 chr14 107349540 3253 3.030287786980736E-5 0.015646008003778085 chr15 102531392 1077 1.0504100051621264E-5 0.0049428175668901975 chr16 90354753 656 7.260271078379241E-6 0.004306861327557556 chr17 81195210 4155 5.117296943994603E-5 0.03433614524133759 chr18 78077248 79 1.011818449338788E-6 0.0010058913587272802 chr19 59128983 453 7.66121751155436E-6 0.0034919368608942276 chr20 63025520 4156 6.594154241012212E-5 0.024141399831708203 chr21 48129895 0 0.0 0.0 chr22 51304566 418 8.147422979857193E-6 0.003704309539512246 chrMT 16571 0 0.0 0.0 chrX 155270560 137595 8.861628373079867E-4 0.13025037447762433 chrY 59373566 2764 4.6552703268656625E-5 0.02066534718589852