BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714051.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 = 453,376 number of mapped reads = 37,436 (8.26%) number of supplementary alignments = 1,170 (0.26%) number of secondary alignments = 0 number of mapped bases = 4,040,587 bp number of sequenced bases = 4,002,413 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 31,228 duplication rate = 34.18% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 38.7146 >>>>>>> ACTG content number of A's = 805,306 bp (20.12%) number of C's = 561,274 bp (14.02%) number of T's = 780,040 bp (19.49%) number of G's = 1,855,750 bp (46.37%) number of N's = 43 bp (0%) GC percentage = 60.39% >>>>>>> Mismatches and indels general error rate = 0.035 number of mismatches = 123,337 number of insertions = 3,867 mapped reads with insertion percentage = 8.71% number of deletions = 9,176 mapped reads with deletion percentage = 23.5% homopolymer indels = 50.66% >>>>>>> Coverage mean coverageData = 0.0013X std coverageData = 1.8966X There is a 0.01% of reference with a coverageData >= 1X There is a 0.01% 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 107113 4.2974015298441324E-4 0.09312519911531864 chr2 243199373 1433399 0.005893925557118932 5.378795952426808 chr3 198022430 116953 5.906048117882404E-4 0.10999973026544245 chr4 191154276 61056 3.1940692762739975E-4 0.0659804221170721 chr5 180915260 134298 7.42325440098309E-4 0.17787307280294748 chr6 171115067 78151 4.5671606463503297E-4 0.09129312588445117 chr7 159138663 77390 4.8630545551334685E-4 0.1715760701235553 chr8 146364022 75655 5.168961536189542E-4 0.09238021266662363 chr9 141213431 70179 4.969711415056547E-4 0.09145893118645068 chr10 135534747 110087 8.122418969063335E-4 0.10915031461397896 chr11 135006516 84927 6.290585263306847E-4 0.16287810632477287 chr12 133851895 48077 3.5918057043570433E-4 0.08326303049190864 chr13 115169878 55626 4.829908737074463E-4 0.11468300455059735 chr14 107349540 66937 6.235424949189349E-4 0.1702150567664527 chr15 102531392 50919 4.966186355882109E-4 0.08442361785770675 chr16 90354753 27228 3.013455196983384E-4 0.05848455558111605 chr17 81195210 26091 3.213366896889607E-4 0.08584255021474363 chr18 78077248 31207 3.996939031457666E-4 0.0859430576985091 chr19 59128983 13219 2.235621065899273E-4 0.05638907861493341 chr20 63025520 32964 5.230262281056943E-4 0.09753391801587696 chr21 48129895 16008 3.325999360688404E-4 0.07455517793805051 chr22 51304566 14854 2.8952588742296346E-4 0.07297366811342677 chrMT 16571 947061 57.15171082010742 491.4375826191327 chrX 155270560 349688 0.002252120427723066 0.25020630572217023 chrY 59373566 11500 1.9368888841879566E-4 0.06723900137372815