BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525229.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP215441/SRP215441.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 = 533,912 number of mapped reads = 503,087 (94.23%) number of supplementary alignments = 2,059 (0.39%) number of secondary alignments = 0 number of mapped bases = 31,818,499 bp number of sequenced bases = 31,807,102 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 8,228 duplication rate = 1.2% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.9063 >>>>>>> ACTG content number of A's = 8,586,375 bp (27%) number of C's = 6,518,749 bp (20.49%) number of T's = 9,483,686 bp (29.82%) number of G's = 7,217,453 bp (22.69%) number of N's = 839 bp (0%) GC percentage = 43.19% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 152,845 number of insertions = 2,403 mapped reads with insertion percentage = 0.48% number of deletions = 6,923 mapped reads with deletion percentage = 1.36% homopolymer indels = 43.26% >>>>>>> Coverage mean coverageData = 0.0103X std coverageData = 0.1303X There is a 0.97% of reference with a coverageData >= 1X There is a 0.04% 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 2562007 0.010278838984316913 0.20998168140777113 chr2 243199373 2665922 0.010961878590040608 0.13861474020247136 chr3 198022430 2053061 0.010367820453470851 0.1053313600322325 chr4 191154276 2010936 0.010519963466577123 0.1112921841633698 chr5 180915260 1922452 0.010626256734782904 0.10661613859522477 chr6 171115067 1744089 0.010192492283569629 0.10904339472540679 chr7 159138663 1786843 0.011228214227236532 0.1734311430603207 chr8 146364022 1645787 0.011244477826661527 0.12417716341357826 chr9 141213431 1343211 0.009511921001338746 0.11425734632047273 chr10 135534747 1559794 0.011508443661314394 0.14010680792406793 chr11 135006516 1472972 0.010910377096169195 0.1169777835452846 chr12 133851895 1431096 0.010691637948046982 0.10725561744630885 chr13 115169878 992730 0.00861970175917005 0.09578097607399651 chr14 107349540 964609 0.008985683590260378 0.1003068248659086 chr15 102531392 903267 0.008809662898168787 0.09679057315737728 chr16 90354753 928040 0.010271070078626633 0.1094443447476068 chr17 81195210 889480 0.010954833419360576 0.11175659984079865 chr18 78077248 881478 0.011289819026408307 0.17829446583890712 chr19 59128983 664825 0.01124364002675304 0.1650530783435463 chr20 63025520 719173 0.01141082215585052 0.11170943026767875 chr21 48129895 422772 0.008783979271095439 0.10366924141341739 chr22 51304566 388121 0.007565038168337687 0.09016211346896005 chrMT 16571 8388 0.5061855047975379 0.796625761909471 chrX 155270560 1746891 0.011250626004053826 0.1121442798073288 chrY 59373566 110555 0.001862023918186083 0.07490036089961864