BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524826.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 = 655,025 number of mapped reads = 590,898 (90.21%) number of supplementary alignments = 2,065 (0.32%) number of secondary alignments = 0 number of mapped bases = 33,424,317 bp number of sequenced bases = 33,413,870 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 13,453 duplication rate = 1.77% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.865 >>>>>>> ACTG content number of A's = 8,028,923 bp (24.03%) number of C's = 6,064,212 bp (18.15%) number of T's = 10,942,328 bp (32.75%) number of G's = 8,374,348 bp (25.06%) number of N's = 4,059 bp (0.01%) GC percentage = 43.21% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 170,385 number of insertions = 2,313 mapped reads with insertion percentage = 0.39% number of deletions = 6,497 mapped reads with deletion percentage = 1.09% homopolymer indels = 42.61% >>>>>>> Coverage mean coverageData = 0.0108X std coverageData = 0.1248X There is a 1.01% of reference with a coverageData >= 1X There is a 0.05% of reference with a coverageData >= 2X There is a 0.01% 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 2664026 0.010688141876284432 0.137248240176218 chr2 243199373 2801915 0.01152106177510581 0.17040770330444985 chr3 198022430 2169275 0.01095469336478701 0.1106213350480652 chr4 191154276 2143871 0.01121539651040817 0.1211940929803979 chr5 180915260 1985078 0.010972418799829268 0.10982608597193323 chr6 171115067 1906857 0.011143711850926604 0.11766953055015772 chr7 159138663 1817088 0.011418268607673298 0.13827999564112387 chr8 146364022 1642419 0.0112214667071666 0.12112362815794753 chr9 141213431 1444087 0.01022627231541453 0.11661562104449019 chr10 135534747 1662114 0.012263379220385456 0.1481743146463229 chr11 135006516 1512937 0.01120639984517488 0.11950170705340342 chr12 133851895 1519761 0.011354049189964775 0.1122444269004298 chr13 115169878 1060130 0.00920492422506517 0.10084620499832755 chr14 107349540 1012738 0.009434022726133712 0.10336727938796125 chr15 102531392 964560 0.009407460302499355 0.1016381559093015 chr16 90354753 1022326 0.011314579101334049 0.11752907843140205 chr17 81195210 956411 0.011779155445253483 0.11591983635192697 chr18 78077248 884124 0.011323708540546921 0.15291006798245674 chr19 59128983 733507 0.012405202369200228 0.13683746431848592 chr20 63025520 731655 0.01160886891532192 0.11588104136412601 chr21 48129895 440818 0.009158922952148556 0.10697335017674357 chr22 51304566 420969 0.008205293072745222 0.09571846707618685 chrMT 16571 8495 0.5126425683422847 0.7587559964286846 chrX 155270560 1802903 0.01161136406025714 0.11703069454836836 chrY 59373566 116253 0.001957992551769587 0.06903636837724156