BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524386.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 = 947,201 number of mapped reads = 879,265 (92.83%) number of supplementary alignments = 3,617 (0.38%) number of secondary alignments = 0 number of mapped bases = 51,668,611 bp number of sequenced bases = 51,653,948 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 23,341 duplication rate = 1.94% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.026 >>>>>>> ACTG content number of A's = 12,460,858 bp (24.12%) number of C's = 9,260,471 bp (17.93%) number of T's = 16,897,952 bp (32.71%) number of G's = 13,027,970 bp (25.22%) number of N's = 6,697 bp (0.01%) GC percentage = 43.15% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 249,325 number of insertions = 2,969 mapped reads with insertion percentage = 0.34% number of deletions = 9,074 mapped reads with deletion percentage = 1.03% homopolymer indels = 45.45% >>>>>>> Coverage mean coverageData = 0.0167X std coverageData = 0.1863X There is a 1.56% of reference with a coverageData >= 1X There is a 0.08% 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 4121575 0.016535866524480997 0.3450008641775088 chr2 243199373 4330195 0.017805124028835388 0.20022840822916985 chr3 198022430 3423679 0.017289349494398185 0.1381423177739514 chr4 191154276 3320314 0.017369812852106956 0.14827375165663023 chr5 180915260 3070640 0.01697280815338629 0.13687348146951675 chr6 171115067 2983871 0.017437804001210484 0.1479899296812698 chr7 159138663 2896157 0.018198952695738055 0.24873931287271264 chr8 146364022 2626903 0.01794773718366389 0.17104316147278187 chr9 141213431 2163962 0.01532405228508328 0.15873476123497657 chr10 135534747 2436816 0.017979271396728988 0.16916685729023986 chr11 135006516 2351698 0.01741914442114779 0.16963522959182514 chr12 133851895 2343090 0.017505093969719294 0.14129400459085378 chr13 115169878 1647462 0.014304625728612824 0.12500317754454904 chr14 107349540 1546625 0.014407374265413712 0.1287250364743588 chr15 102531392 1478749 0.014422402457971115 0.12626057554288792 chr16 90354753 1541261 0.01705788515630163 0.14173880516493712 chr17 81195210 1392422 0.01714906581311878 0.1440036424431639 chr18 78077248 1398234 0.017908341236617355 0.26579510865020817 chr19 59128983 1071037 0.0181135704634054 0.24140688472896035 chr20 63025520 1116983 0.01772270978486175 0.14192656482956148 chr21 48129895 694243 0.01442436140781109 0.1349681956189663 chr22 51304566 630265 0.012284774029664339 0.1161697561379966 chrMT 16571 7488 0.451873755355742 0.7410630340036379 chrX 155270560 2917369 0.018788938482607393 0.1572786296088895 chrY 59373566 157573 0.002653925149114338 0.08192111191777085