BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525271.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 = 835,367 number of mapped reads = 764,766 (91.55%) number of supplementary alignments = 2,646 (0.32%) number of secondary alignments = 0 number of mapped bases = 44,582,372 bp number of sequenced bases = 44,567,569 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 18,186 duplication rate = 1.71% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.1924 >>>>>>> ACTG content number of A's = 11,196,597 bp (25.12%) number of C's = 7,756,676 bp (17.4%) number of T's = 14,178,802 bp (31.81%) number of G's = 11,434,610 bp (25.66%) number of N's = 884 bp (0%) GC percentage = 43.06% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 226,072 number of insertions = 3,148 mapped reads with insertion percentage = 0.41% number of deletions = 9,307 mapped reads with deletion percentage = 1.21% homopolymer indels = 42.89% >>>>>>> Coverage mean coverageData = 0.0144X std coverageData = 0.1673X There is a 1.35% of reference with a coverageData >= 1X There is a 0.06% 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 4832014 0.019386166343794184 0.2886744348061328 chr2 243199373 3838287 0.01578247078786671 0.21079442683523977 chr3 198022430 3610922 0.018234914095337583 0.141066956695496 chr4 191154276 2596053 0.013580930828876672 0.12387299663485743 chr5 180915260 2057463 0.011372523246518839 0.1115141922757412 chr6 171115067 2285129 0.013354341263238964 0.13004430217264654 chr7 159138663 2664413 0.01674271323996231 0.2290344094282536 chr8 146364022 2122033 0.014498323911869544 0.1618285729097201 chr9 141213431 1477549 0.010463232778474166 0.12633614122443984 chr10 135534747 2449567 0.018073350592523702 0.18482212106949503 chr11 135006516 2108244 0.0156158684963028 0.147809115961128 chr12 133851895 2058167 0.015376450217608051 0.13007693233920972 chr13 115169878 1429129 0.012408878300626489 0.11670655284624255 chr14 107349540 1724436 0.016063748386811905 0.13325791533815465 chr15 102531392 1236397 0.012058716612371751 0.11519317519622113 chr16 90354753 1169339 0.012941643479452597 0.1266605935846078 chr17 81195210 868790 0.010700015431944815 0.11056038277505961 chr18 78077248 1007990 0.012910163022139305 0.2117200548494687 chr19 59128983 784621 0.01326965153451058 0.21128303240605037 chr20 63025520 812770 0.012895887253290413 0.1193342813707242 chr21 48129895 592144 0.012303039514214607 0.11903742775828234 chr22 51304566 350671 0.006835083645381583 0.08618353834764073 chrMT 16571 44964 2.7134150021121237 2.0290292923842137 chrX 155270560 2333285 0.015027220871748 0.13530187888846357 chrY 59373566 127995 0.002155757328101196 0.06889713227137073