BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524870.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 = 1,075,430 number of mapped reads = 989,032 (91.97%) number of supplementary alignments = 4,575 (0.43%) number of secondary alignments = 0 number of mapped bases = 57,798,375 bp number of sequenced bases = 57,781,587 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 24,196 duplication rate = 1.67% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.3972 >>>>>>> ACTG content number of A's = 14,805,211 bp (25.62%) number of C's = 11,413,530 bp (19.75%) number of T's = 18,814,175 bp (32.56%) number of G's = 12,740,900 bp (22.05%) number of N's = 7,771 bp (0.01%) GC percentage = 41.8% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 276,431 number of insertions = 4,597 mapped reads with insertion percentage = 0.46% number of deletions = 10,652 mapped reads with deletion percentage = 1.07% homopolymer indels = 43.62% >>>>>>> Coverage mean coverageData = 0.0187X std coverageData = 0.2069X There is a 1.74% 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 4854167 0.019475044758263612 0.37996510068404415 chr2 243199373 3741517 0.01538456680149418 0.2035010388115991 chr3 198022430 4196845 0.02119378597666941 0.15181172789356842 chr4 191154276 3169395 0.016580298732108926 0.1405343408705187 chr5 180915260 3551128 0.019628681405869246 0.14651175075593256 chr6 171115067 3810571 0.022269055944676104 0.16740338277520248 chr7 159138663 2659771 0.016713543709990827 0.2804113996111978 chr8 146364022 5942996 0.04060421351361881 0.2785086982259438 chr9 141213431 2412812 0.01708627842913894 0.17881093826210723 chr10 135534747 2892920 0.021344489616378595 0.19204056674427794 chr11 135006516 2802103 0.02075531672856442 0.19443514893373168 chr12 133851895 2310877 0.017264432453496455 0.13977254518909396 chr13 115169878 1541870 0.013387788775811675 0.12097028277104165 chr14 107349540 1240048 0.011551498031570512 0.11771546589840554 chr15 102531392 1732226 0.016894591658328406 0.1367712165200731 chr16 90354753 1798403 0.01990380074416229 0.15595198560861556 chr17 81195210 1453630 0.01790290338555686 0.15447031729476504 chr18 78077248 1410370 0.01806377704296135 0.3104838647429132 chr19 59128983 819867 0.013865738228577345 0.27445681759914264 chr20 63025520 1190778 0.018893584693946197 0.14463408640095823 chr21 48129895 852435 0.017711133589632805 0.14439410894610302 chr22 51304566 338568 0.006599178716373899 0.08451822588503179 chrMT 16571 1246 0.075191599782753 0.2863026005613775 chrX 155270560 2930207 0.01887161996453159 0.16055107946191408 chrY 59373566 143625 0.002419005791230394 0.06778039464767037