BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525183.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 = 741,335 number of mapped reads = 699,684 (94.38%) number of supplementary alignments = 2,263 (0.31%) number of secondary alignments = 0 number of mapped bases = 42,766,962 bp number of sequenced bases = 42,752,663 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 12,398 duplication rate = 1.24% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.8544 >>>>>>> ACTG content number of A's = 11,112,351 bp (25.99%) number of C's = 9,065,500 bp (21.2%) number of T's = 12,539,272 bp (29.33%) number of G's = 10,034,549 bp (23.47%) number of N's = 991 bp (0%) GC percentage = 44.68% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 207,235 number of insertions = 3,144 mapped reads with insertion percentage = 0.45% number of deletions = 8,803 mapped reads with deletion percentage = 1.25% homopolymer indels = 43.22% >>>>>>> Coverage mean coverageData = 0.0138X std coverageData = 0.1588X There is a 1.31% 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 4642327 0.018625137146599125 0.2854539611445455 chr2 243199373 3624654 0.01490404335869731 0.17168910499996076 chr3 198022430 3425900 0.017300565395546353 0.13786655513717708 chr4 191154276 2432498 0.012725313034587833 0.12046776180763696 chr5 180915260 1945643 0.010754443820825285 0.10730928987514546 chr6 171115067 2154766 0.012592497187871832 0.12489249919897441 chr7 159138663 2550384 0.016026174607235454 0.21450533480723946 chr8 146364022 1990090 0.013596852374007595 0.1360711534639804 chr9 141213431 1437977 0.010183004476394317 0.12408277917659438 chr10 135534747 2356474 0.017386493516677315 0.17944037044157363 chr11 135006516 2280348 0.016890651411225217 0.14750710750182006 chr12 133851895 1970450 0.01472112143051841 0.126517448279524 chr13 115169878 1341943 0.011651857441404947 0.11162642788205479 chr14 107349540 1639033 0.015268188387206876 0.12963815770160952 chr15 102531392 1191737 0.01162314269565364 0.11116988372563386 chr16 90354753 1183457 0.01309789425244735 0.12756871582459003 chr17 81195210 878054 0.010814110832400088 0.11010295402249998 chr18 78077248 910673 0.011663743578667117 0.20847299639051672 chr19 59128983 781927 0.013224090121759747 0.20707700544901478 chr20 63025520 813409 0.012906026003434799 0.11874728600408406 chr21 48129895 554031 0.011511161617950755 0.11545920180577685 chr22 51304566 353871 0.006897456261495322 0.08595905037281694 chrMT 16571 2152 0.1298654275541609 0.35296870233480904 chrX 155270560 2179631 0.014037632117769138 0.12678772253085122 chrY 59373566 125533 0.002114291063467537 0.06813838337946541