BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525048.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 = 531,306 number of mapped reads = 496,681 (93.48%) number of supplementary alignments = 2,388 (0.45%) number of secondary alignments = 0 number of mapped bases = 29,982,146 bp number of sequenced bases = 29,971,511 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 14,226 duplication rate = 2.42% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.5952 >>>>>>> ACTG content number of A's = 8,208,047 bp (27.39%) number of C's = 5,841,816 bp (19.49%) number of T's = 9,238,260 bp (30.82%) number of G's = 6,679,909 bp (22.29%) number of N's = 3,479 bp (0.01%) GC percentage = 41.78% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 143,097 number of insertions = 2,191 mapped reads with insertion percentage = 0.44% number of deletions = 6,496 mapped reads with deletion percentage = 1.3% homopolymer indels = 43.93% >>>>>>> Coverage mean coverageData = 0.0097X std coverageData = 0.1232X There is a 0.91% of reference with a coverageData >= 1X There is a 0.04% of reference with a coverageData >= 2X There is a 0% 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 2377269 0.009537665304352442 0.19093606694050683 chr2 243199373 2576224 0.010593053626005853 0.13636097644203363 chr3 198022430 1985697 0.01002763676821863 0.10437451256197579 chr4 191154276 2008595 0.010507716814035591 0.1116576299921394 chr5 180915260 1839504 0.010167765836889602 0.10525267215660318 chr6 171115067 1731456 0.010118664769596239 0.10844713969490179 chr7 159138663 1671297 0.010502143027304433 0.13669195531558073 chr8 146364022 1518457 0.010374523597062672 0.139535329328128 chr9 141213431 1250268 0.008853747063195427 0.107901184462911 chr10 135534747 1460962 0.010779243200269522 0.13581706446828007 chr11 135006516 1348809 0.009990695560205405 0.11289760678896607 chr12 133851895 1319174 0.009855474963578215 0.10431046959385705 chr13 115169878 955502 0.008296457516434983 0.09496037096479011 chr14 107349540 908443 0.008462476876938643 0.09645298562818287 chr15 102531392 861224 0.008399612871733957 0.09579030584977018 chr16 90354753 844533 0.009346857491824475 0.10378505297592625 chr17 81195210 767419 0.009451530453582175 0.10368154403131823 chr18 78077248 811795 0.010397331114949133 0.15206487759828247 chr19 59128983 566529 0.00958124038764543 0.1474957188418914 chr20 63025520 624667 0.009911334329331991 0.10500823563706388 chr21 48129895 398943 0.008288881577655633 0.10114898284779547 chr22 51304566 332004 0.006471236887570592 0.0835013957435669 chrMT 16571 5482 0.33081890048880574 0.6442586770653159 chrX 155270560 1721246 0.01108546269170408 0.113220248851415 chrY 59373566 96647 0.001627778260783595 0.06157283496471742