BamQC report ----------------------------------- >>>>>>> Input bam file = SRR9716150.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 = 680,917 number of mapped reads = 499,868 (73.41%) number of supplementary alignments = 529 (0.08%) number of secondary alignments = 0 number of mapped bases = 26,121,875 bp number of sequenced bases = 26,114,778 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 24,866 duplication rate = 4.41% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 42.9805 >>>>>>> ACTG content number of A's = 5,331,710 bp (20.42%) number of C's = 5,018,449 bp (19.22%) number of T's = 8,760,633 bp (33.55%) number of G's = 7,003,565 bp (26.82%) number of N's = 421 bp (0%) GC percentage = 46.04% >>>>>>> Mismatches and indels general error rate = 0.007 number of mismatches = 178,642 number of insertions = 1,639 mapped reads with insertion percentage = 0.33% number of deletions = 4,169 mapped reads with deletion percentage = 0.83% homopolymer indels = 40.81% >>>>>>> Coverage mean coverageData = 0.0084X std coverageData = 0.1078X There is a 0.77% 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 2114422 0.008483116276769478 0.10854195144039169 chr2 243199373 2160346 0.0088830245462845 0.1481400332101231 chr3 198022430 1650619 0.008335515325208362 0.09953095784848133 chr4 191154276 1572591 0.008226815705655468 0.10096665217092057 chr5 180915260 1533281 0.008475133606750476 0.09992958674790825 chr6 171115067 1457407 0.008517116730579897 0.1084352166805997 chr7 159138663 1418536 0.008913836356662114 0.11344307811366003 chr8 146364022 1278318 0.008733826677706356 0.10323467127791512 chr9 141213431 1085059 0.007683822936077518 0.09880166472284621 chr10 135534747 1292618 0.009537170567780674 0.11328672219701767 chr11 135006516 1188946 0.008806582343032984 0.10585174714908546 chr12 133851895 1191925 0.008904804821777084 0.10318543116361965 chr13 115169878 780203 0.006774366818379368 0.08989897896154841 chr14 107349540 813718 0.0075800790576280065 0.09513943091426258 chr15 102531392 771728 0.0075267484908426874 0.09451118501312088 chr16 90354753 858977 0.009506716265385618 0.11161334048011953 chr17 81195210 812660 0.010008718494600851 0.11075850331826814 chr18 78077248 653965 0.008375871547111906 0.10790477605537434 chr19 59128983 674176 0.011401785821345854 0.12861028250484755 chr20 63025520 608775 0.009659182502579907 0.10863413839989697 chr21 48129895 348150 0.007233549958918464 0.09802788104559287 chr22 51304566 382296 0.007451500515568146 0.09566460098471678 chrMT 16571 1927 0.1162874901937119 0.36592819810010396 chrX 155270560 1381514 0.008897462596901821 0.10289252209824877 chrY 59373566 89718 0.0015110764948832616 0.05055551563985755