BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524493.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 = 559,264 number of mapped reads = 513,143 (91.75%) number of supplementary alignments = 1,217 (0.22%) number of secondary alignments = 0 number of mapped bases = 29,647,950 bp number of sequenced bases = 29,638,248 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 16,448 duplication rate = 2.66% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.9792 >>>>>>> ACTG content number of A's = 7,176,586 bp (24.21%) number of C's = 5,743,474 bp (19.38%) number of T's = 9,299,283 bp (31.38%) number of G's = 7,418,265 bp (25.03%) number of N's = 640 bp (0%) GC percentage = 44.41% >>>>>>> Mismatches and indels general error rate = 0.0048 number of mismatches = 140,087 number of insertions = 1,519 mapped reads with insertion percentage = 0.29% number of deletions = 5,538 mapped reads with deletion percentage = 1.07% homopolymer indels = 43.94% >>>>>>> Coverage mean coverageData = 0.0096X std coverageData = 0.1198X There is a 0.88% 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 2862494 0.011484400674773044 0.16295756614884604 chr2 243199373 2412632 0.009920387418104075 0.13816600103584656 chr3 198022430 1652784 0.008346448430109659 0.0974583696064459 chr4 191154276 1681857 0.008798427297540547 0.10589924761386287 chr5 180915260 1661607 0.009184449117227591 0.10221329008379451 chr6 171115067 1280299 0.007482093905851085 0.1002287363022978 chr7 159138663 1438965 0.00904220868061459 0.14000986516947567 chr8 146364022 2657191 0.018154673284394986 0.15262952535139457 chr9 141213431 1246910 0.008829967455432762 0.1119088353070183 chr10 135534747 1583636 0.011684354271159705 0.12928188861747703 chr11 135006516 1009609 0.007478224236228717 0.10900893227078638 chr12 133851895 1394309 0.010416804334372703 0.10899587447854862 chr13 115169878 629896 0.005469277305303736 0.07881441304058023 chr14 107349540 677811 0.006314055933541961 0.08569142287515136 chr15 102531392 761863 0.00743053405536521 0.09476476997282292 chr16 90354753 945083 0.010459693249341293 0.11088670528482088 chr17 81195210 1036062 0.012760136958818138 0.12322966333062745 chr18 78077248 700554 0.008972575467823866 0.14854224866065066 chr19 59128983 606886 0.010263765233371256 0.1315527678113804 chr20 63025520 823855 0.013071768388424245 0.12275541055235561 chr21 48129895 425145 0.008833283347075659 0.10375403426873919 chr22 51304566 246333 0.004801385514108043 0.07331735620481963 chrMT 16571 10060 0.6070846659827409 0.9079584439660213 chrX 155270560 1811205 0.011664832019669408 0.12113551398486894 chrY 59373566 90904 0.0015310517141584523 0.05317158234652998