BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524481.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 = 824,920 number of mapped reads = 760,396 (92.18%) number of supplementary alignments = 1,575 (0.19%) number of secondary alignments = 0 number of mapped bases = 44,086,576 bp number of sequenced bases = 44,072,754 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 23,167 duplication rate = 2.41% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.3931 >>>>>>> ACTG content number of A's = 10,826,621 bp (24.57%) number of C's = 8,891,456 bp (20.17%) number of T's = 14,166,404 bp (32.14%) number of G's = 10,187,269 bp (23.11%) number of N's = 1,004 bp (0%) GC percentage = 43.29% >>>>>>> Mismatches and indels general error rate = 0.0048 number of mismatches = 204,402 number of insertions = 3,125 mapped reads with insertion percentage = 0.41% number of deletions = 8,120 mapped reads with deletion percentage = 1.06% homopolymer indels = 42.3% >>>>>>> Coverage mean coverageData = 0.0142X std coverageData = 0.1558X There is a 1.31% 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 4311089 0.0172962016411586 0.2406285546798823 chr2 243199373 3552199 0.014606119070874413 0.17074057161836928 chr3 198022430 2453544 0.012390232763025885 0.1186802173562797 chr4 191154276 2498911 0.013072744446480496 0.13313670616912188 chr5 180915260 2395015 0.013238324948376384 0.12268427874299677 chr6 171115067 1878093 0.010975614438441006 0.12595200859845576 chr7 159138663 2190444 0.013764373526249872 0.19177444514684147 chr8 146364022 3991596 0.027271702058037185 0.18862030753488052 chr9 141213431 1893321 0.013407513623828034 0.14757373321186013 chr10 135534747 2266134 0.016719948575253548 0.16135436701753464 chr11 135006516 1507968 0.011169594214252593 0.14621445623024143 chr12 133851895 2062507 0.015408874114184188 0.13243001007137142 chr13 115169878 1025523 0.008904437669023145 0.10110350514568818 chr14 107349540 1055556 0.009832887965798455 0.10685201130316312 chr15 102531392 1178536 0.011494391883414593 0.11660924854531757 chr16 90354753 1371030 0.015173855878948615 0.13577691757311533 chr17 81195210 1535824 0.018915204480658403 0.14969076965277872 chr18 78077248 1065382 0.013645229913841225 0.2127694555176289 chr19 59128983 889004 0.015034995612895964 0.18631951420694598 chr20 63025520 1279098 0.02029492180310452 0.15286406712208345 chr21 48129895 586856 0.012193170170015954 0.12340362099711054 chr22 51304566 356749 0.006953552633112616 0.08832579771610387 chrMT 16571 10800 0.6517409933015509 0.8748733971990794 chrX 155270560 2597534 0.016729082448082883 0.14507267428544923 chrY 59373566 133863 0.0022545891887308907 0.07014387407816162