BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524836.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 = 475,709 number of mapped reads = 440,482 (92.59%) number of supplementary alignments = 2,366 (0.5%) number of secondary alignments = 0 number of mapped bases = 26,036,739 bp number of sequenced bases = 26,028,897 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 7,112 duplication rate = 1.14% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.6443 >>>>>>> ACTG content number of A's = 6,812,233 bp (26.17%) number of C's = 4,722,718 bp (18.14%) number of T's = 8,484,538 bp (32.6%) number of G's = 6,005,686 bp (23.07%) number of N's = 3,722 bp (0.01%) GC percentage = 41.22% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 124,918 number of insertions = 2,196 mapped reads with insertion percentage = 0.5% number of deletions = 5,010 mapped reads with deletion percentage = 1.13% homopolymer indels = 41.7% >>>>>>> Coverage mean coverageData = 0.0084X std coverageData = 0.1171X There is a 0.8% of reference with a coverageData >= 1X There is a 0.02% 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 2171648 0.008712708483081371 0.19365316583037884 chr2 243199373 1712447 0.00704132983106005 0.10758194189561429 chr3 198022430 1935464 0.009773963484843612 0.10090381533778872 chr4 191154276 1458912 0.0076321180489836386 0.09120051904282396 chr5 180915260 1587674 0.008775788178399102 0.09634572641441755 chr6 171115067 1707426 0.009978232951280672 0.10543743853444623 chr7 159138663 1219929 0.007665824112145519 0.1435600163210312 chr8 146364022 2933209 0.02004050558271759 0.17347442398680754 chr9 141213431 1078244 0.007635562654093434 0.10205336715422095 chr10 135534747 988550 0.007293701592256634 0.101041758835235 chr11 135006516 1239206 0.009178860670695331 0.11206845141540207 chr12 133851895 1044969 0.007806904788310991 0.09166752741145313 chr13 115169878 689690 0.0059884581973769216 0.08018207249398329 chr14 107349540 557382 0.005192216007632636 0.07575241041881428 chr15 102531392 760426 0.007416518835519174 0.08828481749593192 chr16 90354753 725589 0.00803044638946664 0.09448229497053241 chr17 81195210 705315 0.008686657747421308 0.0989158422301414 chr18 78077248 652471 0.008356736651373778 0.1625071164512398 chr19 59128983 360553 0.006097737212899468 0.13570535352913116 chr20 63025520 536200 0.008507664831642801 0.09488396041779432 chr21 48129895 389933 0.008101679839525934 0.09441009708202354 chr22 51304566 149349 0.0029110274512408898 0.05513825547240529 chrMT 16571 251 0.015146943455434192 0.1221372734237672 chrX 155270560 1370554 0.008826876131573172 0.1006925919832354 chrY 59373566 61348 0.001033254428410111 0.038648281133547895