BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525067.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 = 1,992,851 number of mapped reads = 1,821,763 (91.41%) number of supplementary alignments = 7,194 (0.36%) number of secondary alignments = 0 number of mapped bases = 105,127,518 bp number of sequenced bases = 105,100,145 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 68,658 duplication rate = 2.82% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.6167 >>>>>>> ACTG content number of A's = 26,520,021 bp (25.23%) number of C's = 20,765,395 bp (19.76%) number of T's = 32,406,945 bp (30.83%) number of G's = 25,404,424 bp (24.17%) number of N's = 3,360 bp (0%) GC percentage = 43.93% >>>>>>> Mismatches and indels general error rate = 0.0048 number of mismatches = 496,868 number of insertions = 5,743 mapped reads with insertion percentage = 0.31% number of deletions = 16,353 mapped reads with deletion percentage = 0.89% homopolymer indels = 43.66% >>>>>>> Coverage mean coverageData = 0.034X std coverageData = 0.3017X There is a 3% of reference with a coverageData >= 1X There is a 0.29% of reference with a coverageData >= 2X There is a 0.04% of reference with a coverageData >= 3X There is a 0.01% of reference with a coverageData >= 4X There is a 0.01% 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 8352564 0.03351070487403118 0.5707423986406112 chr2 243199373 8925858 0.036701813371862596 0.3132198461433797 chr3 198022430 7100747 0.035858296456618574 0.20905231093612997 chr4 191154276 6920379 0.036203108529991763 0.2334274088734487 chr5 180915260 6359791 0.035153424868637394 0.20785674819515748 chr6 171115067 6100294 0.03565024463918189 0.2282219928049741 chr7 159138663 5697234 0.035800439017135643 0.32972747763532895 chr8 146364022 5380273 0.03675953233917007 0.3526037591117198 chr9 141213431 4466111 0.0316266729614409 0.28692748856353895 chr10 135534747 4955576 0.0365631405207109 0.2830620552354524 chr11 135006516 4787299 0.035459762549535014 0.27422357877293974 chr12 133851895 4703328 0.03513829968563389 0.21376105454250152 chr13 115169878 3367597 0.02924025846410986 0.1873566238652221 chr14 107349540 3196351 0.029775171835855097 0.20691338114109006 chr15 102531392 2936755 0.028642496144010217 0.1866797635072464 chr16 90354753 3007570 0.03328624007195283 0.21715339413446902 chr17 81195210 2764825 0.03405157767311643 0.21698878387622056 chr18 78077248 2865810 0.036704802915184714 0.48588615528534584 chr19 59128983 2074194 0.03507914215267325 0.4198624212140781 chr20 63025520 2227183 0.03533779649894202 0.21364107423777595 chr21 48129895 1392634 0.028934906257327177 0.21079125058530876 chr22 51304566 1207051 0.023527165203970343 0.1692994741482194 chrMT 16571 7170 0.4326836038863074 0.7433107871712998 chrX 155270560 6021978 0.03878377201705204 0.2520904088548168 chrY 59373566 308946 0.005203426723602891 0.12958670544766687