BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524879.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 = 886,711 number of mapped reads = 813,870 (91.79%) number of supplementary alignments = 3,557 (0.4%) number of secondary alignments = 0 number of mapped bases = 47,486,575 bp number of sequenced bases = 47,472,409 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 18,016 duplication rate = 1.48% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.1154 >>>>>>> ACTG content number of A's = 11,817,450 bp (24.89%) number of C's = 8,959,110 bp (18.87%) number of T's = 15,871,775 bp (33.43%) number of G's = 10,817,214 bp (22.79%) number of N's = 6,860 bp (0.01%) GC percentage = 41.66% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 232,242 number of insertions = 3,605 mapped reads with insertion percentage = 0.44% number of deletions = 9,108 mapped reads with deletion percentage = 1.11% homopolymer indels = 43.38% >>>>>>> Coverage mean coverageData = 0.0153X std coverageData = 0.1822X There is a 1.44% 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 4056963 0.01627664149330244 0.34312971955402843 chr2 243199373 3124453 0.01284729052323667 0.1754794811184793 chr3 198022430 3476491 0.017556046554928147 0.1373535900099491 chr4 191154276 2675934 0.013998818420363246 0.1278821179066772 chr5 180915260 2938309 0.016241355206852093 0.13282638246731954 chr6 171115067 3010748 0.017594873746564935 0.14886489665850208 chr7 159138663 2220956 0.013956105688785383 0.22706436360159526 chr8 146364022 4796751 0.032772746570191955 0.23623465585764397 chr9 141213431 1990777 0.014097646278419508 0.15843938336412927 chr10 135534747 2442015 0.018017630563769746 0.17498824035368404 chr11 135006516 2307234 0.017089797354669905 0.16776167020057414 chr12 133851895 1775342 0.013263480505823246 0.12098701825626919 chr13 115169878 1291799 0.011216465819300424 0.1101349674524187 chr14 107349540 1009994 0.009408461368348667 0.10732107363861165 chr15 102531392 1410223 0.01375406080510445 0.12211365732256431 chr16 90354753 1329992 0.014719668372066714 0.13265326237664996 chr17 81195210 1254659 0.015452377055247471 0.1407112698576946 chr18 78077248 1147847 0.014701427488837722 0.271175552768936 chr19 59128983 692640 0.011714052311706427 0.24085653906572344 chr20 63025520 994427 0.015778164146840835 0.1328161747200596 chr21 48129895 704880 0.014645367499762882 0.12800823846391898 chr22 51304566 278990 0.005437917552991288 0.0760981711116479 chrMT 16571 573 0.034578480477943395 0.1904716141651445 chrX 155270560 2432019 0.015663104454572713 0.14304902891663637 chrY 59373566 122559 0.002064201432671233 0.06461317074608179