BamQC report ----------------------------------- >>>>>>> Input bam file = SRR9716352.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 = 477,225 number of mapped reads = 444,364 (93.11%) number of supplementary alignments = 8,272 (1.73%) number of secondary alignments = 0 number of mapped bases = 35,508,588 bp number of sequenced bases = 35,491,426 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 7,761 duplication rate = 1.24% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 47.7738 >>>>>>> ACTG content number of A's = 9,613,336 bp (27.09%) number of C's = 6,988,389 bp (19.69%) number of T's = 10,470,906 bp (29.5%) number of G's = 8,416,388 bp (23.71%) number of N's = 2,407 bp (0.01%) GC percentage = 43.4% >>>>>>> Mismatches and indels general error rate = 0.0067 number of mismatches = 228,152 number of insertions = 3,425 mapped reads with insertion percentage = 0.76% number of deletions = 9,049 mapped reads with deletion percentage = 2% homopolymer indels = 42.18% >>>>>>> Coverage mean coverageData = 0.0115X std coverageData = 0.1414X There is a 1.08% of reference with a coverageData >= 1X There is a 0.05% 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 3467018 0.013909766748384551 0.2528251936658722 chr2 243199373 2908265 0.011958357310403098 0.14317930264135015 chr3 198022430 2248007 0.01135228468815376 0.11039984491147291 chr4 191154276 2241236 0.011724749489778611 0.1252539694308701 chr5 180915260 2016845 0.011148009294517223 0.10932341592029157 chr6 171115067 1945635 0.011370331287074797 0.11286790462372348 chr7 159138663 1846031 0.011600141443943135 0.152309276187579 chr8 146364022 1738541 0.011878199138310097 0.14936735522833566 chr9 141213431 1457145 0.010318742273176551 0.12838011127485177 chr10 135534747 1659792 0.012246247082307241 0.14506833913516856 chr11 135006516 2005052 0.014851520203661874 0.14959226473475232 chr12 133851895 1486991 0.011109226357983202 0.10911968651455528 chr13 115169878 1244682 0.010807357111205762 0.10762704161264353 chr14 107349540 1028238 0.009578410862310168 0.10423356620101955 chr15 102531392 1018278 0.009931377894489134 0.10287316754895931 chr16 90354753 812335 0.008990506564718294 0.1022531311512039 chr17 81195210 1149941 0.014162670433391329 0.13102478606796444 chr18 78077248 917192 0.011747237812480276 0.17116240478209355 chr19 59128983 678408 0.011473358166840109 0.1734729154458632 chr20 63025520 727231 0.011538675127154842 0.1138345332514725 chr21 48129895 471204 0.009790256139141796 0.10960195903723949 chr22 51304566 406526 0.007923778168204366 0.09222600668209632 chrMT 16571 11681 0.7049061613662422 0.9561829444872018 chrX 155270560 1909769 0.01229962073943702 0.12151563268679148 chrY 59373566 112545 0.001895540517138553 0.07374642962674209