BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524329.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 = 495,186 number of mapped reads = 450,018 (90.88%) number of supplementary alignments = 2,127 (0.43%) number of secondary alignments = 0 number of mapped bases = 26,112,616 bp number of sequenced bases = 26,105,601 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 8,301 duplication rate = 1.26% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.1251 >>>>>>> ACTG content number of A's = 6,541,716 bp (25.06%) number of C's = 5,170,204 bp (19.8%) number of T's = 8,135,473 bp (31.16%) number of G's = 6,254,343 bp (23.96%) number of N's = 3,865 bp (0.01%) GC percentage = 43.76% >>>>>>> Mismatches and indels general error rate = 0.0054 number of mismatches = 137,024 number of insertions = 1,743 mapped reads with insertion percentage = 0.39% number of deletions = 4,389 mapped reads with deletion percentage = 0.97% homopolymer indels = 41.94% >>>>>>> Coverage mean coverageData = 0.0084X std coverageData = 0.1173X 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 2670619 0.010714593164443911 0.1805035660421853 chr2 243199373 2631408 0.01081996210574112 0.15341840873635423 chr3 198022430 1768210 0.008929341994237724 0.09737099853233443 chr4 191154276 1334517 0.006981360961028148 0.09203080051328277 chr5 180915260 1328033 0.007340635610285169 0.08834961113472592 chr6 171115067 1252982 0.007322452791372253 0.09166442750638787 chr7 159138663 2009999 0.012630488167416614 0.17655822918171135 chr8 146364022 1085638 0.007417382941280474 0.09795308168504549 chr9 141213431 1167581 0.008268200777587508 0.10432425899252526 chr10 135534747 1004072 0.007408225729745893 0.11505989980164615 chr11 135006516 1163522 0.008618265506533032 0.10446498566874214 chr12 133851895 1647583 0.012309000182627225 0.1148844704450188 chr13 115169878 582786 0.005060229376990397 0.07288377274424387 chr14 107349540 680833 0.006342206962414557 0.08399263463350606 chr15 102531392 767301 0.007483571470481938 0.08912306114402406 chr16 90354753 975256 0.01079363251648754 0.11083062420532408 chr17 81195210 461378 0.005682330275394325 0.07990955132793162 chr18 78077248 730121 0.009351264532274499 0.15074196516744118 chr19 59128983 424493 0.007179101998084425 0.13235309136220316 chr20 63025520 783004 0.012423602375672584 0.11511677274492754 chr21 48129895 230206 0.004783014797767583 0.075200137413969 chr22 51304566 248162 0.0048370353625055516 0.07131283582878933 chrMT 16571 16009 0.9660853297930119 1.0976318350352474 chrX 155270560 1067524 0.006875250530428949 0.09046139459228626 chrY 59373566 81379 0.0013706267870115803 0.051912381561365406