BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525207.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 = 768,615 number of mapped reads = 725,410 (94.38%) number of supplementary alignments = 2,715 (0.35%) number of secondary alignments = 0 number of mapped bases = 45,129,166 bp number of sequenced bases = 45,113,156 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 13,653 duplication rate = 1.3% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.3083 >>>>>>> ACTG content number of A's = 12,338,869 bp (27.35%) number of C's = 9,381,747 bp (20.8%) number of T's = 13,359,620 bp (29.61%) number of G's = 10,031,854 bp (22.24%) number of N's = 1,066 bp (0%) GC percentage = 43.03% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 218,509 number of insertions = 3,264 mapped reads with insertion percentage = 0.45% number of deletions = 9,785 mapped reads with deletion percentage = 1.34% homopolymer indels = 43.54% >>>>>>> Coverage mean coverageData = 0.0146X std coverageData = 0.1712X There is a 1.37% 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 4910578 0.019701367163293848 0.3111670876165666 chr2 243199373 3778959 0.015538522790517227 0.17484933328519744 chr3 198022430 3572952 0.01804316814009403 0.13948027178126066 chr4 191154276 2529458 0.013232547306448954 0.12525106131002722 chr5 180915260 2022048 0.011176768615317469 0.10992727397399782 chr6 171115067 2890221 0.01689051145916917 0.14306117666884144 chr7 159138663 2995874 0.018825557180909582 0.28008259163465105 chr8 146364022 2488379 0.017001302410233027 0.15994403270473628 chr9 141213431 1565052 0.011082883468782796 0.1335455013842997 chr10 135534747 2510625 0.01852384761525397 0.18938834050712774 chr11 135006516 2088206 0.015467446030530853 0.14178780001885505 chr12 133851895 1898316 0.01418221236240249 0.1250424383907606 chr13 115169878 1406160 0.012209442472449263 0.11450756574846861 chr14 107349540 1316133 0.01226025747292443 0.11928338286633207 chr15 102531392 1254686 0.012237091251038511 0.11422444551469914 chr16 90354753 1334983 0.014774906196688956 0.13421427108754502 chr17 81195210 887757 0.01093361295573963 0.11048903346026563 chr18 78077248 957456 0.01226293221810277 0.21447880945650205 chr19 59128983 813941 0.013765516650269462 0.22083818115078743 chr20 63025520 1027656 0.01630539502093755 0.13373878341580006 chr21 48129895 582308 0.012098675885330729 0.12044324270649132 chr22 51304566 379893 0.007404662579155235 0.08904878222305591 chrMT 16571 2273 0.137167340534669 0.3757171755334981 chrX 155270560 1778370 0.011453362440375045 0.11555480527377754 chrY 59373566 136882 0.002305436732568834 0.08615594954744239