BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525051.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 = 495,207 number of mapped reads = 424,526 (85.73%) number of supplementary alignments = 1,117 (0.23%) number of secondary alignments = 0 number of mapped bases = 24,782,686 bp number of sequenced bases = 24,774,498 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 16,181 duplication rate = 3.25% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.3784 >>>>>>> ACTG content number of A's = 6,449,119 bp (26.03%) number of C's = 4,317,510 bp (17.43%) number of T's = 7,908,583 bp (31.92%) number of G's = 6,096,810 bp (24.61%) number of N's = 2,476 bp (0.01%) GC percentage = 42.04% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 121,584 number of insertions = 1,763 mapped reads with insertion percentage = 0.41% number of deletions = 5,159 mapped reads with deletion percentage = 1.21% homopolymer indels = 44.63% >>>>>>> Coverage mean coverageData = 0.008X std coverageData = 0.1128X There is a 0.74% of reference with a coverageData >= 1X There is a 0.04% 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 2238455 0.00898073991157679 0.17966281162568712 chr2 243199373 2077618 0.008542859195611496 0.13116782206101998 chr3 198022430 1751981 0.008847386631908314 0.098864053671661 chr4 191154276 1683942 0.008809334717681127 0.10484606858872805 chr5 180915260 1395167 0.007711715418588791 0.09294289615328247 chr6 171115067 1355110 0.007919290941223778 0.0967171491099172 chr7 159138663 1495952 0.009400305191705677 0.12015316710213135 chr8 146364022 1252834 0.008559712850744153 0.13242867402124978 chr9 141213431 967301 0.006849922087085328 0.09483525385320367 chr10 135534747 1189596 0.00877705552510457 0.11504622735282397 chr11 135006516 1089414 0.008069343853003362 0.10136477368130127 chr12 133851895 1083142 0.00809209313024668 0.09681741532631412 chr13 115169878 735754 0.006388423889795212 0.08438257829792035 chr14 107349540 712155 0.006633982781854492 0.08700029986473219 chr15 102531392 668094 0.0065159946331363565 0.08478374849954047 chr16 90354753 671404 0.007430754638884354 0.09333836101738147 chr17 81195210 632724 0.0077926271759134556 0.09383144263872677 chr18 78077248 695049 0.008902068372081967 0.13837233364500334 chr19 59128983 473431 0.008006750259851416 0.12036845608138921 chr20 63025520 533601 0.008466427567753506 0.09831966748655782 chr21 48129895 328106 0.006817093617179094 0.09109133668400254 chr22 51304566 285312 0.005561142452700994 0.07884107535170765 chrMT 16571 3873 0.23372156176452838 0.49138764831508747 chrX 155270560 1378632 0.00887890144789843 0.10280774938919786 chrY 59373566 84039 0.0014154278690284494 0.06079163107360911