BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524440.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 = 694,195 number of mapped reads = 636,708 (91.72%) number of supplementary alignments = 2,747 (0.4%) number of secondary alignments = 0 number of mapped bases = 37,165,961 bp number of sequenced bases = 37,155,722 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 19,777 duplication rate = 2.34% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.8973 >>>>>>> ACTG content number of A's = 8,973,381 bp (24.15%) number of C's = 6,927,234 bp (18.64%) number of T's = 11,424,437 bp (30.75%) number of G's = 9,826,896 bp (26.45%) number of N's = 3,774 bp (0.01%) GC percentage = 45.09% >>>>>>> Mismatches and indels general error rate = 0.0053 number of mismatches = 191,265 number of insertions = 2,324 mapped reads with insertion percentage = 0.36% number of deletions = 6,315 mapped reads with deletion percentage = 0.98% homopolymer indels = 42.01% >>>>>>> Coverage mean coverageData = 0.012X std coverageData = 0.1519X There is a 1.11% 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 3016917 0.012103949783138153 0.2575029983824112 chr2 243199373 3147264 0.012941085995316279 0.1825466514118459 chr3 198022430 2415326 0.012197234424403337 0.11641931318788576 chr4 191154276 2280368 0.011929463717568107 0.13869595308004093 chr5 180915260 2183393 0.012068594987509621 0.11568682430025924 chr6 171115067 2076387 0.01213444868650871 0.1210646701070362 chr7 159138663 2037634 0.012804141756551014 0.17778394977059223 chr8 146364022 1807581 0.012349899758835542 0.13227634460696688 chr9 141213431 1550090 0.010976930374278633 0.12546578576345938 chr10 135534747 1858977 0.013715870218874575 0.17701766473201827 chr11 135006516 1697584 0.01257408938691522 0.13717274498764812 chr12 133851895 1650468 0.012330553855812052 0.11774032771759084 chr13 115169878 1120007 0.009724825791688345 0.10402085827584412 chr14 107349540 1109934 0.010339438808959964 0.11006006794237834 chr15 102531392 1117622 0.0109002909079787 0.10975666485540417 chr16 90354753 1152755 0.012758100284995522 0.12299817999437196 chr17 81195210 1092572 0.01345611397519632 0.1285919045910612 chr18 78077248 960008 0.012295617796364953 0.196706099542063 chr19 59128983 853649 0.014437065491216042 0.18455958469361466 chr20 63025520 849561 0.013479634916141906 0.12553463276195384 chr21 48129895 506159 0.010516519930076722 0.12900802270831105 chr22 51304566 501076 0.009766694059940005 0.10489777928731013 chrMT 16571 6729 0.4060708466598274 0.7129229215417208 chrX 155270560 2014984 0.01297724436622113 0.1256761983693738 chrY 59373566 158916 0.0026765446427792464 0.10474822693566634