BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524786.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 = 1,021,770 number of mapped reads = 937,583 (91.76%) number of supplementary alignments = 3,437 (0.34%) number of secondary alignments = 0 number of mapped bases = 53,637,563 bp number of sequenced bases = 53,620,281 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 27,673 duplication rate = 2.26% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.5775 >>>>>>> ACTG content number of A's = 13,342,683 bp (24.88%) number of C's = 10,355,144 bp (19.31%) number of T's = 16,951,158 bp (31.61%) number of G's = 12,964,994 bp (24.18%) number of N's = 6,302 bp (0.01%) GC percentage = 43.49% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 270,653 number of insertions = 3,652 mapped reads with insertion percentage = 0.39% number of deletions = 10,697 mapped reads with deletion percentage = 1.13% homopolymer indels = 42.39% >>>>>>> Coverage mean coverageData = 0.0173X std coverageData = 0.1737X There is a 1.59% of reference with a coverageData >= 1X There is a 0.1% 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 4245084 0.017031387857605378 0.21920179981981114 chr2 243199373 4574186 0.018808379082457586 0.25859644741282783 chr3 198022430 3465210 0.017499078260982858 0.143349073025969 chr4 191154276 3441258 0.018002516459532405 0.15653496712260398 chr5 180915260 3163555 0.017486391142460842 0.14082798975843766 chr6 171115067 3042677 0.017781467484683858 0.15253610309192756 chr7 159138663 2946663 0.018516323717008985 0.1983590035486862 chr8 146364022 2673629 0.01826698230525532 0.170168293486584 chr9 141213431 2284486 0.016177540506044356 0.15318997909740023 chr10 135534747 2619732 0.01932885889402221 0.19787922281766301 chr11 135006516 2432618 0.01801852289855402 0.15986882661828425 chr12 133851895 2448830 0.018295071578926844 0.14614381508881139 chr13 115169878 1653166 0.014354152567566322 0.12756776353141477 chr14 107349540 1592562 0.01483529412422261 0.13195293015466503 chr15 102531392 1581399 0.01542355925490605 0.1340723570381651 chr16 90354753 1633916 0.018083343108690697 0.15497446823050606 chr17 81195210 1554541 0.0191457230050886 0.1504549176218557 chr18 78077248 1381032 0.017688020971230952 0.23017034752214827 chr19 59128983 1191479 0.020150507239402374 0.198777368682851 chr20 63025520 1157440 0.018364624361687138 0.14913599269052363 chr21 48129895 725427 0.015072274726549892 0.14244209810183217 chr22 51304566 689658 0.013442429276177875 0.12605317397186905 chrMT 16571 17768 1.0722346267575886 1.1434886126636037 chrX 155270560 2950370 0.019001477163475163 0.1528903112478295 chrY 59373566 170877 0.0028779979292468303 0.09186589535428105