BamQC report ----------------------------------- >>>>>>> Input bam file = SRR9717070.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 = 640,898 number of mapped reads = 562,287 (87.73%) number of supplementary alignments = 2,296 (0.36%) number of secondary alignments = 0 number of mapped bases = 32,786,815 bp number of sequenced bases = 32,776,062 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 13,613 duplication rate = 1.77% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.0591 >>>>>>> ACTG content number of A's = 8,146,897 bp (24.86%) number of C's = 5,828,213 bp (17.78%) number of T's = 10,836,966 bp (33.06%) number of G's = 7,963,280 bp (24.3%) number of N's = 706 bp (0%) GC percentage = 42.08% >>>>>>> Mismatches and indels general error rate = 0.0053 number of mismatches = 167,439 number of insertions = 2,291 mapped reads with insertion percentage = 0.4% number of deletions = 6,634 mapped reads with deletion percentage = 1.17% homopolymer indels = 42.54% >>>>>>> Coverage mean coverageData = 0.0106X std coverageData = 0.1306X There is a 1% of reference with a coverageData >= 1X There is a 0.04% 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 2590958 0.010394991152298874 0.17177772154073187 chr2 243199373 2778820 0.011426098536857658 0.1752105427339129 chr3 198022430 2187245 0.011045440660434275 0.10967000508792797 chr4 191154276 2113248 0.011055196065820679 0.1187922129508221 chr5 180915260 1975763 0.010920930605853812 0.10883522420816125 chr6 171115067 1858305 0.010859972956092756 0.11580035898180421 chr7 159138663 1810367 0.011376034999112692 0.14442650434302948 chr8 146364022 1642572 0.011222512046027268 0.15447672566006382 chr9 141213431 1387426 0.009825028612186329 0.11665733049169849 chr10 135534747 1587036 0.011709440089189822 0.14310366899931592 chr11 135006516 1482126 0.010978181230897032 0.12080442737118981 chr12 133851895 1470573 0.010986568400843335 0.11019820412264396 chr13 115169878 1029919 0.00894260737169488 0.09893841709924914 chr14 107349540 994778 0.009266718795441508 0.10090113771640725 chr15 102531392 942984 0.009197027189487488 0.10026211109025486 chr16 90354753 946140 0.01047139158246606 0.11024560718809587 chr17 81195210 929215 0.01144420957837291 0.11412805306526617 chr18 78077248 861250 0.011030742272063687 0.15768479774421854 chr19 59128983 677222 0.011453300321434583 0.1528429983696209 chr20 63025520 690814 0.010960861568456715 0.11109659948033926 chr21 48129895 437566 0.009091355798719279 0.11061241694078248 chr22 51304566 383634 0.007477580065680704 0.0902912868784068 chrMT 16571 6633 0.40027759338603586 0.6749909188387502 chrX 155270560 1869173 0.012038167441400353 0.11869686862800329 chrY 59373566 133048 0.002240862541421211 0.10231782090804989