BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525120.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 = 518,450 number of mapped reads = 473,078 (91.25%) number of supplementary alignments = 15,655 (3.02%) number of secondary alignments = 0 number of mapped bases = 36,242,513 bp number of sequenced bases = 36,227,299 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 8,875 duplication rate = 1.17% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.992 >>>>>>> ACTG content number of A's = 9,103,791 bp (25.13%) number of C's = 7,242,496 bp (19.99%) number of T's = 10,974,285 bp (30.29%) number of G's = 8,905,303 bp (24.58%) number of N's = 1,424 bp (0%) GC percentage = 44.57% >>>>>>> Mismatches and indels general error rate = 0.0076 number of mismatches = 268,835 number of insertions = 3,261 mapped reads with insertion percentage = 0.68% number of deletions = 8,642 mapped reads with deletion percentage = 1.8% homopolymer indels = 42.29% >>>>>>> Coverage mean coverageData = 0.0117X std coverageData = 0.1526X There is a 1.1% 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 3507094 0.014070552706867679 0.2399331311313433 chr2 243199373 2972874 0.012224020001893673 0.19776551763469588 chr3 198022430 2251433 0.011369585758542605 0.11000660478926436 chr4 191154276 2186172 0.011436688970536029 0.11537965307908485 chr5 180915260 2074875 0.011468767200732541 0.111190782359594 chr6 171115067 1969634 0.011510581940747508 0.11650805760779676 chr7 159138663 1961282 0.012324358914590102 0.1864539987204483 chr8 146364022 1766888 0.012071873783299013 0.17636470862755646 chr9 141213431 1463226 0.010361804749294705 0.1368592729964978 chr10 135534747 1670791 0.01232739970363467 0.1574417384583639 chr11 135006516 1996738 0.014789937990844828 0.170185875491892 chr12 133851895 1598549 0.011942669918868163 0.1131963351204583 chr13 115169878 1255264 0.010899238774916477 0.10819604398957064 chr14 107349540 1061931 0.00989227340890329 0.10754021729165063 chr15 102531392 1016039 0.009909540679989988 0.10346496554548384 chr16 90354753 868494 0.009612045533454117 0.10716246187601026 chr17 81195210 1213966 0.01495120217066992 0.1383595542858317 chr18 78077248 941799 0.0120624000477066 0.2242392930745816 chr19 59128983 804843 0.013611649637200761 0.1941156088410015 chr20 63025520 729801 0.01157945225997342 0.11201605068730265 chr21 48129895 472857 0.0098246006977576 0.10590904629393111 chr22 51304566 413055 0.00805103779651893 0.09238885819190094 chrMT 16571 9598 0.5792046346026191 0.88472626606943 chrX 155270560 1944568 0.012523739207226405 0.13048478566466457 chrY 59373566 90742 0.0015283232272085528 0.051375245446980716