BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714066.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/ERP137498/ERP137498.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 = 577,282 number of mapped reads = 91,383 (15.83%) number of supplementary alignments = 1,590 (0.28%) number of secondary alignments = 0 number of mapped bases = 9,570,912 bp number of sequenced bases = 9,551,521 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 90,126 duplication rate = 27.61% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 11.9348 >>>>>>> ACTG content number of A's = 183,986 bp (1.93%) number of C's = 62,578 bp (0.66%) number of T's = 80,609 bp (0.84%) number of G's = 9,224,149 bp (96.57%) number of N's = 199 bp (0%) GC percentage = 97.23% >>>>>>> Mismatches and indels general error rate = 0.0323 number of mismatches = 237,780 number of insertions = 10,746 mapped reads with insertion percentage = 7.88% number of deletions = 4,365 mapped reads with deletion percentage = 4.62% homopolymer indels = 62.56% >>>>>>> Coverage mean coverageData = 0.0031X std coverageData = 11.9056X There is a 0% of reference with a coverageData >= 1X There is a 0% 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 8652 3.471204992504311E-5 0.014387330336776286 chr2 243199373 9276619 0.038144090938918664 42.475974739604524 chr3 198022430 7444 3.7591701101738825E-5 0.01329155529762553 chr4 191154276 8398 4.3933100403152895E-5 0.015412646519673952 chr5 180915260 5407 2.9886920539483512E-5 0.00790836279732426 chr6 171115067 7018 4.10133375338596E-5 0.014137320704667559 chr7 159138663 21777 1.368429242113213E-4 0.13426516370814082 chr8 146364022 7064 4.826322687415627E-5 0.024841968353328886 chr9 141213431 5149 3.6462537334710036E-5 0.016618554897267407 chr10 135534747 10215 7.536812681695566E-5 0.026388250616845285 chr11 135006516 15030 1.1132795990380198E-4 0.06814005608594081 chr12 133851895 13843 1.0342027656761975E-4 0.08080354737197051 chr13 115169878 2390 2.07519539093373E-5 0.005281807803124124 chr14 107349540 15560 1.449470579939141E-4 0.15516284573245614 chr15 102531392 5344 5.212062272596475E-5 0.020113100268740167 chr16 90354753 3607 3.992042344468586E-5 0.012390585269697317 chr17 81195210 11921 1.4681900570242997E-4 0.13603851127228134 chr18 78077248 2627 3.364616539763287E-5 0.009749798812928909 chr19 59128983 3113 5.264761614452256E-5 0.01649537181266985 chr20 63025520 4694 7.447776710132658E-5 0.031529849844646796 chr21 48129895 869 1.8055306374551616E-5 0.005965807495113341 chr22 51304566 1008 1.964737407582787E-5 0.00529417683373001 chrMT 16571 1500 0.09051958240299318 0.4204507228020524 chrX 155270560 129748 8.356252466662064E-4 0.15550773778190766 chrY 59373566 1915 3.2253410549738585E-5 0.013018646646748124