BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525195.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 = 916,811 number of mapped reads = 859,088 (93.7%) number of supplementary alignments = 2,392 (0.26%) number of secondary alignments = 0 number of mapped bases = 51,748,552 bp number of sequenced bases = 51,731,849 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 19,066 duplication rate = 1.51% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.5735 >>>>>>> ACTG content number of A's = 12,929,504 bp (24.99%) number of C's = 9,931,078 bp (19.2%) number of T's = 16,216,693 bp (31.35%) number of G's = 12,653,297 bp (24.46%) number of N's = 1,277 bp (0%) GC percentage = 43.66% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 254,393 number of insertions = 2,970 mapped reads with insertion percentage = 0.34% number of deletions = 10,425 mapped reads with deletion percentage = 1.2% homopolymer indels = 46.27% >>>>>>> Coverage mean coverageData = 0.0167X std coverageData = 0.1986X There is a 1.57% of reference with a coverageData >= 1X There is a 0.07% 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 5285500 0.021205564017431275 0.39492058159321786 chr2 243199373 4066393 0.016720409061251978 0.2070783473680447 chr3 198022430 4172679 0.021071749296279214 0.1525173939122594 chr4 191154276 2840120 0.014857737213265373 0.13137244865769618 chr5 180915260 2479671 0.013706256730360944 0.12201814068416196 chr6 171115067 3113879 0.018197573449215902 0.1515256082673347 chr7 159138663 3591704 0.022569650468912135 0.30933124589726396 chr8 146364022 2865117 0.019575281963760193 0.1712450900759869 chr9 141213431 1582625 0.011207326305951733 0.13426436838610503 chr10 135534747 3415484 0.02520006179669926 0.23631520879824638 chr11 135006516 2247374 0.016646411348027083 0.15328738654637555 chr12 133851895 2075664 0.015507169323228483 0.13161721389211914 chr13 115169878 1092986 0.009490207152950184 0.10314318326009046 chr14 107349540 1825814 0.017008121320314925 0.13756752572746325 chr15 102531392 1463354 0.014272253321207226 0.12446322115030503 chr16 90354753 1468404 0.016251541299659132 0.14284633668965674 chr17 81195210 982654 0.012102364166556131 0.11784666478653001 chr18 78077248 1054560 0.013506623594110284 0.22454792067234086 chr19 59128983 1057758 0.01788899362601924 0.2954794040864821 chr20 63025520 919175 0.014584171618100097 0.12688190736230576 chr21 48129895 629649 0.013082284929148506 0.12301147557185323 chr22 51304566 438574 0.008548439918583464 0.09659352333142428 chrMT 16571 27772 1.6759398949972844 1.5046215063819155 chrX 155270560 2906870 0.018721321028274774 0.1496697648968438 chrY 59373566 144772 0.0024383241525361638 0.07625915699143343