BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525080.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 = 491,307 number of mapped reads = 391,667 (79.72%) number of supplementary alignments = 1,802 (0.37%) number of secondary alignments = 0 number of mapped bases = 23,143,969 bp number of sequenced bases = 23,136,796 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 11,649 duplication rate = 2.55% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.0981 >>>>>>> ACTG content number of A's = 5,861,234 bp (25.33%) number of C's = 4,556,103 bp (19.69%) number of T's = 7,154,511 bp (30.92%) number of G's = 5,562,445 bp (24.04%) number of N's = 2,503 bp (0.01%) GC percentage = 43.73% >>>>>>> Mismatches and indels general error rate = 0.0048 number of mismatches = 108,385 number of insertions = 1,432 mapped reads with insertion percentage = 0.36% number of deletions = 4,392 mapped reads with deletion percentage = 1.12% homopolymer indels = 43.2% >>>>>>> Coverage mean coverageData = 0.0075X std coverageData = 0.1037X There is a 0.7% of reference with a coverageData >= 1X There is a 0.03% 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 1845748 0.007405189173029182 0.1496507909423895 chr2 243199373 1930731 0.007938881487165676 0.11610024496007856 chr3 198022430 1530178 0.0077272963471865285 0.09152599063775009 chr4 191154276 1470703 0.0076938012100759914 0.09839789806532714 chr5 180915260 1397842 0.007726501346542022 0.09213950422011805 chr6 171115067 1316277 0.00769235008393504 0.0936142113726416 chr7 159138663 1292536 0.008122074017927371 0.10978111943523819 chr8 146364022 1171026 0.008000777677454095 0.10748140685215903 chr9 141213431 969432 0.006865012719647043 0.09276154902106251 chr10 135534747 1117943 0.008248386666483393 0.11517256942293712 chr11 135006516 1084598 0.008033671500714825 0.0996005780500778 chr12 133851895 1026787 0.007671068086111146 0.09242046274337683 chr13 115169878 709671 0.006161949741754524 0.08198057579586586 chr14 107349540 696056 0.006484014742867086 0.08497894254135155 chr15 102531392 670911 0.006543469145527645 0.0841537184745305 chr16 90354753 674551 0.0074655840185850544 0.09237658358913997 chr17 81195210 633795 0.007805817609191478 0.0936153384356 chr18 78077248 630637 0.008077090524502093 0.1239553308686012 chr19 59128983 479423 0.008108088042035156 0.12325516508944595 chr20 63025520 505574 0.008021734687789961 0.09405941772277941 chr21 48129895 314137 0.00652685820320198 0.08846382727445841 chr22 51304566 283967 0.005534926462490687 0.07784706611492251 chrMT 16571 2434 0.1468831090459236 0.3952288098260069 chrX 155270560 1305512 0.00840798152592481 0.09836479691930272 chrY 59373566 83500 0.0014063497550408208 0.0576680288111592