BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524992.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 = 979,703 number of mapped reads = 908,055 (92.69%) number of supplementary alignments = 2,126 (0.22%) number of secondary alignments = 0 number of mapped bases = 52,980,812 bp number of sequenced bases = 52,963,091 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 23,994 duplication rate = 1.98% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.8711 >>>>>>> ACTG content number of A's = 13,777,826 bp (26.01%) number of C's = 9,331,380 bp (17.62%) number of T's = 16,565,667 bp (31.28%) number of G's = 13,287,658 bp (25.09%) number of N's = 560 bp (0%) GC percentage = 42.71% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 253,784 number of insertions = 3,604 mapped reads with insertion percentage = 0.4% number of deletions = 10,368 mapped reads with deletion percentage = 1.13% homopolymer indels = 41.98% >>>>>>> Coverage mean coverageData = 0.0171X std coverageData = 0.1736X There is a 1.59% of reference with a coverageData >= 1X There is a 0.09% 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 4231221 0.01697576913960828 0.27345402510149414 chr2 243199373 4516154 0.01856976004621525 0.19391124587918313 chr3 198022430 3553576 0.017945320638677143 0.14210465501527916 chr4 191154276 3482414 0.018217818993491938 0.15248675425966923 chr5 180915260 3218013 0.017787404998340108 0.14079343092242705 chr6 171115067 3100785 0.01812105184168265 0.16360129410105842 chr7 159138663 2937952 0.018461585290558837 0.2036995554836548 chr8 146364022 2732649 0.01867022347882733 0.18407566611478698 chr9 141213431 2214335 0.015680767645961383 0.15755555385720033 chr10 135534747 2530296 0.018668983828921744 0.17942359498505156 chr11 135006516 2420250 0.017926912505467515 0.17103106949663674 chr12 133851895 2368369 0.017693951960859426 0.14137088408133802 chr13 115169878 1676070 0.01455302401205982 0.12735966619736383 chr14 107349540 1613358 0.015029016426153292 0.13236008128167992 chr15 102531392 1500534 0.01463487397108585 0.1355202326391212 chr16 90354753 1494427 0.01653955049824551 0.14097756294507055 chr17 81195210 1398863 0.017228393152748787 0.14955561112002133 chr18 78077248 1421877 0.01821115672519605 0.2291520886783606 chr19 59128983 1019003 0.017233562092552817 0.20627537375171812 chr20 63025520 1100743 0.017465036385261083 0.14080124531288968 chr21 48129895 696169 0.014464378116760903 0.1338855722965493 chr22 51304566 604887 0.011790120200997315 0.11399671743234378 chrMT 16571 1360 0.08207108804538048 0.29523434192702863 chrX 155270560 2988832 0.0192491867099597 0.15579704518931833 chrY 59373566 158675 0.0026724855973784697 0.08362347443050372