BamQC report ----------------------------------- >>>>>>> Input bam file = SRR9716635.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 = 610,429 number of mapped reads = 559,305 (91.62%) number of supplementary alignments = 1,743 (0.29%) number of secondary alignments = 0 number of mapped bases = 32,224,771 bp number of sequenced bases = 32,214,223 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 14,237 duplication rate = 1.83% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.5014 >>>>>>> ACTG content number of A's = 7,863,422 bp (24.41%) number of C's = 6,466,340 bp (20.07%) number of T's = 10,498,969 bp (32.59%) number of G's = 7,384,870 bp (22.92%) number of N's = 622 bp (0%) GC percentage = 43% >>>>>>> Mismatches and indels general error rate = 0.0053 number of mismatches = 165,139 number of insertions = 2,688 mapped reads with insertion percentage = 0.48% number of deletions = 6,597 mapped reads with deletion percentage = 1.17% homopolymer indels = 42.64% >>>>>>> Coverage mean coverageData = 0.0104X std coverageData = 0.1326X There is a 0.98% of reference with a coverageData >= 1X There is a 0.04% 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 2749669 0.011031743828634233 0.17712518197174923 chr2 243199373 2577993 0.010600327493443003 0.18327930714320334 chr3 198022430 1913424 0.0096626629619685 0.10240654195440879 chr4 191154276 2046756 0.010707351375179282 0.1223432165624009 chr5 180915260 1868008 0.010325320263199466 0.10562018125861522 chr6 171115067 1741863 0.010179483493408562 0.11252822031498501 chr7 159138663 1862684 0.01170478603304591 0.15453787442871028 chr8 146364022 1727726 0.01180430802864928 0.17030500773437623 chr9 141213431 1094209 0.007748618472417117 0.09947204377298945 chr10 135534747 1473536 0.010872016457890314 0.14757404182336392 chr11 135006516 1189230 0.008808685945202822 0.10968329784393709 chr12 133851895 1629408 0.012173215777034759 0.1153019168693022 chr13 115169878 979456 0.008504445928127144 0.09567181792368173 chr14 107349540 1098536 0.010233262294370335 0.10612501131150276 chr15 102531392 1213643 0.01183679433514372 0.11352918580924297 chr16 90354753 1135877 0.012571303249536855 0.1186473559022055 chr17 81195210 1460679 0.017989718851641617 0.14247848642271924 chr18 78077248 609625 0.007807972432634921 0.13463068346079932 chr19 59128983 704864 0.011920786799258834 0.1502256146202388 chr20 63025520 617283 0.009794175438774642 0.1048288151435705 chr21 48129895 428300 0.00889883512108223 0.11251139323468695 chr22 51304566 309665 0.006035817552769085 0.08090859266623047 chrMT 16571 1707 0.10301128477460623 0.321344534529608 chrX 155270560 1654584 0.010656134685158603 0.11101826090968722 chrY 59373566 136046 0.002291356392506389 0.1077399826400625