BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525275.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 = 806,423 number of mapped reads = 735,974 (91.26%) number of supplementary alignments = 3,150 (0.39%) number of secondary alignments = 0 number of mapped bases = 42,643,645 bp number of sequenced bases = 42,629,325 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 17,370 duplication rate = 1.7% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.0942 >>>>>>> ACTG content number of A's = 10,667,103 bp (25.02%) number of C's = 7,360,171 bp (17.27%) number of T's = 14,358,215 bp (33.68%) number of G's = 10,243,079 bp (24.03%) number of N's = 757 bp (0%) GC percentage = 41.29% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 217,501 number of insertions = 3,081 mapped reads with insertion percentage = 0.42% number of deletions = 9,020 mapped reads with deletion percentage = 1.22% homopolymer indels = 44.46% >>>>>>> Coverage mean coverageData = 0.0138X std coverageData = 0.1648X There is a 1.3% of reference with a coverageData >= 1X There is a 0.05% 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 4670087 0.01873651099148114 0.2977947362924932 chr2 243199373 3669454 0.015088254359932088 0.19861991833725634 chr3 198022430 3476963 0.017558430123294617 0.13942412000329826 chr4 191154276 2513276 0.01314789317085431 0.12292941319902699 chr5 180915260 1963183 0.010851395288600862 0.10864705423496698 chr6 171115067 2203179 0.012875423763823205 0.1274993544736602 chr7 159138663 2562807 0.016104238603537848 0.2196620204885119 chr8 146364022 2013779 0.013758702258127342 0.16110314093866937 chr9 141213431 1438150 0.010184229572327294 0.12302132425029824 chr10 135534747 2334859 0.01722701411764173 0.1833537442796174 chr11 135006516 1984959 0.014702690350145766 0.14171455592781448 chr12 133851895 1949194 0.014562319046734452 0.1263562286785399 chr13 115169878 1363763 0.011841316702619065 0.11354578072536015 chr14 107349540 1663751 0.015498445545272015 0.13159244654165475 chr15 102531392 1164896 0.011361359455648472 0.11180520008277506 chr16 90354753 1110036 0.012285308333475273 0.12317545215064805 chr17 81195210 854552 0.01052466026013111 0.10987359729506097 chr18 78077248 936479 0.01199426240023214 0.20560959503705636 chr19 59128983 716862 0.012123699134145433 0.20758613181356614 chr20 63025520 778453 0.012351393530747545 0.11572007422753308 chr21 48129895 556519 0.011562855061287793 0.11426310647080079 chr22 51304566 335659 0.006542478110038003 0.08374488936127725 chrMT 16571 4901 0.29575764890471307 0.6240552215962889 chrX 155270560 2252489 0.01450686466256063 0.13151557406709782 chrY 59373566 125395 0.0021119667968065117 0.06919765967264384