BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525049.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 = 805,496 number of mapped reads = 673,102 (83.56%) number of supplementary alignments = 1,872 (0.23%) number of secondary alignments = 0 number of mapped bases = 38,814,491 bp number of sequenced bases = 38,802,349 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 28,050 duplication rate = 3.51% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.1037 >>>>>>> ACTG content number of A's = 9,924,239 bp (25.58%) number of C's = 7,047,606 bp (18.16%) number of T's = 12,770,708 bp (32.91%) number of G's = 9,055,870 bp (23.34%) number of N's = 3,926 bp (0.01%) GC percentage = 41.5% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 190,859 number of insertions = 2,994 mapped reads with insertion percentage = 0.44% number of deletions = 7,698 mapped reads with deletion percentage = 1.14% homopolymer indels = 44.05% >>>>>>> Coverage mean coverageData = 0.0125X std coverageData = 0.149X There is a 1.15% of reference with a coverageData >= 1X There is a 0.08% 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 3112833 0.012488767279741301 0.2431482809646824 chr2 243199373 3287800 0.013518949327225445 0.1757382782332868 chr3 198022430 2533507 0.012794040553890789 0.12063830091343651 chr4 191154276 2576178 0.01347695721962296 0.13332578199968695 chr5 180915260 2333001 0.01289554568254773 0.12110433626337574 chr6 171115067 2227317 0.013016486736378393 0.12971215712474887 chr7 159138663 2163697 0.013596299976455124 0.16347633467337178 chr8 146364022 2001402 0.013674139126895543 0.15723381622060711 chr9 141213431 1610943 0.011407859639073566 0.1231708039032848 chr10 135534747 1871312 0.013806880091051485 0.16207442164042787 chr11 135006516 1765315 0.013075776283272134 0.13450179783015523 chr12 133851895 1745653 0.013041675652033166 0.12406758637623967 chr13 115169878 1229367 0.010674379632493836 0.11030692898402816 chr14 107349540 1182814 0.01101834250989804 0.11357400587296973 chr15 102531392 1108315 0.010809518708182564 0.11083161100609043 chr16 90354753 1105050 0.012230125846285031 0.12238119556133538 chr17 81195210 1030203 0.012687977529708957 0.12292962917731537 chr18 78077248 1040174 0.013322370173702844 0.18696423800687648 chr19 59128983 756935 0.012801420920769092 0.17611461384064864 chr20 63025520 821198 0.01302961086239352 0.12338167207441317 chr21 48129895 522200 0.010849805510691432 0.1177581033476646 chr22 51304566 448762 0.008747018735135583 0.10022742746427735 chrMT 16571 12834 0.7744855470400096 1.057310201184178 chrX 155270560 2198036 0.01415616714462806 0.1339321644134189 chrY 59373566 129645 0.002183547472961284 0.08404082651557866