BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525010.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 = 893,690 number of mapped reads = 820,434 (91.8%) number of supplementary alignments = 3,162 (0.35%) number of secondary alignments = 0 number of mapped bases = 47,418,910 bp number of sequenced bases = 47,403,948 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 15,811 duplication rate = 1.33% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 43.8255 >>>>>>> ACTG content number of A's = 11,185,720 bp (23.6%) number of C's = 9,305,901 bp (19.63%) number of T's = 14,696,739 bp (31%) number of G's = 12,215,141 bp (25.77%) number of N's = 447 bp (0%) GC percentage = 45.4% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 230,070 number of insertions = 2,664 mapped reads with insertion percentage = 0.32% number of deletions = 8,916 mapped reads with deletion percentage = 1.08% homopolymer indels = 43.55% >>>>>>> Coverage mean coverageData = 0.0153X std coverageData = 0.1617X There is a 1.44% of reference with a coverageData >= 1X There is a 0.06% 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 5072491 0.020350966347241317 0.2742385959662613 chr2 243199373 4484228 0.018438485036719236 0.18628193602165455 chr3 198022430 2592984 0.013094395417731214 0.1194909946812719 chr4 191154276 2989443 0.015638902056263705 0.13439253333109183 chr5 180915260 2047574 0.011317862296414355 0.11182867146131889 chr6 171115067 3185729 0.018617466339185665 0.16935843843033885 chr7 159138663 2705540 0.01700114823762218 0.19823368050931658 chr8 146364022 2764622 0.018888671971586023 0.16547978455449575 chr9 141213431 1337145 0.009468964747411313 0.12442295775569831 chr10 135534747 2417470 0.01783653309213762 0.16522988779310535 chr11 135006516 1990053 0.01474042186230478 0.1528595203672877 chr12 133851895 2614574 0.01953333570660318 0.146536744088072 chr13 115169878 1299905 0.011286848806074102 0.11151958275996934 chr14 107349540 1088399 0.010138832453310933 0.10663608741763067 chr15 102531392 1328453 0.012956548956245517 0.12309657361990699 chr16 90354753 1566883 0.017341456292841617 0.14143525940505813 chr17 81195210 1139415 0.014033032244143467 0.14379075042343953 chr18 78077248 938759 0.012023464249149764 0.18358665444998884 chr19 59128983 1222683 0.020678234902162956 0.19402702624814436 chr20 63025520 1162889 0.018451081403215712 0.14225671353332972 chr21 48129895 687168 0.014277363372598257 0.12881456925157128 chr22 51304566 658307 0.01283135306124605 0.11735458337977944 chrMT 16571 13594 0.8203488021241929 1.0190443631916422 chrX 155270560 1984863 0.012783253953614904 0.1281327512983739 chrY 59373566 125739 0.002117760620947039 0.06079629816990383