BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524787.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 = 1,152,321 number of mapped reads = 1,038,376 (90.11%) number of supplementary alignments = 3,967 (0.34%) number of secondary alignments = 0 number of mapped bases = 58,498,415 bp number of sequenced bases = 58,480,279 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 36,868 duplication rate = 2.75% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.2339 >>>>>>> ACTG content number of A's = 14,366,672 bp (24.57%) number of C's = 10,593,115 bp (18.11%) number of T's = 19,262,355 bp (32.94%) number of G's = 14,251,774 bp (24.37%) number of N's = 6,363 bp (0.01%) GC percentage = 42.48% >>>>>>> Mismatches and indels general error rate = 0.0053 number of mismatches = 299,429 number of insertions = 4,279 mapped reads with insertion percentage = 0.41% number of deletions = 11,246 mapped reads with deletion percentage = 1.08% homopolymer indels = 42.67% >>>>>>> Coverage mean coverageData = 0.0189X std coverageData = 0.1887X There is a 1.72% of reference with a coverageData >= 1X There is a 0.12% of reference with a coverageData >= 2X There is a 0.02% of reference with a coverageData >= 3X There is a 0.01% 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 4689714 0.01881525502799048 0.2317503495022162 chr2 243199373 4940619 0.02031509760512417 0.30349851206855166 chr3 198022430 3914615 0.019768543391776375 0.1530988156315329 chr4 191154276 3763290 0.019687187117906794 0.16704524131742232 chr5 180915260 3447138 0.019053881911343464 0.148679958840295 chr6 171115067 3333777 0.01948266192129066 0.16534112103551066 chr7 159138663 3188041 0.020033101572557513 0.20870404733998277 chr8 146364022 2896616 0.01979049195573486 0.1769908816371438 chr9 141213431 2465431 0.017458898792707615 0.1661972267381347 chr10 135534747 2816177 0.020778265812529978 0.22409506141674476 chr11 135006516 2641519 0.01956586302841857 0.1698572754398575 chr12 133851895 2661124 0.019881108145685947 0.1542099576900682 chr13 115169878 1822636 0.0158256310734305 0.13682659943175576 chr14 107349540 1793922 0.01671103574360915 0.14237909390978876 chr15 102531392 1692666 0.016508758605364493 0.14221949398314362 chr16 90354753 1742517 0.01928528319921366 0.16349830804762386 chr17 81195210 1637990 0.02017348067700053 0.16023032269402898 chr18 78077248 1514585 0.01939854488723783 0.23818038051378895 chr19 59128983 1267394 0.021434395379335378 0.20850415907602157 chr20 63025520 1268094 0.020120325861650964 0.1609642150015749 chr21 48129895 771646 0.01603257185580812 0.14556549630255575 chr22 51304566 732376 0.014275064718411223 0.13035727764307106 chrMT 16571 15788 0.9527487779856375 1.0710672151510179 chrX 155270560 3278374 0.02111394458807903 0.16710083804700876 chrY 59373566 202366 0.0034083517907615656 0.1024501262911099