BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524421.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 = 574,405 number of mapped reads = 526,244 (91.62%) number of supplementary alignments = 2,413 (0.42%) number of secondary alignments = 0 number of mapped bases = 30,686,405 bp number of sequenced bases = 30,677,129 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 12,377 duplication rate = 1.78% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.283 >>>>>>> ACTG content number of A's = 7,330,185 bp (23.89%) number of C's = 6,440,787 bp (21%) number of T's = 9,697,467 bp (31.61%) number of G's = 7,205,596 bp (23.49%) number of N's = 3,094 bp (0.01%) GC percentage = 44.48% >>>>>>> Mismatches and indels general error rate = 0.0054 number of mismatches = 160,436 number of insertions = 2,064 mapped reads with insertion percentage = 0.39% number of deletions = 5,912 mapped reads with deletion percentage = 1.12% homopolymer indels = 42.08% >>>>>>> Coverage mean coverageData = 0.0099X std coverageData = 0.1287X There is a 0.93% 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 2558734 0.010265707622850817 0.2157880946893254 chr2 243199373 2469908 0.010155897893700572 0.15725647206991752 chr3 198022430 2052133 0.010363134115665584 0.10611752270244568 chr4 191154276 2010518 0.01051777675117244 0.11817575016430751 chr5 180915260 1859548 0.010278558038719342 0.10531783220631435 chr6 171115067 1192688 0.006970093405041883 0.089915386733824 chr7 159138663 1745677 0.01096953416028134 0.14989277279331206 chr8 146364022 1595857 0.010903342079517328 0.11596080528876174 chr9 141213431 1135564 0.008041473052233962 0.10064947948235466 chr10 135534747 1544548 0.011395955901994638 0.13704454402494423 chr11 135006516 1271712 0.009419634234543168 0.10906032513444028 chr12 133851895 1433798 0.010711824438495996 0.10860355664778026 chr13 115169878 973120 0.008449431543202641 0.09575261216866211 chr14 107349540 856071 0.007974612653207456 0.09477892826773104 chr15 102531392 934764 0.009116856620848374 0.09943661186494755 chr16 90354753 981381 0.010861420870687345 0.11117406480893462 chr17 81195210 891637 0.010981399025878497 0.11229370781874633 chr18 78077248 840097 0.010759818276381873 0.1456765320336466 chr19 59128983 951083 0.01608488683121778 0.17000588295295446 chr20 63025520 884288 0.014030633940029373 0.1269734606809465 chr21 48129895 413547 0.008592310454863864 0.10390650045180372 chr22 51304566 231012 0.00450275712302098 0.0703567617630128 chrMT 16571 6311 0.38084605636352664 0.7036839592420634 chrX 155270560 1743571 0.01122924397258566 0.1137208781285331 chrY 59373566 108838 0.001833105325019555 0.07268808742351965