BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524460.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 = 575,215 number of mapped reads = 533,651 (92.77%) number of supplementary alignments = 1,283 (0.22%) number of secondary alignments = 0 number of mapped bases = 31,166,417 bp number of sequenced bases = 31,157,159 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 12,468 duplication rate = 1.87% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.5065 >>>>>>> ACTG content number of A's = 7,444,182 bp (23.89%) number of C's = 5,561,262 bp (17.85%) number of T's = 10,239,042 bp (32.86%) number of G's = 7,911,975 bp (25.39%) number of N's = 698 bp (0%) GC percentage = 43.24% >>>>>>> Mismatches and indels general error rate = 0.0047 number of mismatches = 142,965 number of insertions = 2,039 mapped reads with insertion percentage = 0.38% number of deletions = 5,442 mapped reads with deletion percentage = 1.01% homopolymer indels = 42.01% >>>>>>> Coverage mean coverageData = 0.0101X std coverageData = 0.1239X There is a 0.95% 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 3069313 0.012314163903326845 0.19276954874661953 chr2 243199373 2467412 0.010145634709346063 0.1287140190503455 chr3 198022430 1731018 0.008741524886852464 0.09771123234246891 chr4 191154276 1803926 0.009437016203603 0.10611346547181681 chr5 180915260 1700319 0.009398427750096925 0.101520422355192 chr6 171115067 1360522 0.007950918781453651 0.10185062692006035 chr7 159138663 1548460 0.009730256436803168 0.151701038914933 chr8 146364022 2888221 0.01973313496400092 0.15454266975136183 chr9 141213431 1280349 0.009066765044466627 0.11214159730175924 chr10 135534747 1614857 0.011914708484312145 0.1301465546480775 chr11 135006516 1030272 0.007631276108184289 0.11205556642643326 chr12 133851895 1423586 0.010635531159271223 0.10745434384483775 chr13 115169878 678002 0.0058869733282169495 0.0798963385997175 chr14 107349540 740399 0.006897085912058868 0.08742922010214203 chr15 102531392 833589 0.008130085661959998 0.09482719172880744 chr16 90354753 985557 0.010907638693893613 0.1112252518879766 chr17 81195210 1087781 0.013397108031372786 0.12289082664738765 chr18 78077248 711207 0.009109017264542931 0.14939199580625426 chr19 59128983 643695 0.010886285664679874 0.14668746129943427 chr20 63025520 900669 0.014290544528629039 0.12555028427845946 chr21 48129895 423451 0.008798086927054381 0.10032590002364687 chr22 51304566 237191 0.004623194746448104 0.07087287788067066 chrMT 16571 17454 1.0532858608412285 1.2145216998429587 chrX 155270560 1893955 0.01219777271364256 0.12042996952182258 chrY 59373566 95212 0.0016036092560113367 0.05192906636334193