BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524588.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 = 1,226,624 number of mapped reads = 1,112,115 (90.66%) number of supplementary alignments = 3,598 (0.29%) number of secondary alignments = 0 number of mapped bases = 64,049,734 bp number of sequenced bases = 64,032,565 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 25,450 duplication rate = 1.53% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.1181 >>>>>>> ACTG content number of A's = 16,715,177 bp (26.1%) number of C's = 11,940,564 bp (18.65%) number of T's = 20,544,551 bp (32.08%) number of G's = 14,830,397 bp (23.16%) number of N's = 1,876 bp (0%) GC percentage = 41.81% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 306,698 number of insertions = 4,444 mapped reads with insertion percentage = 0.4% number of deletions = 10,354 mapped reads with deletion percentage = 0.92% homopolymer indels = 42.32% >>>>>>> Coverage mean coverageData = 0.0207X std coverageData = 0.2088X There is a 1.91% of reference with a coverageData >= 1X There is a 0.11% 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 4618423 0.018529233674406773 0.3368079271216532 chr2 243199373 5392205 0.022171952721276134 0.22564812121508426 chr3 198022430 3906523 0.01972767933410372 0.14762562992157033 chr4 191154276 4010606 0.02098099024475916 0.165823879100524 chr5 180915260 3472041 0.019191531991275917 0.14701414808714233 chr6 171115067 3442321 0.020116995308192234 0.16034917928370715 chr7 159138663 4155240 0.026110813812731355 0.28231096410671286 chr8 146364022 2829204 0.019329914287269313 0.19383248807948586 chr9 141213431 2976248 0.021076238845864455 0.21836795440342538 chr10 135534747 2464839 0.01818603018456957 0.19843613734228938 chr11 135006516 2302799 0.017056947088390905 0.17432420437741353 chr12 133851895 4376059 0.032693291342644044 0.21022472232253203 chr13 115169878 2467889 0.02142825053613411 0.15419104745540804 chr14 107349540 2348309 0.021875352237187045 0.16514183337446095 chr15 102531392 1633897 0.01593557805203698 0.13298543314131958 chr16 90354753 1799484 0.01991576469696066 0.15680689503413997 chr17 81195210 1878726 0.023138384641162947 0.16535706953144666 chr18 78077248 2065181 0.02645048401296111 0.37762390029640097 chr19 59128983 1030949 0.017435594994082683 0.2513676336308251 chr20 63025520 1871890 0.029700508619365615 0.18638166763367736 chr21 48129895 782060 0.01624894465279843 0.14647322527425655 chr22 51304566 604457 0.011781738880707032 0.1138941766461917 chrMT 16571 7789 0.4700380182246093 0.7141708916791458 chrX 155270560 3432803 0.022108524629524104 0.1791167662639265 chrY 59373566 179792 0.0030281489240514877 0.08152159869513824