BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524713.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 = 531,926 number of mapped reads = 492,356 (92.56%) number of supplementary alignments = 1,885 (0.35%) number of secondary alignments = 0 number of mapped bases = 29,504,919 bp number of sequenced bases = 29,495,994 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 9,930 duplication rate = 1.44% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.2594 >>>>>>> ACTG content number of A's = 7,629,531 bp (25.87%) number of C's = 5,569,547 bp (18.88%) number of T's = 9,393,323 bp (31.85%) number of G's = 6,899,669 bp (23.39%) number of N's = 3,924 bp (0.01%) GC percentage = 42.27% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 145,925 number of insertions = 2,226 mapped reads with insertion percentage = 0.45% number of deletions = 5,443 mapped reads with deletion percentage = 1.1% homopolymer indels = 42.98% >>>>>>> Coverage mean coverageData = 0.0095X std coverageData = 0.1283X There is a 0.91% of reference with a coverageData >= 1X There is a 0.03% 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 2406185 0.009653677051420466 0.21548942098674445 chr2 243199373 2530684 0.010405799853768537 0.14750716912011405 chr3 198022430 2041792 0.010310912758721322 0.10457646000922906 chr4 191154276 2025302 0.010595117422327502 0.1111449420602015 chr5 180915260 1858109 0.01027060403859796 0.10551327470111582 chr6 171115067 1758137 0.010274589086886195 0.10984042836583563 chr7 159138663 1674470 0.01052208161381876 0.14437863320513428 chr8 146364022 1556169 0.010632182545516547 0.1416512251620494 chr9 141213431 1246149 0.008824578449623534 0.10932476776920245 chr10 135534747 1460305 0.01077439573484429 0.13448495774664282 chr11 135006516 1393428 0.01032119071941683 0.11959022161859442 chr12 133851895 1358335 0.010148044598098517 0.10443765138460055 chr13 115169878 952738 0.008272458185637741 0.09424730233455252 chr14 107349540 920399 0.008573851364430625 0.09687773162977274 chr15 102531392 851103 0.008300901639958228 0.09387915588269324 chr16 90354753 874860 0.009682501151876315 0.10497178474076094 chr17 81195210 769551 0.009477788160163635 0.10270857935159282 chr18 78077248 808374 0.010353515533744221 0.17250636096020372 chr19 59128983 602213 0.010184734616524692 0.1626489949681051 chr20 63025520 628444 0.00997126243464552 0.1033455084105644 chr21 48129895 399047 0.008291042396830494 0.10185650051438006 chr22 51304566 333703 0.00650435284843848 0.08386288847900232 chrMT 16571 2231 0.1346327922273852 0.35693367981155255 chrX 155270560 962152 0.006196615765409747 0.08547910444987991 chrY 59373566 91039 0.0015333254532833686 0.07525638020955909