BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524647.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 = 1,210,932 number of mapped reads = 1,122,955 (92.73%) number of supplementary alignments = 4,868 (0.4%) number of secondary alignments = 0 number of mapped bases = 65,493,887 bp number of sequenced bases = 65,472,007 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 47,825 duplication rate = 3.34% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.7912 >>>>>>> ACTG content number of A's = 16,019,102 bp (24.47%) number of C's = 12,883,386 bp (19.68%) number of T's = 20,472,440 bp (31.27%) number of G's = 16,096,553 bp (24.59%) number of N's = 526 bp (0%) GC percentage = 44.26% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 328,469 number of insertions = 4,083 mapped reads with insertion percentage = 0.36% number of deletions = 12,927 mapped reads with deletion percentage = 1.14% homopolymer indels = 43.28% >>>>>>> Coverage mean coverageData = 0.0212X std coverageData = 0.213X There is a 1.9% of reference with a coverageData >= 1X There is a 0.16% 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 6850273 0.027483474153510736 0.381644032554316 chr2 243199373 5789359 0.023804991470927846 0.2509637826910552 chr3 198022430 4343533 0.021934550545612434 0.16068246437464762 chr4 191154276 2961933 0.015494986886926871 0.1595340262197412 chr5 180915260 3991700 0.02206392097604149 0.16169489526625955 chr6 171115067 4165667 0.02434424433238249 0.17695647495891484 chr7 159138663 3925153 0.024664986660092775 0.245919448324059 chr8 146364022 5693428 0.038899095024868886 0.2815150935203444 chr9 141213431 2395759 0.016965517961248316 0.169587770120646 chr10 135534747 2871675 0.02118774014459923 0.22264572194439594 chr11 135006516 3297937 0.02442798390560645 0.19599120363888 chr12 133851895 2016757 0.015067078430230666 0.13903218392453762 chr13 115169878 1585749 0.013768782493630843 0.12940174620133885 chr14 107349540 1189451 0.011080168578272436 0.1168562918213137 chr15 102531392 1678955 0.016375033706750027 0.14004430221169845 chr16 90354753 1959221 0.0216836517720324 0.1679338885293826 chr17 81195210 1488119 0.018327669821902055 0.1525292454780896 chr18 78077248 1716272 0.021981717388399755 0.27300960339410113 chr19 59128983 1370592 0.02317969852449517 0.2711911289887847 chr20 63025520 1255208 0.019915869000366834 0.15752189981426212 chr21 48129895 593206 0.01232510480232712 0.14118032754039542 chr22 51304566 1256396 0.02448897043588674 0.17140521229956177 chrMT 16571 11792 0.7116046104640638 0.9750996805174836 chrX 155270560 2898376 0.01866661651764507 0.15878735933693136 chrY 59373566 187376 0.0031558825353356743 0.12357456210653965