BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524352.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 = 2,209,065 number of mapped reads = 2,019,510 (91.42%) number of supplementary alignments = 10,683 (0.48%) number of secondary alignments = 0 number of mapped bases = 118,518,260 bp number of sequenced bases = 118,485,820 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 116,561 duplication rate = 4.31% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.1548 >>>>>>> ACTG content number of A's = 30,176,052 bp (25.47%) number of C's = 20,619,260 bp (17.4%) number of T's = 37,731,639 bp (31.84%) number of G's = 29,942,608 bp (25.27%) number of N's = 16,261 bp (0.01%) GC percentage = 42.67% >>>>>>> Mismatches and indels general error rate = 0.0053 number of mismatches = 605,516 number of insertions = 8,619 mapped reads with insertion percentage = 0.42% number of deletions = 20,376 mapped reads with deletion percentage = 1% homopolymer indels = 42.18% >>>>>>> Coverage mean coverageData = 0.0383X std coverageData = 0.3647X There is a 3.28% of reference with a coverageData >= 1X There is a 0.39% of reference with a coverageData >= 2X There is a 0.06% of reference with a coverageData >= 3X There is a 0.02% of reference with a coverageData >= 4X There is a 0.01% of reference with a coverageData >= 5X There is a 0.01% 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 9507821 0.03814562612463862 0.7095951190317307 chr2 243199373 9989931 0.0410771248164361 0.47035012784180813 chr3 198022430 7741545 0.03909428341021772 0.2254745763307302 chr4 191154276 7456911 0.0390099094618213 0.2755216198093613 chr5 180915260 7127051 0.03939441592710311 0.22650999291931728 chr6 171115067 6839782 0.039971827846112466 0.2517896593902601 chr7 159138663 6453253 0.04055113244227771 0.4514898450309726 chr8 146364022 6196421 0.0423356841068497 0.33708723958878134 chr9 141213431 4886309 0.03460229643453674 0.2950839980919284 chr10 135534747 5647683 0.04166963177346692 0.36457346677760843 chr11 135006516 5404813 0.040033719557654536 0.309787059508448 chr12 133851895 5391849 0.04028220145855985 0.23658486023787198 chr13 115169878 3637733 0.0315858023223746 0.20142460425310085 chr14 107349540 3603384 0.03356683223793972 0.2292323794547514 chr15 102531392 3465917 0.033803471623597973 0.2096124881523323 chr16 90354753 3523813 0.03899975245353169 0.24566440885084528 chr17 81195210 3301837 0.040665416100284735 0.25443637831955573 chr18 78077248 3096478 0.03965915909331231 0.5948274875118474 chr19 59128983 2544114 0.043026513748765136 0.4583470133842965 chr20 63025520 2599162 0.04123983427665492 0.24154037052183447 chr21 48129895 1576993 0.032765353009808144 0.24590096670645675 chr22 51304566 1506943 0.02937249288883956 0.1972745269066765 chrMT 16571 12639 0.7627180013276206 1.0037219820371373 chrX 155270560 6594250 0.04246941596655541 0.26801944172698533 chrY 59373566 411628 0.006932849544526263 0.20391021720669017