RNA-Seq QC report ----------------------------------- >>>>>>> Input bam file = SRX7354214.markdup.sorted.bam gff file = gencode.v44.annotation_genes_collapsed_only_patched_ERCC92.gtf counting algorithm = uniquely-mapped-reads protocol = strand-specific-reverse 5'-3' bias region size = 100 5'-3' bias number of top transcripts = 1000 >>>>>>> Reads alignment reads aligned (left/right) = 38,645,621 / 38,633,136 read pairs aligned = 38,630,238 total alignments = 82,519,718 secondary alignments = 5,240,961 non-unique alignments = 8,492,067 aligned to genes = 65,131,153 ambiguous alignments = 205,688 no feature assigned = 8,281,375 not aligned = 910,395 >>>>>>> Reads genomic origin exonic = 65,131,153 (88.72%) intronic = 5,993,149 (8.16%) intergenic = 2,288,226 (3.12%) overlapping exon = 2,199,483 (3%) >>>>>>> Transcript coverage profile 5' bias = 0.39 3' bias = 0.17 5'-3' bias = 1.87 >>>>>>> Junction analysis reads at junctions = 22,694,642 ACCT : 5.06% AGGT : 4.99% AGGA : 3.94% TCCT : 3.68% ATCT : 3.43% AGCT : 2.95% GCCT : 2.43% AGAT : 2.35% AGGC : 2.35% CCCT : 2.21% TTCT : 2.04%