RNA-Seq QC report ----------------------------------- >>>>>>> Input bam file = SRX7354326.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) = 29,093,064 / 29,065,975 read pairs aligned = 29,059,926 total alignments = 61,777,241 secondary alignments = 3,618,202 non-unique alignments = 6,036,853 aligned to genes = 50,491,752 ambiguous alignments = 176,781 no feature assigned = 4,842,072 not aligned = 3,994,057 >>>>>>> Reads genomic origin exonic = 50,491,752 (91.25%) intronic = 2,819,118 (5.09%) intergenic = 2,022,954 (3.66%) overlapping exon = 1,790,650 (3.24%) >>>>>>> Transcript coverage profile 5' bias = 0.18 3' bias = 0.17 5'-3' bias = 1.99 >>>>>>> Junction analysis reads at junctions = 14,935,348 ACCT : 5.44% AGGT : 4.69% ATCT : 4.51% TCCT : 3.98% GCCT : 3.17% AGGA : 3.14% CCCT : 3.01% TTCT : 2.28% AGGC : 2.21% AGCT : 2.16% AGAA : 1.99%