Input data and parameters
Input
| Analysis date: | Thu May 28 10:49:08 CST 2026 |
| BAM file: | /home/kyhan/test/rna-seq/yeast-standard-out/03_results/alignment/03_results/bam/WT_08.sorted.bam |
| Counting algorithm: | uniquely-mapped-reads |
| GTF file: | /home/kyhan/test/rna-seq/yeast-standard-out/03_results/alignment_qc/00_inputs/genes.gtf |
| Number of bases for 5'-3' bias computation: | 100 |
| Number of transcripts for 5'-3' bias computation: | 1,000 |
| Paired-end sequencing: | no |
| Protocol: | non-strand-specific |
| Sorting performed: | no |
Summary
Reads alignment
| Number of mapped reads: | 484,634 |
| Total number of alignments: | 568,530 |
| Number of secondary alignments: | 83,896 |
| Number of non-unique alignments: | 142,936 |
| Aligned to genes: | 343,871 |
| Ambiguous alignments: | 77,609 |
| No feature assigned: | 4,114 |
| Not aligned: | 15,366 |
| Strand specificity estimation (fwd/rev): | 0.52 / 0.48 |
Reads genomic origin
| Exonic: | 343,871 / 98.82% |
| Intronic: | 593 / 0.17% |
| Intergenic: | 3,521 / 1.01% |
| Intronic/intergenic overlapping exon: | 14,191 / 4.08% |
Transcript coverage profile
| 5' bias: | 0.31 |
| 3' bias: | 0.14 |
| 5'-3' bias: | 2.32 |
Junction analysis
| Reads at junctions: | 6,065 |
| ACCT | 4.15% |
| TGCT | 4.06% |
| TCAC | 3.76% |
| AAAT | 3.45% |
| AGGT | 3.05% |
| TGGC | 2.8% |
| ACCA | 2.69% |
| CTCT | 2.67% |
| AACC | 2.46% |
| AGCC | 2.44% |
| CTGC | 2.44% |
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