Input data and parameters
Input
| Analysis date: | Thu May 28 10:48:51 CST 2026 |
| BAM file: | /home/kyhan/test/rna-seq/yeast-standard-out/03_results/alignment/03_results/bam/WT_05.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: | 484,508 |
| Total number of alignments: | 567,308 |
| Number of secondary alignments: | 82,800 |
| Number of non-unique alignments: | 139,442 |
| Aligned to genes: | 351,361 |
| Ambiguous alignments: | 71,781 |
| No feature assigned: | 4,724 |
| Not aligned: | 15,492 |
| Strand specificity estimation (fwd/rev): | 0.51 / 0.49 |
Reads genomic origin
| Exonic: | 351,361 / 98.67% |
| Intronic: | 642 / 0.18% |
| Intergenic: | 4,082 / 1.15% |
| Intronic/intergenic overlapping exon: | 13,256 / 3.72% |
Transcript coverage profile
| 5' bias: | 0.28 |
| 3' bias: | 0.14 |
| 5'-3' bias: | 1.93 |
Junction analysis
| Reads at junctions: | 3,999 |
| ACCT | 5.43% |
| CTCT | 3.98% |
| TGGC | 3.38% |
| ACCA | 3.05% |
| TGCT | 2.98% |
| AAAT | 2.68% |
| AGGT | 2.63% |
| AGAA | 2.45% |
| AGCC | 2.4% |
| ACTA | 2.33% |
| CTGC | 2.1% |
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