Input data and parameters
Input
| Analysis date: | Thu May 28 10:49:02 CST 2026 |
| BAM file: | /home/kyhan/test/rna-seq/yeast-standard-out/03_results/alignment/03_results/bam/WT_07.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: | 484,996 |
| Total number of alignments: | 562,987 |
| Number of secondary alignments: | 77,991 |
| Number of non-unique alignments: | 132,274 |
| Aligned to genes: | 352,258 |
| Ambiguous alignments: | 74,131 |
| No feature assigned: | 4,324 |
| Not aligned: | 15,004 |
| Strand specificity estimation (fwd/rev): | 0.51 / 0.49 |
Reads genomic origin
| Exonic: | 352,258 / 98.79% |
| Intronic: | 806 / 0.23% |
| Intergenic: | 3,518 / 0.99% |
| Intronic/intergenic overlapping exon: | 13,888 / 3.89% |
Transcript coverage profile
| 5' bias: | 0.29 |
| 3' bias: | 0.14 |
| 5'-3' bias: | 1.82 |
Junction analysis
| Reads at junctions: | 4,589 |
| TGCT | 4.25% |
| AGGT | 3.64% |
| TGGC | 3.46% |
| AAAT | 2.92% |
| CTGC | 2.83% |
| TCAC | 2.81% |
| ACCA | 2.75% |
| ACGT | 2.7% |
| CTCT | 2.53% |
| AGCA | 2.48% |
| AAGC | 2.33% |
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