Table 7.
Mapping of independent dataset to newly assembled cultivar specific reference transcriptome.
| Reference | Désirée | ITAG/PGSC | PGSC | Désirée | ITAG/PGSC | PGSC |
|---|---|---|---|---|---|---|
| Mapping statistics/Sample | SRR10416847 | SRR10416848 | ||||
| Number of input reads | 14,953,659 | 14,610,172 | ||||
| Average input read length | 252 | 252 | ||||
| UNIQUE READS: | ||||||
| Uniquely mapped reads#% | 74% | 69% | 71% | 73% | 67% | 69% |
| Average mapped length | 246 | 244 | 246 | 246 | 244 | 246 |
| Number of splices: Total | 123,490 | 104,658 | 159,842 | 127,414 | 110,423 | 165,595 |
| Number of splices: Non-canonical | 40,960 | 43,764 | 45,750 | 40,898 | 45,459 | 42,978 |
| Mismatch rate per base % | 0.75% | 0.94% | 1.00% | 0.74% | 0.93% | 1.00% |
| Deletion rate per base | 0.05% | 0.04% | 0.06% | 0.05% | 0.04% | 0.06% |
| Deletion average length | 3.42 | 3.46 | 2.88 | 3.41 | 3.47 | 2.89 |
| Insertion rate per base | 0.03% | 0.02% | 0.04% | 0.03% | 0.02% | 0.04% |
| Insertion average length | 2.21 | 2.99 | 2.52 | 2.24 | 3.00 | 2.53 |
| MULTI-MAPPING READS: | ||||||
| % of reads mapped to multiple loci# | 4.94% | 1.95% | 2.74% | 4.86% | 1.68% | 2.52% |
| % of reads mapped to too many loci | 0% | 0% | 0% | 0% | 0% | 0% |
| UNMAPPED READS: | ||||||
| % of reads unmapped: too many mismatches | 0% | 0% | 0% | 0% | 0% | 0% |
| % of reads unmapped: too short | 21% | 29% | 27% | 22% | 31% | 29% |
| % of reads unmapped: other | 0% | 0% | 0% | 0% | 0% | 0% |
| Mapping statistics/Sample | SRR10416849 | all samples | ||||
| Number of input reads | 14,755,430 | 44,319,261 | ||||
| Average input read length | 252 | 252 | ||||
| UNIQUE READS: | ||||||
| Uniquely mapped reads#% | 49% | 44% | 46% | 66% | 60% | 62% |
| Average mapped length | 245 | 243 | 246 | 246 | 244 | 246 |
| Number of splices: Total | 95,409 | 77,103 | 115,083 | 346,313 | 292,184 | 440,520 |
| Number of splices: Non-canonical | 33,269 | 31,224 | 31,065 | 115,127 | 120,447 | 119,793 |
| Mismatch rate per base % | 0.75% | 0.94% | 1.01% | 0.75% | 0.94% | 1.00% |
| Deletion rate per base | 0.06% | 0.05% | 0.07% | 0.05% | 0.05% | 0.06% |
| Deletion average length | 3.23 | 3.25 | 2.83 | 3.36 | 3.41 | 2.87 |
| Insertion rate per base | 0.03% | 0.03% | 0.04% | 0.03% | 0.02% | 0.04% |
| Insertion average length | 2.27 | 3.15 | 2.56 | 2.24 | 3.04 | 2.54 |
| MULTI-MAPPING READS: | ||||||
| % of reads mapped to multiple loci# | 3.60% | 1.19% | 1.94% | 4.47% | 1.61% | 2.40% |
| % of reads mapped to too many loci | 0% | 0% | 0% | 0% | 0% | 0% |
| UNMAPPED READS: | ||||||
| % of reads unmapped: too many mismatches | 0% | 0% | 0% | 0% | 0% | 0% |
| % of reads unmapped: too short | 47% | 55% | 52% | 30% | 38% | 36% |
| % of reads unmapped: other | 0% | 0% | 0% | 0% | 0% | 0% |
Mapping statistics for Désirée leaf samples under drought stress to Désirée, ITAG/PGSC merged and PGSC representative transcriptome sequences is shown.
RNA-seq data from Désirée leaf samples under drought stress retrieved from the GEO Series GSE140083 – “Transcriptome profiles of contrasting potato (Solanum tuberosum L.) genotypes under water stress”. No chimeric reads detected.
#Relevant % of mapped reads: % of uniquely mapped reads + % of reads mapped to multiple loci.