Table 4.
Example detailed output file. NovelSNPer generates the output file Output_detailed.txt with one line per variation per transcript.
| Name | Chr | Start | End | Allele | RefAllele | Codon | AA | refAA | Class | Transcript | Strand |
|---|---|---|---|---|---|---|---|---|---|---|---|
| var1 | 12 | 12483171 | 12483171 | C | G | GCS | Ala | Ala | SYNONYMOUS_CODING | ENST00000355566 | − 1 |
| var1 | 12 | 12483171 | 12483171 | C | G | GCS | Ala | Ala | SYNONYMOUS_CODING | ENST00000396349 | − 1 |
| var2 | 12 | 12483200 | 12483200 | G | T | MAA | Gln | Lys | NON_SYNONYMOUS_CODING | ENST00000355566 | − 1 |
| var2 | 12 | 12483200 | 12483200 | G | T | MAA | Gln | Lys | NON_SYNONYMOUS_CODING | ENST00000396349 | − 1 |
| var3 | 12 | 12506184 | 12506184 | T | — | NA | NA | NA | DOWNSTREAM | LOH12CR2 | − 1 |
| var4 | 12 | 12527105 | 12527108 | GATT | TTAG | NA | NA | NA | INTRONIC | ENST00000298571 | 1 |
| var4 | 12 | 12527105 | 12527108 | GATT | TTAG | NA | NA | NA | INTRONIC | ENST00000314565 | 1 |
| var5 | 12 | 12550471 | 12550471 | A/G | T | NA | NA | NA | INTRONIC | ENST00000298571 | 1 |
| var5 | 12 | 12550471 | 12550471 | A/G | T | NA | NA | NA | INTRONIC | ENST00000314565 | 1 |
| var6 | 12 | 12588583 | 12588583 | A | C | TMC | Tyr | Ser | NON_SYNONYMOUS_CODING | ENST00000298571 | 1 |
| var6 | 12 | 12588583 | 12588583 | A | C | TMC | Tyr | Ser | NON_SYNONYMOUS_CODING | ENST00000314565 | 1 |
| var7 | 12 | 12588586 | 12588587 | — | CA | C[-/CA]A | Cis | ProThr | FRAMESHIFT | ENST00000298571 | 1 |
| var7 | 12 | 12588586 | 12588587 | — | CA | C[-/CA]A | Cis | ProThr | FRAMESHIFT | ENST00000314565 | 1 |