Matt Gethers/CRI, Thailand/Specifications/pIs001/33.SEQ
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33.SEQ (pIs001.P1, T7_rev)
Base Number (Sequence File Annotation) = Contig Sequence File Annotation Number + 198 where 198 is the number of trimmed 5' bases.
Base Number (Vector NTI File Annotation) = 5967 - Contig Sequence File Annotation Number
| Base Number (Sequence File Annotation) | Base Number (Vector NTI Annotation) | Theoretical Base | Read Base | Notes |
| 213 | 5953 | C | T | I'm not sure a T should be here, but there's no sign of a C - problem |
| 236 | 5930 | C | N | Maybe a C - good |
| 284 | 5882 | C | N | Maybe a C - good |
| 294-295 | 5872 | C | Space | It would be a stretch to say there's a C there - problem |
| 320 | 5845 | C | N | Maybe a C - good |
Notes
Region of Interest (Vector NTI Annotation): 5318 - 6121 (ATG to TGA)
Lots of truncated 5' and 3' bases - may want to redo alignment with less trimming/manual comparison. Considering the 198 trimmed 3' bases would allow me to complete the region between the forward and reverse primers (~50 bases between the two) while considering the 195 trimmed 5' bases would allow me to see the end of the ORF (~140 bases to end of ORF).
