Ask questions about sequence improvement / finishing D. mojavensis projects here.
3 posts • Page 1 of 1
- Posts: 67
- Joined: Sun Feb 04, 2007 10:23 pm
- Location: California Lutheran University, Thousand Oaks, CA
For 1774P12, there are two contigs with a gap estimated to be 300 bp, but all of the reads appear to be consistent. However, the restriction digests are consistently off at each end of the fosmid. Any suggestions?
- 1774P12-problemAV.JPG (52.66 KiB) Viewed 2931 times
- Restriction digest
- 1774P12-problem.JPG (75.38 KiB) Viewed 2931 times
I believe the discrepancies are caused by multiple misassemblies in the assembly pieces. After removing the assembly pieces, incorporating all the reaction results and additional gap traces, and re-running phredPhrap, both the discrepancies at the fosmid ends and the gap appeared to be resolved.