- MutationSurveyor $$$ program. 30 days demo available. MS3 has a limit of MS3 400 traces in a single project. GUI. Used in several diagnostic labs.
- InSNP windows only, ABI base calls? detects substitution and indel SNPs in sequencing traces
- PolyPhred [ref http://nar.oxfordjournals.org/cgi/content/full/25/14/2745] 1997 program, integrated with phred and Consed.
see (unchecked yet): PolyPhred tutorial