Author: Theis, Corinna; Reeder, Jens; Giegerich, Robert
Title: KnotInFrame: prediction of -1 ribosomal frameshift events Document date: 2008_9_27
ID: 4ov0j2u3_24
Snippet: Scanning for slippery sites. A forward scan of s yields a set P of putative slippery sites. P may be quite large, as the significance of the slippery motif is moderate-on a sequence with 50% GC content we expect about 8.8 occurrences per kilobase pair. P is reduced by ISF, the inframe stopcodon filter. The reduction of P is realized by scanning backwards from each p 2 P, discarding p if an inframe stop codon is found before a start codon has been.....
Document: Scanning for slippery sites. A forward scan of s yields a set P of putative slippery sites. P may be quite large, as the significance of the slippery motif is moderate-on a sequence with 50% GC content we expect about 8.8 occurrences per kilobase pair. P is reduced by ISF, the inframe stopcodon filter. The reduction of P is realized by scanning backwards from each p 2 P, discarding p if an inframe stop codon is found before a start codon has been seen. Also, p is discarded if too close to the end of the sequence to accommodate the pseudoknot.
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