Words similar to pssm

Example sentences for: pssm

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The PSSMs were prepared by choosing one or more starting queries (seeds) for a set of most frequently encountered domains (see [ 34] for details) and run against the NR database until convergence with the -C option of PSI-BLAST to save the PSSM.
MEME analyzes input sequences for similarities and produces a PSSM or motif for each pattern it discovers [ 30 ] . We set the parameters of MEME as follows: (i) zero or one occurrences of a single motif per sequence; (ii) five as the maximum number of motifs to identify; (iii) 5 to 25 nucleotides as the range of motif size; and (iv) both DNA strands as input.
E -values less than 7. Thus, the PSSM was very effective at discriminating between GshA and non-GshA sequences in the database.
We were able to align the canonical RSS nonamer and Sb with this PSSM.
MatDB, based on PEDANT analysis of Arabidopsis thaliana , provides structural annotations using SCOP domain position specific scoring matrix (PSSM) profiles.