Seq31: Short protein sequence

In localScore: Package for Sequence Analysis by Local Score

Short protein sequence

Description

A short protein sequence of 31 amino acids corresponding to Q09FU3.fasta query in UniProt Data base.

Usage

Seq31

Format

A character string with 31 characters "MLTITSYFGFLLAALTITSVLFIGLNKIRLI"

Source

https://www.uniprot.org/

Examples

data(Seq31)
Seq31
nchar(Seq31)
data(HydroScore) 
SeqScore=CharSequence2ScoreSequence(Seq31,HydroScore)
SeqScore
localScoreC(SeqScore)$localScore
LS=localScoreC(SeqScore)$localScore[1]
prob1 = scoreSequences2probabilityVector(list(SeqScore))
daudin(localScore = LS, sequence_length = nchar(Seq31),
               score_probabilities = prob1,
               sequence_min = min(SeqScore),
               sequence_max = max(SeqScore))
score=-5:5
prob2=c(0.15,0.15,0.1,0.1,0.0,0.05,0.15,0.05,0.2,0.0,0.05)
sum(prob2*score)
karlin(localScore = LS, sequence_length = nchar(Seq31),
score_probabilities = prob2,
sequence_min = min(SeqScore),
sequence_max = max(SeqScore))

localScore documentation built on Nov. 3, 2023, 1:08 a.m.