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

data(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(local_score = 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(local_score = LS, sequence_length = nchar(Seq31),
       score_probabilities = prob2,
       sequence_min = min(SeqScore),
       sequence_max = max(SeqScore))

localScore documentation built on April 3, 2025, 5:26 p.m.