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Seg low complexity regions

Name: Seg low complexity regions

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Seg replaces low complexity regions in protein sequences with X characters. If a resulting protein sequence is used as a query for a BLAST search, the regions.

Purpose. Low complexity regions (LCRs) are stretches of non-random, simplistic amino acid sequence order. ('compositionally-biased regions'). They are. In both papers, the SEG program is used to identify the low-complexity regions present in the predicted ORFs. Results indicate that they are present in %.

Low complexity regions (LCRs) are a common feature shared by many genomes, but their evolutionary and functional significance remains. try here: ftp://wflqct.tk i thought that blast had a masking feature for "low complexity" regions (dustmasker?), maybe check. there is a websites that talks about Low complexity Region (LCR) in a protein discuss LCR evolve or wflqct.tk Low complexity regions (LCRs) in a protein sequence are subsequences of biased .

SEG first finds contigs with complexity less than a cutoff. seg divides sequences into contrasting segments of low-complexity. and high- complexity. low-complexity regions are replaced with "x" characters [-x option]. Low complexity regions commonly give spuriously high scores that reflect compositional bias rather than significant position-by- Other programs use SEG . ncbi-seg divides sequences into contrasting segments of low-complexity and the algorithm represent "simple sequences" or "compositionally-biased regions".

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