Search Results for "repeat"

AAARF, written in PERL and with numerous adjustable parameters, identifies sequence overlaps in small shotgun sequence datasets and walks them out to create long pseudomolecules representing the most abundant repeats in a genome.

primeScaff is intended to automate the sometimes tedious process of manually designing specific primer pairs around gaps of genomic scaffolds and speedup the genome finishing stage of a genome sequencing project. It incorporates de-novo repeat finding using RECON to avoid as much as possible designing primers in repetitive regions and offers the possibility to easily fine-tune the primer design options using primer3. It outputs the repeat, gap and primer annotations in gff2 and gff3 to easily...

FetchYahoo is a Perl script that downloads mail from a Yahoo! account to a local mail spool. It downloads all parts and attachments and then deletes messages unless requested not to. It can also forward messages and repeat with a given interval.

Primer prediction from alignments and consensus sequences. easyPAC applies all standard quality tests to degenerate primer and primer pairs and optionally maps all primer candidates to an arbitrary number of reference files like repeat databases or genomes to ensure target specifity.

mjuza is Library Manager which use MPlayer for playing music. But mjuza have more Options like "Smart Shuffle", "Ignore List", "Repeat List" and so more that help your computer to choose song for you. You can controll mjuza over network. This is CLI.

CollagenFinder (CF) is a software tool for searching CLP sequences in the given nucleotide sequence. CF scans nucleotide sequence in all six possible reading frames. The additional filter procedures provide more accurate CLP prediction: - detecting for a tryptophan residue and stop-codons and removing corresponding CLPs, - cutoff value by GXY repeat number. If we need CLP with length 36 and more we should use cutoff value equal to 4.

pal_finder is a perl script that finds microsatellite repeat elements directly from raw 454 or Illumina paired-end sequencing reads. It then designs PCR primers to amplify these repeat loci (Potentially Amplifiable Loci: PAL).

MUMmer is a modular system for the rapid whole genome alignment of finished or draft sequence. This package provides an efficient suffix tree library, seed-and-extend alignment, SNP detection, repeat detection, and visualization tools.

RIPCAL is a bioinformatics tool for the analysis of repeat-induced point mutation (RIP) of fungi. If you publish work using RIPCAL please cite: Hane & Oliver, BMC Bioinformatics 2008, 9:478

Whole-genome scale multiple genome local alignment search program. Supports unlimited length gapped-seed patterns, parallelization through distributed hashing, and unique a TF-IDF based repeat filtering method.

autorip is a non-interactive, non-intrusive mp3 rip-and-encode front end. Simply drop your CD into your CD-ROM drive, wait for your CD to eject, wash, rinse, and repeat.