| Name | PRRN |
|---|---|
| Aliases | None |
| Description | "PRRN is a multiple sequence alignment program by doubly nested randomized iterative method. PRRN accepts either nucleotide or protein sequences. PRRN repeatedly uses pairwise group-to-group alignment to improve the overall weighted sum-of-pairs score at each iterative step, where the pair weights are introduced to correct for uneven representations of the sequences to be aligned. The strategies of PRRN work most effectively for refining a crude alignment obtained by other more rapid methods, e.g. progressive alignment. (Summarized from the original site)" |
| Type | Tool |
| Main Institutes of management | "Graduate School of Informatics, Kyoto University " |
| Country of the Institute | Japan |
| URL of the site | http://www.genome.ist.i.kyoto-u.ac.jp/~aln_user/prrn/index.html |
| Interface | "CUI (Character User Interface), Web" |
| Input | Amino acid sequence(FASTA format) |
| Output | Alignment(Text) |
| Input example | Under investigation |
| Keyword |
multiple alingment
|
| Amount of the all data for download（Mbyte） | Method to obtain the all data. | 1.3|Available at the top page. |
| External resources (databases) in building the product. | None |
| Data type | "DNA, amino acid sequences" |
| Biological species in the main concern |
All species
|
| Conditions of use | Under investigation |
| Frequency of updates (in last two years) | 1 |
| Last date of updates (date of confirmation) | 2013/07/18 (2013/07/19) |
| Main IDs used in the products | Under investigation |
| How to make a link to get access to each IDs. | Under investigation |
| external databases to which this database/tool have links | Under investigation |
| Published papers (PubMed IDs) | pmid:1747779 | pmid:8324637 | pmid:7804871 | pmid:8590178 | pmid:8980688 | pmid:10463075 | pmid:17137519 | Gotoh, O. (1993) "Extraction of conserved or variable regions from a multiple sequence alignment." Proceedings of Genome Informatics Workshop IV, pp. 109-113. | Yamada, S., Gotoh, O., Yamana, H. (2008) "Improvement in speed and accuracy of multiple sequence alignment program PRIME." IPSJ Trans. Bioinformat., 1, 2-12. |