Foldalign: RNA Structure and Sequence Alignment

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https://rth.dk/resources/foldalign/suite/1112125610480743414


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Comparison_type: local
Delta: 25
Gap_elongation_cost: -55
Gap_opening_cost: -110
Id:
Lambda: 1000
Maximum_number_of_structures: 5
email:
with the following data: data.dat


Your results

Alignment of V00158_694-623 against AC069454_82192-82263

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Download the results: foldalign.1112125610480743414.tar.gz
ID:

Score = 1188. NS score = 1411. Alignment length = 234
Identity = 0.40 ( 93 / 234 ). Number of base-pairs = 57

SequenceStartEnd
V00158_694-62356282
AC069454_82192-82263174404

V00158_694-62     56 GUCGUCGGUU CGAAUCCGAC AAAAGGCUUG UGUGCAGAUG
Structure            ((((((.... .))...)))) ((..(((... ...((.....
AC069454_8219    174 GCCGCCCGUG GGGCCCCGGU CCAGGGCCCA GUCCCUCAAA


V00158_694-62     96 UA-GCUCAGU GGUAGAGCGC AACCUUGCCA AGGUUGAUGC
Structure            ...))..... (((((.(((( (((....... ..)))).)))
AC069454_8219    214 CACGGACACC GCUGCCGCUC UGGAAAGGCC GCCCAG-AGC


V00158_694-62    135 CAUGGGUUCG AGUCC-CA-- -UUAUCUGCU UAUAGAUUUU
Structure            ..((((.... ...)).)).. .))))).))) ....(((((.
AC069454_8219    253 CCUCCUAGCU UGAGGAGACU CGCGGCCGCC UUAAGAAGCC


V00158_694-62    171 AG--GGCGGA GUAGAGCAGU CAGGUAGCUC GCAGGGCUCA
Structure            ....(((((( (..((((... ......)))) .(((((....
AC069454_8219    293 AGCAGGUCCC AUGGUGUAAU -GGUUAGCAC UCUGGACUUU


V00158_694-62    209 UAAUCCUGAA GUCAGAGGUU CAAAUCCUUU CUCCGCUACA
Structure            ...))))).. ...(((((.. .....))))) )))))))...
AC069454_8219    332 GAAUCCAGCG AU-CCGAGUU CAAAUCUCGG UGGGACCUCA


V00158_694-62    249 UCAAUUUUUG CAUAUUUCAA AUAAAUAAAU UUUA
Structure            ...((..... ...))..... ......)))) ))).
AC069454_8219    371 CGAGACUUUU UGGUCCUACA AUUCCUGUUU UGGA



Please cite:

Foldalign 2.5: multithreaded implementation for pairwise structural RNA alignment

Sundfeld D, Havgaard JH, de Melo AC, Gorodkin J* Bioinformatics. 2016 Apr 15;32(8):1238-40. Epub 2015 Dec 24
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