Locus 5566

Sequence ID 3R_DroMel_CAF1
Location 14,722,629 – 14,722,722
Length 93
Max. P 0.534209
window9073

overview

Window 3

Location 14,722,629 – 14,722,722
Length 93
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 69.90
Mean single sequence MFE -31.00
Consensus MFE -9.37
Energy contribution -10.35
Covariance contribution 0.97
Combinations/Pair 1.20
Mean z-score -1.93
Structure conservation index 0.30
SVM decision value 0.00
SVM RNA-class probability 0.534209
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14722629 93 - 27905053
GGUUGGGUGGUGGUUGAAUGGCCUG--------GGUGGUGCAAAGCGGGUUAGA----------UG----CCGGACAGAAGUGUGGCUCUGGCACUGCAUUGUUGUUUUAAUUAA
(.(..(((.((......)).)))..--------).)...((((.((((((((((----------.(----(((.((....)).)))))))))).)))).))))............ ( -31.70)
>DroPse_CAF1 131313 101 - 1
GCCUGGCUGGUGGCAGAGGGGA-GU--------GGCGGUAC-----AGGUUAGAGCGGACGACCGGACGACCGGACGGAAGUGUGGCACUGGCAUUGCAUUGUUGUUUUAAUUAA
(((........))).((..(((-(.--------.(((((.(-----(((((((.((.(((..(((..(....)..)))..)).).)).))))).))).)))))..))))..)).. ( -31.40)
>DroSec_CAF1 141157 99 - 1
GGUUGGGUGG--CUUGGGUGGCUUGGGUGGUUCGGUGGUGCAAAGCGCGUUAGA----------UG----CCGGACGGAAGUGUGGCUCUGGCACUGCAUUGUUGUUUUAAUUAA
..(..(((.(--(....)).)))..).(((..(((..(((((....(.((((((----------.(----(((.((....)).)))))))))).))))))..)))..)))..... ( -35.90)
>DroSim_CAF1 147016 90 - 1
GGUUGGGUGG--CUUGGGUG---------GCUCGGUGGUGCAAAGCGGGUUAGA----------UG----CCGGACGGAAGUGUGGCUUUGGCACUGCAUUGUUGUUUUAAUUAA
..((((((.(--(....)).---------))))))....((((.((((((((((----------.(----(((.((....)).)))))))))).)))).))))............ ( -32.50)
>DroYak_CAF1 147636 81 - 1
GGUUGGGUGG--U----------UUGG--------UGGUGCACAGCGGGUUAGA----------UG----CCGGACGGAAGUGUGGCUCUGGCACUGCAUUGUUGUUUUAAUUAA
.......(((--(----------(...--------....(((..((((((((((----------.(----(((.((....)).)))))))))).))))..)))......))))). ( -26.82)
>DroPer_CAF1 133835 97 - 1
GCCCGGCUGGUGGAAGAGGGGA-GU--------GGCGGGAC-----AGGUUAGAGCGGACGACCGGAC----GGACGGAAGUGUGGCACUGGCAUUGCAUUGUUGUUUUAAUUAA
.(((..((......)).)))((-(.--------.((((..(-----(((((((.((.(((..(((...----...)))..)).).)).))))).)))..))))..)))....... ( -27.70)
>consensus
GGUUGGGUGG__GUUGAGUGG__UU________GGUGGUGCAAAGCGGGUUAGA__________UG____CCGGACGGAAGUGUGGCUCUGGCACUGCAUUGUUGUUUUAAUUAA
............................................((((((((((................(((.((....)).))).)))))).))))................. ( -9.37 = -10.35 +   0.97)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:14 2006