Locus 5391

Sequence ID 3L_DroMel_CAF1
Location 14,806,237 – 14,806,352
Length 115
Max. P 0.535292
window8532

overview

Window 2

Location 14,806,237 – 14,806,352
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 84.08
Mean single sequence MFE -24.19
Consensus MFE -13.10
Energy contribution -16.02
Covariance contribution 2.92
Combinations/Pair 1.13
Mean z-score -2.29
Structure conservation index 0.54
SVM decision value 0.00
SVM RNA-class probability 0.535292
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14806237 115 + 23771897
GAAACAGUAGUAAAAACAACAAAAGUGACAAGAAAGUGCAGAAAAGUCAAGUCUUUCAACUAUCAGAUACUUACUAUCCUGUUGUGCUAUGCAGAAUUGCACAAAA-----UAUGAAUAU
..(((((((((((............(((.((((...(((......).))..)))))))............))))))..)))))((((.((.....)).))))....-----......... ( -17.05)
>DroSec_CAF1 41542 120 + 1
GAAACAGUAGUAAAAACAACAAAAGUGACAAGAAAGUUCAGAAAAGUCAAGUGUUUCAACUAUCAGAUACUUACUAUCCUGUUUUUCUAUGCUGAAUGGCACAAACAUUACAAUAAAUAU
......(((((...................((((((..(((...(((.((((((((........)))))))))))...))).)))))).((((....)))).....)))))......... ( -19.00)
>DroSim_CAF1 34421 120 + 1
GAAACAGUAGUAAGAACAACAAAAGUGACAAGGAAGUGCAGAAAAGUCAAGUGUUUCAACUAUCAGAUACUUACUACUCUGUUGUGCUAUGCAGAAUGGCACAAAAAUUACUGUAAAUAU
...((((((((..........................(((((..(((.((((((((........)))))))))))..)))))((((((((.....))))))))...))))))))...... ( -30.70)
>DroEre_CAF1 40902 118 + 1
GAAGCAGUAGUCAAAACAA--AAAGUGACAAGAAAGUGCAGGGAAGUCAAGUGUUCCAACUAACAGAUACUUACUACCCUGUUGUGCUAUAAAAACUGGCCCAAAACGUACUAUAACUAC
.....(((.((((......--....)))).....(((((((((.(((.(((((((..........)))))))))).)))).(((.((((.......)))).)))...)))))...))).. ( -25.20)
>DroYak_CAF1 44368 120 + 1
GAAACAGUAGUCAAAACAAAAAAAGUGACAAGAAAGCGCAGAAAAGUCAAGUGUUUCAACUAUGAGAUACUUACUAUCCUGUUGUGCUACAGGAAUGGGUCCAAAACUGACUAUAAAUAA
......(((((((.....................(((((((...(((.((((((((((....)))))))))))))......)))))))...(((.....))).....)))))))...... ( -29.00)
>consensus
GAAACAGUAGUAAAAACAACAAAAGUGACAAGAAAGUGCAGAAAAGUCAAGUGUUUCAACUAUCAGAUACUUACUAUCCUGUUGUGCUAUGCAGAAUGGCACAAAAAUUACUAUAAAUAU
......(((((((.........................(((.(.(((.((((((((........))))))))))).).)))(((((((((.....)))))))))...)))))))...... (-13.10 = -16.02 +   2.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:11 2006