Locus 44

Sequence ID 2R_DroMel_CAF1
Location 1,290,896 – 1,291,014
Length 118
Max. P 0.613456
window80

overview

Window 0

Location 1,290,896 – 1,291,014
Length 118
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 84.85
Mean single sequence MFE -22.35
Consensus MFE -15.11
Energy contribution -15.80
Covariance contribution 0.69
Combinations/Pair 1.10
Mean z-score -1.66
Structure conservation index 0.68
SVM decision value 0.16
SVM RNA-class probability 0.613456
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1290896 118 + 20766785
AAAUUAAGUCGACGUUAUCUACACUUUUGUGCUCGCGAACGUGAUUAUAAACACAACUCGAAGACUAAAAGGUAAUCUUUAAAAAUAAGGUUCAAGAUAACGUUUCUGGCGCUAUA--AA
.......(((((((((((((.(((....))).....(((((((........))).....(((((.((.....)).))))).........)))).))))))))))...)))......--.. ( -23.50)
>DroSec_CAF1 20061 120 + 1
AAAUUAAGUCGACGUUAUCUACACUUUUGUACUCGCAAACGUGAUUACAAACGCAACUCAAAGAGUAAAAGGUAAUCUCUAAAAAUAAGGUUCAAGAUAACGUUUCUGGCGCUAUAUAAA
.......(((((((((((((..(((((((((.((((....)))).)))))...........((((...........)))).......))))...))))))))))...))).......... ( -24.10)
>DroSim_CAF1 23376 108 + 1
AAAUUAAGUAGACGUUAUCUACACUUUU-----------UGUGAUUACAAACGCAACUCAAAGAGUAAAAGGUAAUCUCUAAAAAUAAGGUUCAAGAUAACGUUUCUGGCGCUAUA-AAA
......((.(((((((((((..(((((.-----------.(.((((((.......((((...)))).....)))))).).......)))))...))))))))))))).........-... ( -21.50)
>DroEre_CAF1 20333 114 + 1
CAAUCAAGUCAACGUUAUCUACACUUUUGUAC----AUACGUGAUCAUAGCCGUAACUCAAAGAGUAAAAGUUAAUCUUCAAAAA-AAGUUUCAAGAUAACGUUUCUGGCGCUGUA-AAA
.......(((((((((((((..((((((....----.....(((...((((..(.((((...)))).)..))))....)))..))-))))....)))))))))...))))......-... ( -20.30)
>consensus
AAAUUAAGUCGACGUUAUCUACACUUUUGUAC____AAACGUGAUUACAAACGCAACUCAAAGAGUAAAAGGUAAUCUCUAAAAAUAAGGUUCAAGAUAACGUUUCUGGCGCUAUA_AAA
.......(((((((((((((...(((((............(((........))).((((...)))))))))..((((((.......))))))..))))))))))...))).......... (-15.11 = -15.80 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:24:31 2006