Locus 4798

Sequence ID 2R_DroMel_CAF1
Location 15,767,095 – 15,767,191
Length 96
Max. P 0.519773
window7710

overview

Window 0

Location 15,767,095 – 15,767,191
Length 96
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 71.73
Mean single sequence MFE -27.32
Consensus MFE -6.58
Energy contribution -9.14
Covariance contribution 2.56
Combinations/Pair 1.17
Mean z-score -1.63
Structure conservation index 0.24
SVM decision value -0.03
SVM RNA-class probability 0.519773
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15767095 96 + 20766785
CGGCAAUUUAUGAUGGCCAUAAAG-AGGUGUUUUAUA---------------G-CACAUUGGCAUGGUCGUGAUAAGU--UAGUUGGCUAU-AUCAACUGGCGAACGACCAUCAUU
.........(((((.((((.....-..(((((....)---------------)-)))..))))..((((((.....((--(((((((....-.)))))))))..))))))))))). ( -31.00)
>DroSec_CAF1 15425 96 + 1
CGGAAAUUUAUG--GGCCAUAAAG-AGGUGUUUUAUA---------------G-CGCAUGGGCAUGGUCGUGAUAAGUUUUAGUUGGCUAU-AUCAACUGGCGAACGACCAUCAUU
.......(((((--.((.((((((-.....)))))).---------------)-).)))))(.((((((((.....((..(((((((....-.)))))))))..)))))))))... ( -25.50)
>DroSim_CAF1 16407 92 + 1
CGGAAAUUUAUG--GGCCAUAAAG-AG----UAUAUA---------------G-CGCAUGGACAUGGUCGUGAUAAGUUUUAGUUGGCUAU-AUCAACUGGCGAACGACCAUCAUU
......((((((--.((.(((...-..----..))).---------------)-).)))))).((((((((.....((..(((((((....-.)))))))))..)))))))).... ( -23.50)
>DroEre_CAF1 16133 102 + 1
CGACAAUUUAUG--GCCCAUAAAG-AGGUGUUGUAUAGU-UGGGCGACUAUGG-CGCAUGGACAUGGUCGUGAUAAGU------UGACU---AUCAACUAGUGAACGACGAUCAUU
...(((((((..--((((......-.)).))..)).)))-)).(((((((((.-........)))))))))(((..((------(.(((---(.....)))).)))....)))... ( -28.50)
>DroAna_CAF1 15016 109 + 1
CGACAAUUUAUU--GGCCAUAAAGUAGGUGUUAUAAAAUAUAGUCGAAUAUGGCCGGACGGACG-GAGCGAGAUAAGUUUUAG----CCAUCAUUGGCUAGUAAACAGCGGUCAUU
.(((((((((((--(((((((..(...(((((....)))))...)...)))))))...((....-...)).))))))))((((----(((....))))))).........)))... ( -28.10)
>consensus
CGGCAAUUUAUG__GGCCAUAAAG_AGGUGUUAUAUA_______________G_CGCAUGGACAUGGUCGUGAUAAGUUUUAGUUGGCUAU_AUCAACUGGCGAACGACCAUCAUU
......((((((.....))))))........................................((((((((.....((..(((((((......)))))))))..)))))))).... ( -6.58 =  -9.14 +   2.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:31 2006