Locus 5454

Sequence ID 3L_DroMel_CAF1
Location 14,930,262 – 14,930,361
Length 99
Max. P 0.519915
window8627

overview

Window 7

Location 14,930,262 – 14,930,361
Length 99
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 91.51
Mean single sequence MFE -29.39
Consensus MFE -26.66
Energy contribution -27.07
Covariance contribution 0.42
Combinations/Pair 1.04
Mean z-score -1.11
Structure conservation index 0.91
SVM decision value -0.03
SVM RNA-class probability 0.519915
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14930262 99 + 23771897
AGGCGUCUCGAGUCGUUAGCAGGACAAUGAACGACAGGACGCCGGCGCCAGGAAAAUUAUCCACUGUCUGGCA-------UUUUUGUCAUUCGACCUGACAUUCUU
.(((((((...(((((...((......)).))))).)))))))...((((((..............)))))).-------....(((((.......)))))..... ( -30.34)
>DroPse_CAF1 167204 106 + 1
AGGCGUCUACAGUCGUUAGGAGGACAAUGAACGACAGGACGCCGGCGCCAGGAAAAUUAUCCACUGUCUGGCUCUCUUUUUUUUUGUCAUUUUCCCUGACAUUCUU
.(((((((...((((((..(....)....)))))).)))))))((.((((((..............)))))).)).........(((((.......)))))..... ( -29.74)
>DroSec_CAF1 110718 99 + 1
AGGCGUCUCGAGUCGUUAGUAGGACAAUGAACGACAGGACGCCGGCGCCAGGAAAAUUAUCCACUGUCUGGCA-------UUUUUGUCAUUCGACCUGACAUUCUU
.(((((((...((((((.((......)).)))))).)))))))...((((((..............)))))).-------....(((((.......)))))..... ( -30.54)
>DroEre_CAF1 106021 99 + 1
AGGCGUCUCAAGUCGUUACCAGGACAAUGAACGCCAGGACGCCGGCGCCAGGAAAAUUAUCCACUGUCUGGCA-------UUUUUGUCAUUCGACCUGACAUUCUU
.(((((.(((.(((........)))..))))))))((((.(((((((...(((......)))..)).))))).-------....(((((.......))))))))). ( -27.00)
>DroYak_CAF1 106189 99 + 1
AGGCGUCUCAAGUCGUUAGCAGGACAAUGAACGCCAGGACGCCGGCGCCAGGAAAAUUAUCCACUGUCUGGCA-------UUUUUGUCAUUCGACCUGACAUUCUU
.(((((.(((.(((........)))..))))))))((((.(((((((...(((......)))..)).))))).-------....(((((.......))))))))). ( -27.00)
>DroAna_CAF1 96553 99 + 1
AGGCGUCUCAAGUCGUUACGAGGACAAUGAACGGCAGGACGCCGGCGCCAGGAAAAUUAUCCAUCGUCUGGAA-------UUUUUGUCAUUUGACUUGACAUUCCU
.(((((((...((((((............)))))).)))))))((((...(((......)))..)))).((((-------(((..(((....)))..)).))))). ( -31.70)
>consensus
AGGCGUCUCAAGUCGUUAGCAGGACAAUGAACGACAGGACGCCGGCGCCAGGAAAAUUAUCCACUGUCUGGCA_______UUUUUGUCAUUCGACCUGACAUUCUU
.(((((((...((((((............)))))).)))))))...((((((..............))))))............(((((.......)))))..... (-26.66 = -27.07 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:43 2006