Locus 4187

Sequence ID 2R_DroMel_CAF1
Location 13,791,409 – 13,791,502
Length 93
Max. P 0.526165
window6733

overview

Window 3

Location 13,791,409 – 13,791,502
Length 93
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 78.18
Mean single sequence MFE -34.13
Consensus MFE -21.91
Energy contribution -24.38
Covariance contribution 2.48
Combinations/Pair 1.29
Mean z-score -1.25
Structure conservation index 0.64
SVM decision value -0.01
SVM RNA-class probability 0.526165
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13791409 93 + 20766785
GAGGAAGCCGGUUGCUCAACAAUGGUUUCUGGCUUCCUCA---------AGGGCUCCACUACUUUCCUUUCAGACCCCGAGGA---GGUGGAAGUGCGCCGGGUC
(((((((((((..((.((....))))..))))))))))).---------.((((((((((....(((((.........)))))---))))))...)).))..... ( -38.30)
>DroSec_CAF1 92239 93 + 1
GAGGAAGCCGGUUCCUCUACAAUGGUUUCUGGCUUCCUCA---------AGGACUCCACUAUUUUCCUUUCAGACCCAGAGGA---GGUGGAAGUGCGCCGGGUC
(((((((((((..((........))...))))))))))).---------.(.((((((((....((((((.......))))))---))))).))).)........ ( -38.70)
>DroSim_CAF1 96099 93 + 1
AAGGAAGCCGGUUCCUCGACAAUGGUUUCUGGCUUCCUCA---------AGGACUCCACUACUUUCCUUUCAGACCCAGAGGA---GGUGGAAGUGCGCCGGGUC
.((((((((((..((........))...))))))))))..---------.(.((((((((....((((((.......))))))---))))).))).)........ ( -34.50)
>DroEre_CAF1 92648 96 + 1
GACGAAGCCGGUUCCUCGACAAUGGUUUGUGGCUUUCUCG---------AGGUCUCUACUACCUUUCUCUCAGGCCCAGAGGAAGUGGUGGAAGUGCGCCGGGUC
.......(((((.((((((....(((.....)))...)))---------)))..((((((((.(((((((.......))))))))))))))).....)))))... ( -34.00)
>DroYak_CAF1 96917 96 + 1
GACGAAGCCGGUUCCUCGACAAUCGUUUGUGGCUUUCUCA---------AGGGCUCCACUACUUUUCUUUCAGGCGCCGAUGAAGUGGUGGAAGUGCGCCGGGUC
((.(((((((....)...((((....)))))))))).)).---------.(((((((((((((((....((.(....))).)))))))))))...)).))..... ( -29.60)
>DroAna_CAF1 101095 99 + 1
GAGGUCACAGGCUCCUCGACAAUGGUUUCUGGCUUCUUAACCACACGCUGUGGCUCC----C--UUUUCUCGGAUCCGGUAGAUGUAGUAGAACUGCGGCGUGUC
(((((..((((..((........))..)))))))))......((((((((..(.((.----(--(..(((((....))..)))...))..)).)..)))))))). ( -29.70)
>consensus
GAGGAAGCCGGUUCCUCGACAAUGGUUUCUGGCUUCCUCA_________AGGGCUCCACUACUUUCCUUUCAGACCCAGAGGA___GGUGGAAGUGCGCCGGGUC
(((((((((((..((........))...)))))))))))...........(.((((((((....((((((.......))))))...))))).))).)........ (-21.91 = -24.38 +   2.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:51 2006