Locus 1790

Sequence ID 2R_DroMel_CAF1
Location 6,704,794 – 6,704,911
Length 117
Max. P 0.500000
window2974

overview

Window 4

Location 6,704,794 – 6,704,911
Length 117
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 84.28
Mean single sequence MFE -37.77
Consensus MFE -25.35
Energy contribution -25.71
Covariance contribution 0.36
Combinations/Pair 1.04
Mean z-score -2.20
Structure conservation index 0.67
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6704794 117 + 20766785
CUGCUGCUGCCUUGAUGCGCAUGUUUCCGCUUUGGCAGCGGGGAAAAAAGAGGAGAAUCCGCAGCUAAAGCCAAAGUUGGUCGCCAACAAGUCGCGGCCAUAAACAAGUGCG---GCAGG
...(((((((((((..............((((((((.(((((...............))))).))))))))......(((((((.........)))))))....)))).)))---)))). ( -45.96)
>DroSec_CAF1 53379 103 + 1
CU-----------GAUGCGCAUGUUUCCGCUUUGGCAG---AAAAAAAAGAGGAGAAUCCGCAGCUAAAGCCAAAGUUGGUCGCCAACAAGUCGCGGCCAUAAACAAGUGCG---GCAGG
((-----------(.(((((.(((((..((((((((..---..........((.....)).........))))))))(((((((.........))))))).))))).)))))---.))). ( -34.50)
>DroSim_CAF1 60110 103 + 1
CU-----------GAUGCGCAUGUUUCCGCUUUGGCAG---GAAAAAAAGAGGAGAAUCCGCAGCUAAAGCCAAAGUUGGUCGCCAACAAGUCGCGGCCAUAAACAAGUGCG---GCAGG
((-----------(.(((((.(((((..((((((((.(---((..............)))...))))))))......(((((((.........))))))).))))).)))))---.))). ( -35.74)
>DroEre_CAF1 55218 108 + 1
CUG---CUGCUUUGAUGCGCAUGUUUCCGCUUUGGCAG---GAAAAA---AGGAGAAUCCGCAGUUUAAGCCAAACUUGGUCGCCAACAAGUCGCGGCCAUAAACAAGUGCG---GCAGG
(((---((((((((..(((........)))((((((..---(((...---.((.....))....)))..))))))..(((((((.........)))))))....)))).)))---)))). ( -37.30)
>DroYak_CAF1 53909 111 + 1
CUG---CUGCUUUGAUGCGCAUGUUUCCGCUUUGGACG---GGAAAA---AGGAGAAUCCGCAGUUAAAGCCAAAGUUGGUCGCCAACAAGUCGCGGCCAUAAACAAGUGCGGCGGCAGG
(((---(((((.....((((.(((((..(((((((...---.((...---.((.....))....))....)))))))(((((((.........))))))).))))).)))))))))))). ( -42.10)
>DroAna_CAF1 50599 100 + 1
--G---UGGCUUUGAUGCGCAUGUUUCCGCUAUGGCUG---GAAAAAAAAAGG---CU-GG-----CAAGUCAAAGUUGGUCGCCAACAAGUCGCGGCCAUAAACAAGUGCG---GCAGG
--(---(.((((((..(((........)))((((((((---((........((---((-..-----..))))...(((((...)))))...)).))))))))..)))).)).---))... ( -31.00)
>consensus
CUG___CUGCUUUGAUGCGCAUGUUUCCGCUUUGGCAG___GAAAAAAAGAGGAGAAUCCGCAGCUAAAGCCAAAGUUGGUCGCCAACAAGUCGCGGCCAUAAACAAGUGCG___GCAGG
................((((.(((((..((((((((.................................))))))))(((((((.........))))))).))))).))))......... (-25.35 = -25.71 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:12 2006