Locus 1165

Sequence ID X_DroMel_CAF1
Location 3,478,685 – 3,478,799
Length 114
Max. P 0.652935
window1871

overview

Window 1

Location 3,478,685 – 3,478,799
Length 114
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 76.58
Mean single sequence MFE -20.60
Consensus MFE -0.74
Energy contribution -0.78
Covariance contribution 0.04
Combinations/Pair 1.33
Mean z-score -1.40
Structure conservation index 0.04
SVM decision value 0.25
SVM RNA-class probability 0.652935
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3478685 114 + 22224390
ACACAAGCGAAGCACUUAAAUGC-CACGUUUUUGC---GGCGCCACAACAACCAACUUUU-UGGGGUGGCGACCAAAAAACCGUAGAUCCGUCAAAUCCGAAAUAUCAAAACAAAUUAC
......(((..(((......)))-...((((((..---((((((((..(((........)-))..)))))).)).))))))))).(((...((......))...)))............ ( -26.00)
>DroSec_CAF1 39653 111 + 1
GCCCAAGCGAAGCACUUAAAUGC-CACGUUUUUGU---GACGCCACAACAACCAACUUUU-UUGGG-GGCAACCAAA-AACCAGAGAUCAGUCAAAU-AGAAAUAUCAAAACAAAUUAC
(((((((((..(((......)))-..)))))((((---(....)))))...((((.....-)))))-))).......-.......(((...((....-.))...)))............ ( -21.10)
>DroEre_CAF1 42482 109 + 1
GACUAACCGAACCGCUUAAAUGG-CAGGUUUUCGU---GGCGCCACAACAGCCAACUUUU-UGG---GGCGACCAAA-AACCAGAAAUCCGUCAAAU-AGAAAUAUCAAAACAAAUUAC
(((..........(((.....))-).((((((..(---((((((.(((.((....))..)-)).---)))).)))))-))))........)))....-..................... ( -22.80)
>DroYak_CAF1 41363 109 + 1
GACUAACCAAACCACUUAAAUGU-CAGGUUUUCGU---UAUGCCACAACAGCGAACUUUU-UGG---GGCGAGCAAA-AACCAGAAAUCCGUCAAAU-AGAAAUAUCAAAACAAAUUAC
(((..........((......))-..((((((.((---(.((((.(((.((....))..)-)).---))))))).))-))))........)))....-..................... ( -16.10)
>DroAna_CAF1 69081 113 + 1
AACUUAACAACAAAAUCAAAUUUUCAGUUUUGUAUAAAUGCGUCAUAAUAAGCGGAUUUUGUGU---GGACU-CCAA-AGCCAGAAAUCCGUCAAAU-AGAAAUAUCAAAACAAAUUAC
..........................((((((...................(((((((((...(---((.((-....-))))))))))))))...((-(....)))))))))....... ( -17.00)
>consensus
GACUAACCGAACCACUUAAAUGC_CAGGUUUUUGU___GGCGCCACAACAACCAACUUUU_UGG___GGCGACCAAA_AACCAGAAAUCCGUCAAAU_AGAAAUAUCAAAACAAAUUAC
.........................................(((.......................)))................................................. ( -0.74 =  -0.78 +   0.04) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:53 2006