Locus 3490

Sequence ID 2R_DroMel_CAF1
Location 11,702,097 – 11,702,213
Length 116
Max. P 0.972051
window5688

overview

Window 8

Location 11,702,097 – 11,702,213
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.01
Mean single sequence MFE -31.09
Consensus MFE -25.00
Energy contribution -24.72
Covariance contribution -0.28
Combinations/Pair 1.11
Mean z-score -2.22
Structure conservation index 0.80
SVM decision value 1.69
SVM RNA-class probability 0.972051
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11702097 116 - 20766785
AGACAACGGGCGCCGCUUUUAAGGCAUUAUAGGGA---AGAAAAAGCCCAUUACGUAAUGUUAAAAAUGUUAUGUGAUUG-GCUUUUGUGGCAAAUAAUAUAUUGAGGCAGUUUCCAAGG
.......(((.((.(((((......(((((...(.---...(((((((.((((((((((((.....)))))))))))).)-))))))....)..))))).....))))).)).))).... ( -30.70)
>DroSim_CAF1 309 116 - 1
AGACAACGGGUGCCGCUUUUAAGGCAUUAUAGGGG---AGAAAAAGCCCAUUACGUAAUGUUAAAAAUGUUAUGUGAUUG-GCUUUUGUGGCAAAUAAAAUAUUGAGGCAGUUUCCUAGG
........((((((........)))))).((((..---(..(((((((.((((((((((((.....)))))))))))).)-))))))((..(((........)))..))..)..)))).. ( -35.10)
>DroEre_CAF1 314 115 - 1
AGACAACG-GCGCCGCUUUUAAGGCAUUAUAGGGG---AGAAAAAGCCCAUUACGUAAUGUUAAAAAUGUUAUGUGAUUG-GCUUUUGUGGCAAAUAAAAUAUUGAGGCAGUUUCCAAGG
........-..(((........)))........((---((((((((((.((((((((((((.....)))))))))))).)-))))))((..(((........)))..))..))))).... ( -31.00)
>DroYak_CAF1 299 116 - 1
AGACAACGGGCGCCGCUUUUAAGGCAUAAUAGGGG---AGAAAAAGCCCAUUACGUAAUGUUAAAAAUGUUAUGUGAUUG-GCUUUUGUGGCAAAUAAAAUAUUGAGGCAGUUUCCAAGG
...........(((........)))........((---((((((((((.((((((((((((.....)))))))))))).)-))))))((..(((........)))..))..))))).... ( -31.00)
>DroAna_CAF1 276 119 - 1
AGACAGCGGGCGCCGCUU-UAAAGCAUUAUAGGGAGAAAAAAAAAACACAUUACGUAACGUUAAAAAUGUUAUGUGAUUGGGCUUUUGCGGCAAAAUAAAUAUCGAGGCAGUUCCCAUGG
...((..(((.(((((..-.(((((.....................((.((((((((((((.....)))))))))))))).))))).)))))...........(......)..))).)). ( -27.65)
>consensus
AGACAACGGGCGCCGCUUUUAAGGCAUUAUAGGGG___AGAAAAAGCCCAUUACGUAAUGUUAAAAAUGUUAUGUGAUUG_GCUUUUGUGGCAAAUAAAAUAUUGAGGCAGUUUCCAAGG
...........(((((....(((((......(((............)))((((((((((((.....))))))))))))...))))).)))))..............((......)).... (-25.00 = -24.72 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:47 2006