Locus 1527

Sequence ID 2R_DroMel_CAF1
Location 5,784,467 – 5,784,582
Length 115
Max. P 0.802041
window2580

overview

Window 0

Location 5,784,467 – 5,784,582
Length 115
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 94.17
Mean single sequence MFE -25.42
Consensus MFE -22.66
Energy contribution -22.26
Covariance contribution -0.40
Combinations/Pair 1.06
Mean z-score -1.33
Structure conservation index 0.89
SVM decision value 0.62
SVM RNA-class probability 0.802041
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5784467 115 + 20766785
C----AGCCCGAGUUGAAUAACUAAUUCAAUUGGCAACCGGCACUCCCCGAGCUCGUUCCCGAUUAAUUAUAAUUCCACAUUCGGCAUUCUUCUAUCGCUGAACCGAAAGAAAGCCAAG
.----.......((.((((...(((((.((((((.(((.(((.(.....).))).))).)))))))))))..)))).))....(((.(((((...(((......)))))))).)))... ( -25.00)
>DroSec_CAF1 75754 115 + 1
C----AGCCCGAGCUGAAUAACUAAUUCAAUUGGCAACCGGCACUCCCCGAGCUCGUUCCCGAUUAAUUAUAAUUCCACAUUCGGUAUUCUUCUAUCGCUGAACCGAAAGAAAGCCAAG
(----(((....))))......(((((.((((((.(((.(((.(.....).))).))).))))))))))).............(((.(((((...(((......)))))))).)))... ( -24.10)
>DroSim_CAF1 76063 119 + 1
CAGUCAGCCCGAGUUGAAUAACUAAUUCAAUUGGCAACCGGCACUCCCCGAGCUCGUUCCCGAUUAAUUAUAAUUCCACAUUCGGUAUUCUUCUAUCGCUGAACCGAAAGAAAGCCAAG
...(((((((((((.((((...(((((.((((((.(((.(((.(.....).))).))).)))))))))))..))))...))))))............)))))..(....)......... ( -25.30)
>DroEre_CAF1 77947 115 + 1
C----AGUCCGAACUGAAUACCUAAUUCAAUUGGCAGCCGGCACUCCCCGAGCUCGUUCCCGAUUAAUUAUAAUUCCACAUUCGGCUUUCUUCUAUCGCUGAACCGAAAGAAAGCCAAG
(----(((....))))......(((((.((((((.(((.(((.(.....).))).))).))))))))))).............(((((((((...(((......))))))))))))... ( -27.70)
>DroYak_CAF1 75831 115 + 1
C----AGCCCGAACUGAAUACCUAAUUCAAUUGGCAACCGGCACUCCCCGAGCUCGUUCCCGAUUAAUUAUAAUUCCGCAUUCGGCAUUCUUCUAUCGCUUAACCGAAAGAAAGAAAAG
.----.(((.((((.((((...(((((.((((((.(((.(((.(.....).))).))).)))))))))))..)))).)..)))))).(((((((.(((......))).)).)))))... ( -25.00)
>consensus
C____AGCCCGAGCUGAAUAACUAAUUCAAUUGGCAACCGGCACUCCCCGAGCUCGUUCCCGAUUAAUUAUAAUUCCACAUUCGGCAUUCUUCUAUCGCUGAACCGAAAGAAAGCCAAG
........(((((..((((...(((((.((((((.(((.(((.(.....).))).))).)))))))))))..))))....))))).....((((.(((......))).))))....... (-22.66 = -22.26 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:53 2006