Locus 3207

Sequence ID 2R_DroMel_CAF1
Location 10,959,214 – 10,959,334
Length 120
Max. P 0.530449
window5274

overview

Window 4

Location 10,959,214 – 10,959,334
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 68.38
Mean single sequence MFE -21.68
Consensus MFE -5.56
Energy contribution -6.04
Covariance contribution 0.48
Combinations/Pair 1.25
Mean z-score -1.83
Structure conservation index 0.26
SVM decision value -0.01
SVM RNA-class probability 0.530449
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10959214 120 - 20766785
UAAGUAUCUCUCAUCCAACAAUAAACUGUAUUCCCGACGAAUAUGGUUGCGAAAUGCCAUAAAGCUGCAACAAUUUGCAUUAUUUAAAACAUAUUAAAUAGCGCAUUAAUUACCGAGAAU
........((((...........((((((((((.....))))))))))....(((((........(((((....)))))((((((((......)))))))).))))).......)))).. ( -22.50)
>DroSec_CAF1 71596 120 - 1
UAAGUAUCUCUCAUACAACAAUAAACUGUAUUCACGGCGAAAAUGGCUGCGAAAUGCCAUAAAGCUGCAACAAUUUGCAUUAUUAAAAUCAUUUUAAAUAGAGCUUUAAUUACCGAGAAU
........(((((((((.........)))))....((..(...((((........))))(((((((((((....)))).(((((.(((....))).)))))))))))).)..)))))).. ( -23.30)
>DroSim_CAF1 73885 108 - 1
UAAGUAUCUCUCAUACAACAAUAAA------------CGAAAAUGGCUGCGAAAUGCCAUAAAGCUGCAACAAUUUGCAUUAUUUAAAUCAUAUUAAAUAGCGCUUUAAUUACCGAGAAU
........((((.............------------......((((........))))(((((((((((....)))))((((((((......)))))))).))))))......)))).. ( -21.90)
>DroEre_CAF1 73913 100 - 1
GGAGUAUCUUUUAUCCAGCAUUGAGCUGUUUUCCCUACGAAAAUGGU------GUGCCAU-------------UUUG-GAUAUACGAAUGACAUUUAAUAGCGCGUUAAAUUGUGAUAAU
......((...((((((((((...(((((((((.....)))))))))------))))...-------------..))-))))...))((.(((((((((.....)))))).))).))... ( -19.20)
>DroYak_CAF1 74906 104 - 1
AGGGUAUCUCUCAUCCGACAAUCAACUGUACUCUCAGCGAAAAUGGUUGCAAAAUGCCAU-------------UUUU-GUUAUUUGAAUGA--UUUAUAAGCCCAUAUAAAUAUGAUAAU
.(((((((..(((....(((......)))......((((((((((((........)))))-------------))))-)))...)))..))--)......))))................ ( -21.50)
>consensus
UAAGUAUCUCUCAUCCAACAAUAAACUGUAUUCCCGACGAAAAUGGUUGCGAAAUGCCAUAAAGCUGCAACAAUUUGCAUUAUUUAAAUCAUAUUAAAUAGCGCAUUAAUUACCGAGAAU
........((((.....(((......))).............(((((........)))))......................................................)))).. ( -5.56 =  -6.04 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:02 2006