Locus 3543

Sequence ID 3L_DroMel_CAF1
Location 10,378,415 – 10,378,514
Length 99
Max. P 0.550069
window5532

overview

Window 2

Location 10,378,415 – 10,378,514
Length 99
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 83.50
Mean single sequence MFE -23.31
Consensus MFE -15.19
Energy contribution -15.03
Covariance contribution -0.16
Combinations/Pair 1.07
Mean z-score -1.74
Structure conservation index 0.65
SVM decision value 0.03
SVM RNA-class probability 0.550069
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10378415 99 - 23771897
UGGGCUAUCAAAGUCCGACCUGUCCACCGCA----CUCCUACUACUCC-U-UUGGAAAACCCACUCCCCAU-GGAGGUU---ACCUAAGUCAGCACAAAUUGCUGCUAU
.(((((.....)))))...............----.........((((-.-..(((........)))....-))))...---.....((.(((((.....))))))).. ( -20.70)
>DroSim_CAF1 262829 96 - 1
UGGGCUAUCAAAGUCCGACCUGUCCACCGCA----CUCCUA---CUCC-U-UUGGAAAACCCACUCCCCAU-GGAGGUU---ACCUAAGUCAGCACAAAUUGCUGCUAU
.(((((.....)))))...............----......---((((-.-..(((........)))....-))))...---.....((.(((((.....))))))).. ( -20.70)
>DroEre_CAF1 267309 96 - 1
UGGGCUAUCAAAGUCCCACCUGUCCACCGCA----CUCCUA---CUCC-U-UUGGAAAACCCACUCCCCAU-GGAGGUU---ACCUAAGUCAGCACAAAUUGCUGCUAU
((((((.....)).)))).............----......---((((-.-..(((........)))....-))))...---.....((.(((((.....))))))).. ( -20.00)
>DroYak_CAF1 264582 96 - 1
UGGGCUAUCAAAGUCCAACCUGUCCACCGCA----CUCCUA---CUCC-U-UUGAAAAGCCCACUCCCCGU-GGAGGUU---ACCUAAGUCAGCACAAAUUGCUGCUAU
((((((.((((((.......(((.....)))----......---...)-)-))))..))))))((((....-))))...---.....((.(((((.....))))))).. ( -24.39)
>DroAna_CAF1 258549 103 - 1
CGGGCAAUCAAAAUUUUAUCUGUCCACCUGGCCGCCUCCCA---GUUCAUUUUGG---GCCAACUCCCAAAAGGAGUUUGUCGGCUAAGUCGGCACAAAUUGCUGCUUU
.(((((..............)))))...((((((.(.((((---(......))))---)..((((((.....)))))).).))))))((.(((((.....))))))).. ( -30.74)
>consensus
UGGGCUAUCAAAGUCCGACCUGUCCACCGCA____CUCCUA___CUCC_U_UUGGAAAACCCACUCCCCAU_GGAGGUU___ACCUAAGUCAGCACAAAUUGCUGCUAU
.((((................))))......................................((((.....))))...........((.(((((.....))))))).. (-15.19 = -15.03 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:41 2006