Locus 5677

Sequence ID 3R_DroMel_CAF1
Location 14,900,036 – 14,900,133
Length 97
Max. P 0.885208
window9278

overview

Window 8

Location 14,900,036 – 14,900,133
Length 97
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 73.89
Mean single sequence MFE -27.94
Consensus MFE -23.58
Energy contribution -23.86
Covariance contribution 0.28
Combinations/Pair 1.10
Mean z-score -0.52
Structure conservation index 0.84
SVM decision value 0.94
SVM RNA-class probability 0.885208
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14900036 97 - 27905053
---------------UAUAUUGAAACCAUAAAUA---CGACUUCCAAGUGCAUUUCUUUCAGUGCAAACAUAGACCCAGACGAAGCUGACAGCAGAGAGGCUGGCUGUCUGGGUG
---------------...................---...((......((((((......)))))).....))((((((((..(((...((((......))))))))))))))). ( -26.10)
>DroSec_CAF1 27619 103 - 1
-CUGAAGCAG--AGCUCUAUAGACACCUUAAACU---CGACUUU------CAUUUCUUUCAGUGCAAACAUAGACCCAGACGAAGCUGACCGCAGAGAGGCUGGCUGUCUGGGUG
-((((((..(--((......((....))....))---)(.....------).....))))))...........((((((((..((((..((.......))..)))))))))))). ( -25.40)
>DroSim_CAF1 27497 112 - 1
CCUGAAGCAGCAACCUCUAUUGACACCUUUAAAA---CGACUUCCAAGUGCAUUUCUUUCAGUGCAGACAUAGACCCAGACGAAGCUGACCGCAGAGAGGCUGGCUGUCUGGGUG
..(((((...(((......)))....)))))...---...........((((((......)))))).......((((((((..((((..((.......))..)))))))))))). ( -28.40)
>DroEre_CAF1 27099 95 - 1
-CCAUUA-----------------AACUUACACUCCUCCACGUGAAAGUGCAUUUAUUUCAGUGUAGACAUAGACCCAGACGGAGCUGACCGCAG--AGGCUGGCUGUCUGGGUG
-......-----------------.((((.(((........))).))))(((((......)))))........((((((((..((((..((....--.))..)))))))))))). ( -28.50)
>DroYak_CAF1 34081 101 - 1
-CCAGUGCAA--CG------UGUUACCUUAAACU---CGACUUCAAAGUGCACUUCUCUCAGUGUAGACAUAGACCCAGACGGAGCUGACCGCAG--AGGCUGGCUGUCUGGGUG
-..(((((..--((------.(((......))).---))(((....)))))))).......(((....)))..((((((((..((((..((....--.))..)))))))))))). ( -31.30)
>consensus
_CCAAAGCA______U_UAUUGACACCUUAAACU___CGACUUCAAAGUGCAUUUCUUUCAGUGCAGACAUAGACCCAGACGAAGCUGACCGCAGAGAGGCUGGCUGUCUGGGUG
................................................((((((......)))))).......((((((((..((((..((.......))..)))))))))))). (-23.58 = -23.86 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:27 2006