Locus 4722

Sequence ID 2R_DroMel_CAF1
Location 15,488,786 – 15,488,942
Length 156
Max. P 0.997490
window7596 window7597

overview

Window 6

Location 15,488,786 – 15,488,906
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.88
Mean single sequence MFE -27.88
Consensus MFE -24.38
Energy contribution -25.06
Covariance contribution 0.68
Combinations/Pair 1.12
Mean z-score -2.22
Structure conservation index 0.87
SVM decision value 2.87
SVM RNA-class probability 0.997490
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15488786 120 - 20766785
AAUUCCCAAGGAAUUUGGCCAGCAAUUUAUUCGCAAAAUUUACAAGAUUUUUGGGAGACCAGAAUAUCUAAGCAAUUUGUAUUAUCCUAUAAAUUUGCUGGUUAAAGUGCAAUGUAAUUU
..((((...))))(((((((((((....................((((((((((....)))))).))))....((((((((......))))))))))))))))))).............. ( -30.10)
>DroSec_CAF1 281493 119 - 1
AAUUCCCAAGGAAUUUGGCCAGCAAUUUAUUCGGA-AAUUUACAAGAUUUUUGGGAGACCAGAAUAUCUAAGCAAUUUGUAUUAUACACUAAAUUUGCUGGUUAAAGUGUAAUGUAAUUU
..((((...))))((((((((((((((((......-........((((((((((....)))))).))))........((((...)))).)))).)))))))))))).............. ( -28.40)
>DroSim_CAF1 260461 119 - 1
AAUUCCCAAGGAAUUUGGCCAACAAUUUAUUCGGA-AAUUUACAAGAUUUUUGGGAGACCAGAAUAUCUAAGCAAUUUGUAUUAUACAAUAAAUUUGCUGGUUAAAGUGUAAUGUAAUUU
..((((...))))(((((((...............-........((((((((((....)))))).)))).((((((((((........))))).)))))))))))).............. ( -24.70)
>DroEre_CAF1 269682 119 - 1
AAUUCCCAAGGAAUUUGGCCAGCAAUGUAUUCGGA-AAUUUACAAGAUUUUUGGGAGACCAGAAUAUCUAAGCAAUUUGUAUUAUUCCAUAAAUUUGUUGGUAGAAGUGUAAUGCAAUGU
((((((...))))))..((((((((..(((..(((-(...((((((((((((((....)))))).))))........))))...)))))))...)))))))).................. ( -28.80)
>DroYak_CAF1 279748 119 - 1
AAUUCCCCAGGAAUUUGACCAGCAAUUUAUUCGGA-AAUUUACAAGAUUUUUGGGAGACCAGAAUACCUAAGCAAUUUGUAUUAUACCAUAAACUUGGUGGUCAAAGUGUAAUGCAAUGU
..((((...))))((((((((.((((((((..((.-....((((((..((((((....))))))...........)))))).....))))))).))).)))))))).............. ( -27.42)
>consensus
AAUUCCCAAGGAAUUUGGCCAGCAAUUUAUUCGGA_AAUUUACAAGAUUUUUGGGAGACCAGAAUAUCUAAGCAAUUUGUAUUAUACAAUAAAUUUGCUGGUUAAAGUGUAAUGUAAUUU
..((((...))))(((((((((((((((((..............((((((((((....)))))).))))..((.....))........))))).)))))))))))).............. (-24.38 = -25.06 +   0.68)

alignment

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secondary structure

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dotplot

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Window 7

Location 15,488,826 – 15,488,942
Length 116
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 97.57
Mean single sequence MFE -30.76
Consensus MFE -28.82
Energy contribution -28.86
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -1.62
Structure conservation index 0.94
SVM decision value 1.58
SVM RNA-class probability 0.965178
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15488826 116 - 20766785
CGAUUGGAGCUGGGAACUCGGAGGAUUUUCAGCGUAAAUUCCCAAGGAAUUUGGCCAGCAAUUUAUUCGCAAAAUUUACAAGAUUUUUGGGAGACCAGAAUAUCUAAGCAAUUUGU
.(.((((.((((..((.((....))))..)))).((((((((...)))))))).))))).........(((((.......((((((((((....)))))).))))......))))) ( -30.52)
>DroSec_CAF1 281533 115 - 1
CGAUUGGAGCUGGGAACUCGGAGGAUUUUCAGCGUAAAUUCCCAAGGAAUUUGGCCAGCAAUUUAUUCGGA-AAUUUACAAGAUUUUUGGGAGACCAGAAUAUCUAAGCAAUUUGU
.(((((..((((..((.((....))))..))))(((((((.((....((.(((.....))).))....)).-))))))).((((((((((....)))))).))))...)))))... ( -30.70)
>DroSim_CAF1 260501 115 - 1
CGAUUGGAGCUGGGAACUCGGAGGAUUUUCAGCGUAAAUUCCCAAGGAAUUUGGCCAACAAUUUAUUCGGA-AAUUUACAAGAUUUUUGGGAGACCAGAAUAUCUAAGCAAUUUGU
.(((((..((((..((.((....))))..))))(((((((.((....((.(((.....))).))....)).-))))))).((((((((((....)))))).))))...)))))... ( -31.70)
>DroEre_CAF1 269722 115 - 1
CGAUUGGAGCUGGGAACUCGGAGGAUUUUCAGCGUAAAUUCCCAAGGAAUUUGGCCAGCAAUGUAUUCGGA-AAUUUACAAGAUUUUUGGGAGACCAGAAUAUCUAAGCAAUUUGU
....(((.((((..((.((....))))..)))).((((((((...)))))))).)))((..((((......-....))))((((((((((....)))))).))))..))....... ( -32.10)
>DroYak_CAF1 279788 115 - 1
CGAUUGGAGCUGGGAACUCGGAGGAUUUUCAGCGUAAAUUCCCCAGGAAUUUGACCAGCAAUUUAUUCGGA-AAUUUACAAGAUUUUUGGGAGACCAGAAUACCUAAGCAAUUUGU
....(((.((((..((.((....))))..)))).((((((((...)))))))).)))((....((((((((-((((.....)))))))((....)).))))).....))....... ( -28.80)
>consensus
CGAUUGGAGCUGGGAACUCGGAGGAUUUUCAGCGUAAAUUCCCAAGGAAUUUGGCCAGCAAUUUAUUCGGA_AAUUUACAAGAUUUUUGGGAGACCAGAAUAUCUAAGCAAUUUGU
.(.((((.((((..((.((....))))..)))).((((((((...)))))))).))))).....................((((((((((....)))))).))))........... (-28.82 = -28.86 +   0.04)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:40 2006