Locus 5458

Sequence ID 2L_DroMel_CAF1
Location 15,551,467 – 15,551,566
Length 99
Max. P 0.997063
window8664 window8665

overview

Window 4

Location 15,551,467 – 15,551,566
Length 99
Sequences 5
Columns 99
Reading direction forward
Mean pairwise identity 95.56
Mean single sequence MFE -24.89
Consensus MFE -23.04
Energy contribution -23.08
Covariance contribution 0.04
Combinations/Pair 1.05
Mean z-score -1.93
Structure conservation index 0.93
SVM decision value 2.79
SVM RNA-class probability 0.997063
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15551467 99 + 22407834
CCAAAGGCCAACCCUGACUUGCCAACCUCCUUAUAAUGUGACCCAAAACUUGUGGCCAAGGAAAGUGCUUUCACCGCACUUUAUAUAUUGGCCGAGGCA
.....(((............)))..((((...((((.((........))))))((((((..(((((((.......))))))).....)))))))))).. ( -26.80)
>DroSec_CAF1 65306 99 + 1
CCAAAGGCCAACCCUGACUUGCCAACCUCCUUAUAAUGUGACCCAAAACUUGUGGCCAAGGAAAGUGCUUUCACCGCACUUUAUAUAUUGGCCGAGGCA
.....(((............)))..((((...((((.((........))))))((((((..(((((((.......))))))).....)))))))))).. ( -26.80)
>DroSim_CAF1 57086 99 + 1
CCAAAGGCCAACCCUGACUUGCCAACCUCCUUAUAAUGUGACCCAAAACUUGUGGCCAAGGAAAGUGCUUUCACCGCACUUUAUAUAUUGGCCGAGGCA
.....(((............)))..((((...((((.((........))))))((((((..(((((((.......))))))).....)))))))))).. ( -26.80)
>DroEre_CAF1 59353 99 + 1
CCAAAGGCCAAUCCUGACUUGUCAACCUCCUUAAUUUGUGACCCAAAACUUGUGGCCAAGGAAAGUGCUUUUACCGCACUUUAUAUAUUGGCCGAGGCA
......(((...........((((..............))))..........(((((((..(((((((.......))))))).....))))))).))). ( -25.74)
>DroYak_CAF1 61098 99 + 1
CCAAAAGCCAACCCUGACUUGCCAACCUCCUUAUUAUGUGACCCAAAACUUGUGGCCAAGGAAAGUACUUCUACCGCACUUUAUAUAUUGGCCAAGGCA
......(((............................((........))...(((((((..(((((.(.......).))))).....))))))).))). ( -18.30)
>consensus
CCAAAGGCCAACCCUGACUUGCCAACCUCCUUAUAAUGUGACCCAAAACUUGUGGCCAAGGAAAGUGCUUUCACCGCACUUUAUAUAUUGGCCGAGGCA
......(((............................((........))...(((((((..(((((((.......))))))).....))))))).))). (-23.04 = -23.08 +   0.04)

alignment

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secondary structure

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dotplot

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Window 5

Location 15,551,467 – 15,551,566
Length 99
Sequences 5
Columns 99
Reading direction reverse
Mean pairwise identity 95.56
Mean single sequence MFE -29.32
Consensus MFE -28.68
Energy contribution -28.40
Covariance contribution -0.28
Combinations/Pair 1.10
Mean z-score -1.05
Structure conservation index 0.98
SVM decision value 0.15
SVM RNA-class probability 0.606834
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15551467 99 - 22407834
UGCCUCGGCCAAUAUAUAAAGUGCGGUGAAAGCACUUUCCUUGGCCACAAGUUUUGGGUCACAUUAUAAGGAGGUUGGCAAGUCAGGGUUGGCCUUUGG
..((..((((((.....(((((((.......)))))))(((((((..(((.((((..((......))..)))).)))....)))))))))))))...)) ( -30.30)
>DroSec_CAF1 65306 99 - 1
UGCCUCGGCCAAUAUAUAAAGUGCGGUGAAAGCACUUUCCUUGGCCACAAGUUUUGGGUCACAUUAUAAGGAGGUUGGCAAGUCAGGGUUGGCCUUUGG
..((..((((((.....(((((((.......)))))))(((((((..(((.((((..((......))..)))).)))....)))))))))))))...)) ( -30.30)
>DroSim_CAF1 57086 99 - 1
UGCCUCGGCCAAUAUAUAAAGUGCGGUGAAAGCACUUUCCUUGGCCACAAGUUUUGGGUCACAUUAUAAGGAGGUUGGCAAGUCAGGGUUGGCCUUUGG
..((..((((((.....(((((((.......)))))))(((((((..(((.((((..((......))..)))).)))....)))))))))))))...)) ( -30.30)
>DroEre_CAF1 59353 99 - 1
UGCCUCGGCCAAUAUAUAAAGUGCGGUAAAAGCACUUUCCUUGGCCACAAGUUUUGGGUCACAAAUUAAGGAGGUUGACAAGUCAGGAUUGGCCUUUGG
..((..(((((((.....((((((.......))))))(((((((((.((.....))))))).......))))..((((....)))).)))))))...)) ( -28.41)
>DroYak_CAF1 61098 99 - 1
UGCCUUGGCCAAUAUAUAAAGUGCGGUAGAAGUACUUUCCUUGGCCACAAGUUUUGGGUCACAUAAUAAGGAGGUUGGCAAGUCAGGGUUGGCUUUUGG
..((..((((((.....(((((((.......)))))))(((((((..(((.((((..((......))..)))).)))....)))))))))))))...)) ( -27.30)
>consensus
UGCCUCGGCCAAUAUAUAAAGUGCGGUGAAAGCACUUUCCUUGGCCACAAGUUUUGGGUCACAUUAUAAGGAGGUUGGCAAGUCAGGGUUGGCCUUUGG
..((..(((((((....(((((((.......))))))).((((((..(((.((((..((......))..)))).)))....)))))))))))))...)) (-28.68 = -28.40 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:40 2006