Locus 1077

Sequence ID 2L_DroMel_CAF1
Location 2,976,124 – 2,976,222
Length 98
Max. P 0.999334
window1744 window1745

overview

Window 4

Location 2,976,124 – 2,976,222
Length 98
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 78.46
Mean single sequence MFE -42.22
Consensus MFE -24.68
Energy contribution -26.48
Covariance contribution 1.80
Combinations/Pair 1.24
Mean z-score -2.41
Structure conservation index 0.58
SVM decision value 1.75
SVM RNA-class probability 0.975274
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2976124 98 + 22407834
CCGACGAGUUAUCAUCAUUCGCACGCUUGCGAACGCGAUCAUCCGAAAUCGGCUGCUCCGGACGCCUGCGUCCGCGGUCAGCCGAAACUGACUUGUCG----------------------
.((((((((((......((((((....))))))...............(((((((((.((((((....)))))).)).)))))))...))))))))))---------------------- ( -44.70)
>DroSec_CAF1 6106 98 + 1
CCGACGCGCUAUCAUCAUUCGCACGCUUGCGAACGCGAUCCUCCGAAAUCGUAUGCUCCGGACGCCUUCGUCCGCGGUCAGCCGAAACUGACUUGUCG----------------------
.((((((((........((((((....)))))).(((((........)))))..))...(((((....)))))))((((((......)))))).))))---------------------- ( -32.00)
>DroSim_CAF1 6101 98 + 1
CCGACGCGUUAUCAUCAUUCGCACGCUUGCGAACGCGAUCCUCCGAAAUCGUAUGCUCCGGACGCCUGCGUCCGCGGUCAGCCGAAACUGACUUGUCG----------------------
.((((((((........((((((....)))))).(((((........)))))))))..((((((....)))))).((((((......)))))).))))---------------------- ( -33.20)
>DroEre_CAF1 6252 98 + 1
CCGACAAGUUUUCUUCGUUCGGACGCUUGCGAACACGAUCACCCGGAACCGGCAGCUCCGGACGCCUGCGUCCGCGAUCAGUCGAAACUGACUUGUCG----------------------
.(((((((......(((..(((((((..(((....((......))...((((.....)))).)))..))))))))))(((((....))))))))))))---------------------- ( -39.10)
>DroYak_CAF1 6215 120 + 1
CCGACGAGUUGUCUUCAUUCGGACGCUUGCGGCCGCGUUCAUCCGGAACUGGCUGCUCCGGACGCUUGCGGCCGCGUUCAUCCGGAACUGGCUGCUCCGGACGCCUGCGUCCGCGGUUAG
(((..((((.(((....((((((.(..((((((((((..(.((((((.(.....).)))))).)..))))))))))..).))))))...))).))))((((((....))))))))).... ( -62.10)
>consensus
CCGACGAGUUAUCAUCAUUCGCACGCUUGCGAACGCGAUCAUCCGAAAUCGGCUGCUCCGGACGCCUGCGUCCGCGGUCAGCCGAAACUGACUUGUCG______________________
.((((((((((......((((...(.((((....)))).)...)))).((((.((.((((((((....)))))).)).)).))))...))))))))))...................... (-24.68 = -26.48 +   1.80)

alignment

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secondary structure

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dotplot

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Window 5

Location 2,976,124 – 2,976,222
Length 98
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 78.46
Mean single sequence MFE -49.42
Consensus MFE -34.12
Energy contribution -34.40
Covariance contribution 0.28
Combinations/Pair 1.26
Mean z-score -3.35
Structure conservation index 0.69
SVM decision value 3.52
SVM RNA-class probability 0.999334
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2976124 98 - 22407834
----------------------CGACAAGUCAGUUUCGGCUGACCGCGGACGCAGGCGUCCGGAGCAGCCGAUUUCGGAUGAUCGCGUUCGCAAGCGUGCGAAUGAUGAUAACUCGUCGG
----------------------((((..(((....(((((((..(.((((((....)))))))..))))))).....))).((((((((((((....)))))))).)))).....)))). ( -46.00)
>DroSec_CAF1 6106 98 - 1
----------------------CGACAAGUCAGUUUCGGCUGACCGCGGACGAAGGCGUCCGGAGCAUACGAUUUCGGAGGAUCGCGUUCGCAAGCGUGCGAAUGAUGAUAGCGCGUCGG
----------------------((((..((((((....)))))).(((((((....)))))...((...((....))....((((((((((((....)))))))).)))).)))))))). ( -40.00)
>DroSim_CAF1 6101 98 - 1
----------------------CGACAAGUCAGUUUCGGCUGACCGCGGACGCAGGCGUCCGGAGCAUACGAUUUCGGAGGAUCGCGUUCGCAAGCGUGCGAAUGAUGAUAACGCGUCGG
----------------------((((..((((((....)))))).((((((((...(.((((((((....).))))))).)...))))))))..((((.............)))))))). ( -41.92)
>DroEre_CAF1 6252 98 - 1
----------------------CGACAAGUCAGUUUCGACUGAUCGCGGACGCAGGCGUCCGGAGCUGCCGGUUCCGGGUGAUCGUGUUCGCAAGCGUCCGAACGAAGAAAACUUGUCGG
----------------------((((((((((((....)))))((((((((((......(((((((.....)))))))((((......))))..)))))))..)))......))))))). ( -45.70)
>DroYak_CAF1 6215 120 - 1
CUAACCGCGGACGCAGGCGUCCGGAGCAGCCAGUUCCGGAUGAACGCGGCCGCAAGCGUCCGGAGCAGCCAGUUCCGGAUGAACGCGGCCGCAAGCGUCCGAAUGAAGACAACUCGUCGG
....((.(((((((...((((((((((.....))))))))))...((((((((...((((((((((.....))))))))))...))))))))..)))))))......(((.....))))) ( -73.50)
>consensus
______________________CGACAAGUCAGUUUCGGCUGACCGCGGACGCAGGCGUCCGGAGCAGCCGAUUUCGGAUGAUCGCGUUCGCAAGCGUGCGAAUGAUGAUAACUCGUCGG
......................((((..((((((....)))))).((((((((...(((((((((.......)))))))))...)))))))).......................)))). (-34.12 = -34.40 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:52:56 2006