Locus 6941

Sequence ID 2L_DroMel_CAF1
Location 19,310,934 – 19,311,054
Length 120
Max. P 0.919885
window11065 window11066

overview

Window 5

Location 19,310,934 – 19,311,054
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.89
Mean single sequence MFE -50.08
Consensus MFE -44.00
Energy contribution -43.44
Covariance contribution -0.56
Combinations/Pair 1.08
Mean z-score -1.52
Structure conservation index 0.88
SVM decision value 1.05
SVM RNA-class probability 0.906267
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19310934 120 + 22407834
AAAACGGUGGGCUUUCCGGGGGAGGGGCCGGAAAAAAUCUGGUCUGAAAUCUGGCGGCUCCGCGGGAAAUACGGCGACCAGCAGUCGCCGUCGUUGACGUCAGUCGUGUCAUGGGCCACG
......((((.((((((.(.((((..((((((.....((......))..))))))..)))).).))))..((((((((.....))))))))...(((((.(....)))))).)).)))). ( -48.50)
>DroSec_CAF1 3776 119 + 1
AAAACGG-GGGCUUCCCGGGGACGGGGCCGGAAAAAAUCUGGUCUGAAAUCUGGCGGCUCCGCGGGAAAUACGGCGACCAGCAGUCGCCGCCGUUGACGUCAGUCGUGUCAUGGGCCACG
....(((-(((((.((((....))))((((((.....((......))..)))))))))))).))((.....(((((((.....)))))))((((.((((.(....))))))))).))... ( -50.40)
>DroSim_CAF1 4247 120 + 1
AAAACGGCGGGCUUCCCGGCGGAGGGGCCGGAAAAAAUCUGGUCUGAAAUCUGGCGGCUCCGCGGGAAAUACGGCGACCAGCAGUCGCCACCGUUGACGUCAGUCGUGUCAUGGGCCACG
.....(((....((((((.(((((..((((((.....((......))..))))))..)))))))))))....((((((.....)))))).((((.((((.(....))))))))))))... ( -51.50)
>DroEre_CAF1 3247 116 + 1
AAAACGG--GGUUUCCCGG--GAGGGGCCGGAAAAAAUCUGGUCUGAAAUCUGGCGGCUCCGCGGGAAAUACGGCGACCAGCAGUCGCCUCCGUUGACGUCAGUCGUGUCAUGGGCCACG
..(((((--((((((((((--(((..((((((.....((......))..))))))..)))).))))))))..((((((.....))))))))))))(((....)))(((........))). ( -50.00)
>DroYak_CAF1 3811 116 + 1
AAAACGG--GGUUUCCCGG--GAGGGGCCGGAAAAAAUCUGGUCUGAAAUCUGGCGGCUCCGCGGGAAAUACGGCGACCAACAGUCGCCUCCGUUGACGUCAGUCGUGUCAUGGGCCACG
..(((((--((((((((((--(((..((((((.....((......))..))))))..)))).))))))))..((((((.....))))))))))))(((....)))(((........))). ( -50.00)
>consensus
AAAACGG_GGGCUUCCCGG_GGAGGGGCCGGAAAAAAUCUGGUCUGAAAUCUGGCGGCUCCGCGGGAAAUACGGCGACCAGCAGUCGCCGCCGUUGACGUCAGUCGUGUCAUGGGCCACG
....((...((((((((.......((((((((.....))))))))........(((....))))))))....((((((.....)))))).((((.((((.(....)))))))))))).)) (-44.00 = -43.44 +  -0.56)

alignment

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secondary structure

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dotplot

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Window 6

Location 19,310,934 – 19,311,054
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.89
Mean single sequence MFE -45.66
Consensus MFE -39.34
Energy contribution -39.50
Covariance contribution 0.16
Combinations/Pair 1.03
Mean z-score -1.63
Structure conservation index 0.86
SVM decision value 1.13
SVM RNA-class probability 0.919885
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19310934 120 - 22407834
CGUGGCCCAUGACACGACUGACGUCAACGACGGCGACUGCUGGUCGCCGUAUUUCCCGCGGAGCCGCCAGAUUUCAGACCAGAUUUUUUCCGGCCCCUCCCCCGGAAAGCCCACCGUUUU
.((((............((((.(((....((((((((.....)))))))).......(((....)))..))).))))........((((((((........)))))))).))))...... ( -40.80)
>DroSec_CAF1 3776 119 - 1
CGUGGCCCAUGACACGACUGACGUCAACGGCGGCGACUGCUGGUCGCCGUAUUUCCCGCGGAGCCGCCAGAUUUCAGACCAGAUUUUUUCCGGCCCCGUCCCCGGGAAGCCC-CCGUUUU
.(((........)))(((....)))((((((((((((.....)))))))..((((((((((.((((..(((..((......))..)))..)))).)))....)))))))...-))))).. ( -45.40)
>DroSim_CAF1 4247 120 - 1
CGUGGCCCAUGACACGACUGACGUCAACGGUGGCGACUGCUGGUCGCCGUAUUUCCCGCGGAGCCGCCAGAUUUCAGACCAGAUUUUUUCCGGCCCCUCCGCCGGGAAGCCCGCCGUUUU
.(((........)))(((....)))((((((((((((.....))))))(..((((((((((((..(((.((..((......)).....)).)))..))))).)))))))..))))))).. ( -50.50)
>DroEre_CAF1 3247 116 - 1
CGUGGCCCAUGACACGACUGACGUCAACGGAGGCGACUGCUGGUCGCCGUAUUUCCCGCGGAGCCGCCAGAUUUCAGACCAGAUUUUUUCCGGCCCCUC--CCGGGAAACC--CCGUUUU
.(((........)))(((....)))(((((.((((((.....))))))...(((((((.((((..(((.((..((......)).....)).)))..)))--))))))))..--))))).. ( -45.80)
>DroYak_CAF1 3811 116 - 1
CGUGGCCCAUGACACGACUGACGUCAACGGAGGCGACUGUUGGUCGCCGUAUUUCCCGCGGAGCCGCCAGAUUUCAGACCAGAUUUUUUCCGGCCCCUC--CCGGGAAACC--CCGUUUU
.(((........)))(((....)))(((((.((((((.....))))))...(((((((.((((..(((.((..((......)).....)).)))..)))--))))))))..--))))).. ( -45.80)
>consensus
CGUGGCCCAUGACACGACUGACGUCAACGGAGGCGACUGCUGGUCGCCGUAUUUCCCGCGGAGCCGCCAGAUUUCAGACCAGAUUUUUUCCGGCCCCUCC_CCGGGAAGCCC_CCGUUUU
.(((........)))(((....)))(((((.((((((.....))))))...(((((((.((.((((..(((..((......))..)))..)))).)).....)))))))....))))).. (-39.34 = -39.50 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:23:27 2006