Locus 538

Sequence ID X_DroMel_CAF1
Location 1,532,839 – 1,532,935
Length 96
Max. P 0.996261
window848 window849

overview

Window 8

Location 1,532,839 – 1,532,935
Length 96
Sequences 4
Columns 102
Reading direction forward
Mean pairwise identity 94.28
Mean single sequence MFE -58.38
Consensus MFE -56.24
Energy contribution -55.42
Covariance contribution -0.81
Combinations/Pair 1.11
Mean z-score -3.59
Structure conservation index 0.96
SVM decision value 2.67
SVM RNA-class probability 0.996261
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1532839 96 + 22224390
GUGGCUUGCUGCUGCUGCCGCCGUUGGCCAGGCUGGUCGAGGACGA------GGUCUCGCUGGCCCGCGGGCCAGUCGGUGGCGGCCCAGGCAGUUCGCCAU
(((((..((((((((((((((((((((((.(((..(.(((((....------..))))))..)))....)))))).))))))))))...))))))..))))) ( -63.20)
>DroSec_CAF1 5822 96 + 1
GUGGCUUGUUGCUGCUGCCGCCGUUGGUCAGGCUGGUCGAGGACGA------GGUCUCGCUGGCCCGCGGGCCAGUCGGUGGCGGCCCAGGCAGUUCGCCAU
(((((..((((((((((((((((((((((.(((..(.(((((....------..))))))..)))....)))))).))))))))))...))))))..))))) ( -55.20)
>DroEre_CAF1 5722 96 + 1
GUGGCUUGUUGCUGCUGCCGCCGUUGGCCAGGCUGGUCGAGGACGA------GGUCUCGCUGGCCCGCGGGCCAGUCGGUGGCGGCCCAGACAGUUCGCCAU
((((((((((...((((((((((((((((.(((..(.(((((....------..))))))..)))....)))))).))))))))))...)))))...))))) ( -56.80)
>DroYak_CAF1 5695 102 + 1
GUGGCUUGUUGCUGCUGCCGCCGUUGGCCAGGCUGGUCGAGGACGAGGUUGAGGUCUCACUGGCCCGCGGGCCAGUCGGUGGCGGCACAGACAGUUCGCCAU
((((((((((..(((((((((((((((((.(((..((.(((..(........)..)))))..)))....)))))).)))))))))))..)))))...))))) ( -58.30)
>consensus
GUGGCUUGUUGCUGCUGCCGCCGUUGGCCAGGCUGGUCGAGGACGA______GGUCUCGCUGGCCCGCGGGCCAGUCGGUGGCGGCCCAGACAGUUCGCCAU
((((((((((...((((((((((((((((.(((..((.(((..(........)..)))))..)))....)))))).))))))))))...)))))...))))) (-56.24 = -55.42 +  -0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 1,532,839 – 1,532,935
Length 96
Sequences 4
Columns 102
Reading direction reverse
Mean pairwise identity 94.28
Mean single sequence MFE -43.27
Consensus MFE -40.39
Energy contribution -40.20
Covariance contribution -0.19
Combinations/Pair 1.04
Mean z-score -1.85
Structure conservation index 0.93
SVM decision value 1.05
SVM RNA-class probability 0.907627
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1532839 96 - 22224390
AUGGCGAACUGCCUGGGCCGCCACCGACUGGCCCGCGGGCCAGCGAGACC------UCGUCCUCGACCAGCCUGGCCAACGGCGGCAGCAGCAGCAAGCCAC
.((((...((((.((.((((((.....((((((....))))))((((...------.....))))...............))))))..))))))...)))). ( -45.10)
>DroSec_CAF1 5822 96 - 1
AUGGCGAACUGCCUGGGCCGCCACCGACUGGCCCGCGGGCCAGCGAGACC------UCGUCCUCGACCAGCCUGACCAACGGCGGCAGCAGCAACAAGCCAC
.((((....(((.((.((((((.....((((((....))))))((((...------.....))))...............))))))..)))))....)))). ( -42.00)
>DroEre_CAF1 5722 96 - 1
AUGGCGAACUGUCUGGGCCGCCACCGACUGGCCCGCGGGCCAGCGAGACC------UCGUCCUCGACCAGCCUGGCCAACGGCGGCAGCAGCAACAAGCCAC
.((((....((.(((.((((((.....((((((....))))))((((...------.....))))...............))))))..)))))....)))). ( -42.00)
>DroYak_CAF1 5695 102 - 1
AUGGCGAACUGUCUGUGCCGCCACCGACUGGCCCGCGGGCCAGUGAGACCUCAACCUCGUCCUCGACCAGCCUGGCCAACGGCGGCAGCAGCAACAAGCCAC
.((((....((.((((((((((..(((((((((....)))))))(((........))).....)).((.....)).....))))))).)))))....)))). ( -44.00)
>consensus
AUGGCGAACUGCCUGGGCCGCCACCGACUGGCCCGCGGGCCAGCGAGACC______UCGUCCUCGACCAGCCUGGCCAACGGCGGCAGCAGCAACAAGCCAC
.((((....((.(((.((((((.....((((((....))))))((((((.........)).))))...............))))))..)))))....)))). (-40.39 = -40.20 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:14 2006