Locus 463

Sequence ID 3L_DroMel_CAF1
Location 1,334,663 – 1,334,783
Length 120
Max. P 0.930632
window680 window681

overview

Window 0

Location 1,334,663 – 1,334,783
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.89
Mean single sequence MFE -31.41
Consensus MFE -24.85
Energy contribution -25.85
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.42
Structure conservation index 0.79
SVM decision value -0.06
SVM RNA-class probability 0.505526
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1334663 120 + 23771897
AAUCAACAACUGUUACCCAAUUUAUUAAUAACAACAGAAAGAAGCCAAAGCAAAAUGCUGACCCGCGUGUUCCGCCUAGUGCACGACAGGCGCCUGAGUGUGCCUGUCCUGCGUUGCUUC
.........(((((..................)))))...(((((...(((.....)))(((..(((.....))).....(((.(((((((((......))))))))).))))))))))) ( -33.07)
>DroSec_CAF1 6907 117 + 1
AAUCAACAACUGUUACCCAAUUAAUUAAUAACAACAGAAAGCAG---AACCAAAAUGCUGACCCGCGUGUUCCGCCUGGUGCACGACAGGCGCCUGAGUGUGCCGGUCCUGCGUUGCUUC
.........(((((..................))))).(((((.---.......((((.((((.(((..(((((((((........))))))...)))..))).))))..))))))))). ( -33.97)
>DroSim_CAF1 6970 117 + 1
AAUCAACAACUGUUACCCAAUUAAUUAAUAACAACAGAUAGCAG---AACCAAAAUGCUGACCCGCGUGUUCCGCCUGGUGCACGACAGGCGCCUGAGUGUGCCUGUCCUGCGUUGCUUC
...((((..(((((..................)))))...((((---.........((......))((((.((....)).))))(((((((((......))))))))))))))))).... ( -34.57)
>DroEre_CAF1 6965 116 + 1
AAUAAACAACUGUUACCCAAUUAAUUAAUAACAACAGAAG-CCC---AAGCAAAAUGCUGACCCGCGUGUUCCGCCUGGUUCACGACAGGCGCCUGAGUGUGCCUGUCCUGCGUUGCUUC
..........(((((.............)))))...((((-(..---.(((.....)))....((((((..((....))..)))(((((((((......)))))))))..)))..))))) ( -32.92)
>DroYak_CAF1 7196 116 + 1
AAUAAACAACUGUUACCCAAUUAAUUAAUAACAACAUAAA-CCC---AAGCAAAAUGCUGACCCGCGUGUUCCGCCUGGUUCACGACAGACGACUGAGUGUGCCUGUCCUGCGUUGCUUC
..........(((((.............))))).......-...---(((((..((((.(((..(((..(((((.(((........))).))...)))..)))..)))..))))))))). ( -22.52)
>consensus
AAUCAACAACUGUUACCCAAUUAAUUAAUAACAACAGAAAGCAG___AAGCAAAAUGCUGACCCGCGUGUUCCGCCUGGUGCACGACAGGCGCCUGAGUGUGCCUGUCCUGCGUUGCUUC
.........(((((..................)))))..........(((((..((((.(((..(((..(((((((((........))))))...)))..)))..)))..))))))))). (-24.85 = -25.85 +   1.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 1,334,663 – 1,334,783
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.89
Mean single sequence MFE -40.44
Consensus MFE -32.28
Energy contribution -32.56
Covariance contribution 0.28
Combinations/Pair 1.06
Mean z-score -2.03
Structure conservation index 0.80
SVM decision value 1.21
SVM RNA-class probability 0.930632
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1334663 120 - 23771897
GAAGCAACGCAGGACAGGCACACUCAGGCGCCUGUCGUGCACUAGGCGGAACACGCGGGUCAGCAUUUUGCUUUGGCUUCUUUCUGUUGUUAUUAAUAAAUUGGGUAACAGUUGUUGAUU
(((((...(((.(((((((.(......).))))))).))).(.((((((((...((......)).)))))))).))))))...........((((((((.(((.....))))))))))). ( -39.70)
>DroSec_CAF1 6907 117 - 1
GAAGCAACGCAGGACCGGCACACUCAGGCGCCUGUCGUGCACCAGGCGGAACACGCGGGUCAGCAUUUUGGUU---CUGCUUUCUGUUGUUAUUAAUUAAUUGGGUAACAGUUGUUGAUU
..(((((((((((((((((((...(((....)))..))))(((..(((.....))).)))........)))))---)))).......((((((..(.....)..)))))))))))).... ( -40.50)
>DroSim_CAF1 6970 117 - 1
GAAGCAACGCAGGACAGGCACACUCAGGCGCCUGUCGUGCACCAGGCGGAACACGCGGGUCAGCAUUUUGGUU---CUGCUAUCUGUUGUUAUUAAUUAAUUGGGUAACAGUUGUUGAUU
..(((((((((.(((((((.(......).))))))).)))....((((((((..((......))......)))---)))))....))))))((((((.(((((.....))))))))))). ( -42.80)
>DroEre_CAF1 6965 116 - 1
GAAGCAACGCAGGACAGGCACACUCAGGCGCCUGUCGUGAACCAGGCGGAACACGCGGGUCAGCAUUUUGCUU---GGG-CUUCUGUUGUUAUUAAUUAAUUGGGUAACAGUUGUUUAUU
.((((((((((((((((((.(......).))))))).....((((((((((...((......)).))))))))---)).-...))))((((((..(.....)..)))))))))))))... ( -41.50)
>DroYak_CAF1 7196 116 - 1
GAAGCAACGCAGGACAGGCACACUCAGUCGUCUGUCGUGAACCAGGCGGAACACGCGGGUCAGCAUUUUGCUU---GGG-UUUAUGUUGUUAUUAAUUAAUUGGGUAACAGUUGUUUAUU
.(((((((.((.(((((((((.....)).))))))).))..((((((((((...((......)).))))))))---)).-.......((((((..(.....)..)))))))))))))... ( -37.70)
>consensus
GAAGCAACGCAGGACAGGCACACUCAGGCGCCUGUCGUGCACCAGGCGGAACACGCGGGUCAGCAUUUUGCUU___CUGCUUUCUGUUGUUAUUAAUUAAUUGGGUAACAGUUGUUGAUU
..(((((((((((((((((.(......).)))))))((..(((..(((.....))).)))..))...................))))((((((..(.....)..)))))))))))).... (-32.28 = -32.56 +   0.28)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:31 2006