Locus 3435

Sequence ID 3L_DroMel_CAF1
Location 10,076,614 – 10,076,705
Length 91
Max. P 0.802043
window5365 window5366

overview

Window 5

Location 10,076,614 – 10,076,705
Length 91
Sequences 6
Columns 91
Reading direction forward
Mean pairwise identity 82.80
Mean single sequence MFE -20.50
Consensus MFE -14.94
Energy contribution -15.33
Covariance contribution 0.39
Combinations/Pair 1.15
Mean z-score -2.31
Structure conservation index 0.73
SVM decision value 0.62
SVM RNA-class probability 0.802043
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10076614 91 + 23771897
ACAUAAACUUGGCUAGAAACAAAAGCCAAGUGGGCUCGCAUCGUGCAGUAAAUUCUCUCUGCUUCUACGAAAUUUUUAAAAUGAGAGAGAA
......((((((((.........))))))))..(((.((.....)))))...((((((((.(....................))))))))) ( -21.35)
>DroSec_CAF1 15871 90 + 1
ACAUAAACUUGGCUAGAAACAAAAGCCAAGUGGGCUCGCAUCGUGCAGAAAAUUCUCUCUGCUCCUACGGAAUG-UAAAAAUGAGAGAGAA
......((((((((.........))))))))...(((...(((((((((........)))))(((...)))...-.....))))..))).. ( -23.30)
>DroSim_CAF1 16235 90 + 1
ACAUAAACUUGGCUAGAAACAAAAGCCAAGUGGGCUCGCAUCGUGCAGAAAAUUCUCUCUGCUCCUACGGAAUG-UAAAAAUGAGAGAGAA
......((((((((.........))))))))...(((...(((((((((........)))))(((...)))...-.....))))..))).. ( -23.30)
>DroEre_CAF1 16529 90 + 1
ACAUAAACUUGGCUAGAAACAAAAGCCAAGUGGGCUCGCAUCGUGCUGAAAAUUCUCUUUUCUGCUACGGCAUA-UAAAAACAAGAGAGAA
......((((((((.........)))))))).(((.((...)).))).....(((((((((.(((....)))..-.......))))))))) ( -23.60)
>DroYak_CAF1 17341 90 + 1
ACAUAAACUUGGCUAGAAACAAAAGCCAAGUGGGUUCGCAUCGUGCAGAAAAUGCUCUCUUUUGCCACAGAAUA-UAAAAAUAAGAGAGAA
......((((((((.........))))))))...(((((.....)).)))....(((((((.............-.......))))))).. ( -19.55)
>DroAna_CAF1 15552 71 + 1
ACAUAAACUUGGCAGAAAACAAAAGCCAAGUGGGUUUGCCUCAUGA--AAAUUUCUCUCU-------------A-UAAA-AU---AAAGAA
.(((..(((((((...........)))))))(((....))).))).--............-------------.-....-..---...... ( -11.90)
>consensus
ACAUAAACUUGGCUAGAAACAAAAGCCAAGUGGGCUCGCAUCGUGCAGAAAAUUCUCUCUGCUCCUACGGAAUA_UAAAAAUGAGAGAGAA
......((((((((.........))))))))..((.((...)).))......((((((((.......................)))))))) (-14.94 = -15.33 +   0.39)

alignment

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secondary structure

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dotplot

Postscript

Window 6

Location 10,076,614 – 10,076,705
Length 91
Sequences 6
Columns 91
Reading direction reverse
Mean pairwise identity 82.80
Mean single sequence MFE -20.85
Consensus MFE -14.19
Energy contribution -15.05
Covariance contribution 0.86
Combinations/Pair 1.06
Mean z-score -1.95
Structure conservation index 0.68
SVM decision value 0.22
SVM RNA-class probability 0.641237
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10076614 91 - 23771897
UUCUCUCUCAUUUUAAAAAUUUCGUAGAAGCAGAGAGAAUUUACUGCACGAUGCGAGCCCACUUGGCUUUUGUUUCUAGCCAAGUUUAUGU
((((((((..(((((.........)))))..)))))))).....(((.....))).....((((((((.........))))))))...... ( -21.80)
>DroSec_CAF1 15871 90 - 1
UUCUCUCUCAUUUUUA-CAUUCCGUAGGAGCAGAGAGAAUUUUCUGCACGAUGCGAGCCCACUUGGCUUUUGUUUCUAGCCAAGUUUAUGU
((((((((..((((((-(.....))))))).)))))))).....(((.....))).....((((((((.........))))))))...... ( -25.00)
>DroSim_CAF1 16235 90 - 1
UUCUCUCUCAUUUUUA-CAUUCCGUAGGAGCAGAGAGAAUUUUCUGCACGAUGCGAGCCCACUUGGCUUUUGUUUCUAGCCAAGUUUAUGU
((((((((..((((((-(.....))))))).)))))))).....(((.....))).....((((((((.........))))))))...... ( -25.00)
>DroEre_CAF1 16529 90 - 1
UUCUCUCUUGUUUUUA-UAUGCCGUAGCAGAAAAGAGAAUUUUCAGCACGAUGCGAGCCCACUUGGCUUUUGUUUCUAGCCAAGUUUAUGU
................-..((((((.((.(((((.....))))).)))))..))).....((((((((.........))))))))...... ( -18.80)
>DroYak_CAF1 17341 90 - 1
UUCUCUCUUAUUUUUA-UAUUCUGUGGCAAAAGAGAGCAUUUUCUGCACGAUGCGAACCCACUUGGCUUUUGUUUCUAGCCAAGUUUAUGU
(((((((((.((.(((-(.....)))).))))))))(((((........))))))))...((((((((.........))))))))...... ( -19.30)
>DroAna_CAF1 15552 71 - 1
UUCUUU---AU-UUUA-U-------------AGAGAGAAAUUU--UCAUGAGGCAAACCCACUUGGCUUUUGUUUUCUGCCAAGUUUAUGU
((((((---((-...)-)-------------))))))......--.(((((((.....))(((((((...........)))))))))))). ( -15.20)
>consensus
UUCUCUCUCAUUUUUA_UAUUCCGUAGCAGCAGAGAGAAUUUUCUGCACGAUGCGAGCCCACUUGGCUUUUGUUUCUAGCCAAGUUUAUGU
((((((((.......................))))))))......((.....))......((((((((.........))))))))...... (-14.19 = -15.05 +   0.86)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:03 2006