Locus 2691

Sequence ID 3R_DroMel_CAF1
Location 7,241,150 – 7,241,243
Length 93
Max. P 0.754639
window4371 window4372

overview

Window 1

Location 7,241,150 – 7,241,243
Length 93
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 80.63
Mean single sequence MFE -24.48
Consensus MFE -13.31
Energy contribution -14.42
Covariance contribution 1.11
Combinations/Pair 1.11
Mean z-score -2.34
Structure conservation index 0.54
SVM decision value 0.48
SVM RNA-class probability 0.754639
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7241150 93 + 27905053
AGUUUGUACUCACAAACUGGCUCUCCCGCCAGAACUCCUUUUUCGGAAACUAUGAGCGAAAGGUGAGUGAAAUUG-----AGUUUACAAACUUUGCAU
((((((((((((....(((((......))))).((((.(((((((...........))))))).)))).....))-----)))..)))))))...... ( -27.70)
>DroSec_CAF1 2939 93 + 1
AGUUUGUGCUCACCAACUGGCUCUCCCGCCAGAACUCCUUUUUCGGAAACUAUGAGCGAAAGGUGAGUAAAAUUG-----AGUUUACGAACUUUCCAU
((((((((((((....(((((......))))).((((.(((((((...........))))))).)))).....))-----)))..)))))))...... ( -27.70)
>DroSim_CAF1 2738 93 + 1
AGUUUGUGCUCACCAACUGGCUCUCCCGCCAAAACUCCUUUUUCGGAAACUAUGAGCGAAAGGUGAGUGAAAUUG-----AGUUUACAAACUUUCCAU
((((((((((((.....((((......))))..((((.(((((((...........))))))).)))).....))-----)))..)))))))...... ( -24.70)
>DroEre_CAF1 2739 93 + 1
AGUUUGUUCUCACCAACUGGCUCUCCCGCCAGAACUCCUUUUUUGGCAACUAUGAGCGAAAGGUAAGUGAACUUG-----AAAUUCCAAACUUUCCUU
((((((.............((((....(((((((......)))))))......))))(((...((((....))))-----...)))))))))...... ( -21.20)
>DroYak_CAF1 2742 98 + 1
AGUUCGUUCUCACCAACUGGCUCUCUCGCCAGAACUCCUUUUUCGGAAACUACGAGCGCAAGGUAAGUGAACUUACUUCCAAUUUCCAAACAUAACUU
.((((((.........(((((......)))))...(((......)))....))))))...(((((((....))))))).................... ( -24.70)
>DroAna_CAF1 2765 92 + 1
AGUUCGUCCUCACUAACUGGCUUUCUCGCCAGAACUCCUUCUUCGGCAUAUAUGAACGAAAGGUAGUCCCUAUAG-----UUUUUUCAGCCACGG-AG
..(((((.........(((((......)))))............(((......((((...(((.....)))...)-----))).....)))))))-). ( -20.90)
>consensus
AGUUUGUGCUCACCAACUGGCUCUCCCGCCAGAACUCCUUUUUCGGAAACUAUGAGCGAAAGGUAAGUGAAAUUG_____AGUUUACAAACUUUCCAU
.(((((..((((....(((((......)))))...(((......))).....))))(....)........................)))))....... (-13.31 = -14.42 +   1.11)

alignment

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secondary structure

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dotplot

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Window 2

Location 7,241,150 – 7,241,243
Length 93
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 80.63
Mean single sequence MFE -25.78
Consensus MFE -16.07
Energy contribution -16.68
Covariance contribution 0.61
Combinations/Pair 1.13
Mean z-score -1.59
Structure conservation index 0.62
SVM decision value 0.08
SVM RNA-class probability 0.574605
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7241150 93 - 27905053
AUGCAAAGUUUGUAAACU-----CAAUUUCACUCACCUUUCGCUCAUAGUUUCCGAAAAAGGAGUUCUGGCGGGAGAGCCAGUUUGUGAGUACAAACU
......(((((((..(((-----((.....(((..(((..(((.((....((((......))))...)))))..)).)..)))...)))))))))))) ( -26.20)
>DroSec_CAF1 2939 93 - 1
AUGGAAAGUUCGUAAACU-----CAAUUUUACUCACCUUUCGCUCAUAGUUUCCGAAAAAGGAGUUCUGGCGGGAGAGCCAGUUGGUGAGCACAAACU
...(((((...(((((..-----....)))))....)))))((((((...((((......))))..(((((......)))))...))))))....... ( -26.60)
>DroSim_CAF1 2738 93 - 1
AUGGAAAGUUUGUAAACU-----CAAUUUCACUCACCUUUCGCUCAUAGUUUCCGAAAAAGGAGUUUUGGCGGGAGAGCCAGUUGGUGAGCACAAACU
......(((((((...((-----(............((..(((.((....((((......))))...)))))..)).(((....)))))).))))))) ( -25.70)
>DroEre_CAF1 2739 93 - 1
AAGGAAAGUUUGGAAUUU-----CAAGUUCACUUACCUUUCGCUCAUAGUUGCCAAAAAAGGAGUUCUGGCGGGAGAGCCAGUUGGUGAGAACAAACU
......((((((((((..-----...)))).((((((....((((....((....))....)))).(((((......)))))..))))))..)))))) ( -25.90)
>DroYak_CAF1 2742 98 - 1
AAGUUAUGUUUGGAAAUUGGAAGUAAGUUCACUUACCUUGCGCUCGUAGUUUCCGAAAAAGGAGUUCUGGCGAGAGAGCCAGUUGGUGAGAACGAACU
.((((.(((((...((((((..(((((....)))))(((...(((((((.((((......))))..)).))))).))))))))).....))))))))) ( -27.30)
>DroAna_CAF1 2765 92 - 1
CU-CCGUGGCUGAAAAAA-----CUAUAGGGACUACCUUUCGUUCAUAUAUGCCGAAGAAGGAGUUCUGGCGAGAAAGCCAGUUAGUGAGGACGAACU
.(-((.(.(((((.....-----.....((((((.(((((..(((.........))))))))))))))(((......)))..))))).))))...... ( -23.00)
>consensus
AUGGAAAGUUUGUAAACU_____CAAUUUCACUCACCUUUCGCUCAUAGUUUCCGAAAAAGGAGUUCUGGCGGGAGAGCCAGUUGGUGAGAACAAACU
...............................((((((.............((((......))))..(((((......)))))..))))))........ (-16.07 = -16.68 +   0.61)

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 10:42:24 2006