Locus 2082

Sequence ID 2R_DroMel_CAF1
Location 7,808,651 – 7,808,745
Length 94
Max. P 0.994398
window3448 window3449

overview

Window 8

Location 7,808,651 – 7,808,745
Length 94
Sequences 5
Columns 99
Reading direction forward
Mean pairwise identity 91.88
Mean single sequence MFE -28.27
Consensus MFE -23.52
Energy contribution -23.40
Covariance contribution -0.12
Combinations/Pair 1.08
Mean z-score -1.86
Structure conservation index 0.83
SVM decision value 1.41
SVM RNA-class probability 0.950805
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7808651 94 + 20766785
UUGUGUACGUUCACUUAGCUCCGAA-AAGGACUUGCUGCCUUUUUGUUGGCCAAA----UGUACAAGUCAACGAACUCAAGAGGCUAAGUGCGAAUUCG
.......((..((((((((..((((-((((.(.....))))))))((((((....----.......))))))........)..))))))))))...... ( -25.40)
>DroSec_CAF1 59677 94 + 1
UUGUGUACGUUCACUUAGCUCCGAA-AAGGACUUGCUGCCUUUUCGUUGGCCAAA----UGUACAAGUCAACGAACUCAAGUGGCUAAGUGCGAAUUCG
.......((..((((((((..((((-((((.(.....))))))))((((((....----.......))))))........)..))))))))))...... ( -28.30)
>DroSim_CAF1 62272 95 + 1
UUGUGUACGUUCACUUAGCUUCGAAAAAGGACUUGCUGCCUUUUCGUUGGCCAAA----UGUACAAGUCAACGAACUCAAGUGGCUAAGUGCGAAUUCG
.......((..(((((((((.(...(((((.(.....))))))((((((((....----.......))))))))......).)))))))))))...... ( -25.60)
>DroEre_CAF1 64120 94 + 1
UUGUGUAUGCUCACUUAGCUCCAAA-AAGGACUUGCUGCCUUUUCGUUGGCCGAA----UGUACAAGUCAACGAACUCAAGGGGCUAAGUGCGAAUUCG
.........(.(((((((((((..(-((((.(.....))))))((((((((....----.......))))))))......))))))))))).)...... ( -31.60)
>DroYak_CAF1 63578 98 + 1
UUGUGUGUGCUCACUUAGCCCCAAA-AAGGACUUGCUGCCUUUUCGUUGGCCAAAUAUAUGUACAAGUCAACGAACUCGACGGGCUAAGUGUGAAUUCG
.........(.((((((((((...(-((((.(.....))))))((((((((...............)))))))).......)))))))))).)...... ( -30.46)
>consensus
UUGUGUACGUUCACUUAGCUCCGAA_AAGGACUUGCUGCCUUUUCGUUGGCCAAA____UGUACAAGUCAACGAACUCAAGGGGCUAAGUGCGAAUUCG
...........(((((((((.(....((((.(.....)))))(((((((((...............))))))))).....).)))))))))........ (-23.52 = -23.40 +  -0.12)

alignment

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secondary structure

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dotplot

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Window 9

Location 7,808,651 – 7,808,745
Length 94
Sequences 5
Columns 99
Reading direction reverse
Mean pairwise identity 91.88
Mean single sequence MFE -27.26
Consensus MFE -24.10
Energy contribution -23.74
Covariance contribution -0.36
Combinations/Pair 1.12
Mean z-score -2.01
Structure conservation index 0.88
SVM decision value 2.48
SVM RNA-class probability 0.994398
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7808651 94 - 20766785
CGAAUUCGCACUUAGCCUCUUGAGUUCGUUGACUUGUACA----UUUGGCCAACAAAAAGGCAGCAAGUCCUU-UUCGGAGCUAAGUGAACGUACACAA
........((((((((.(((.(((......(((((((.(.----...)(((........))).)))))))...-))))))))))))))........... ( -25.30)
>DroSec_CAF1 59677 94 - 1
CGAAUUCGCACUUAGCCACUUGAGUUCGUUGACUUGUACA----UUUGGCCAACGAAAAGGCAGCAAGUCCUU-UUCGGAGCUAAGUGAACGUACACAA
(((((((((.....)).....))))))).......((.((----((((((...(((((((((.....).))))-))))..)))))))).))........ ( -27.50)
>DroSim_CAF1 62272 95 - 1
CGAAUUCGCACUUAGCCACUUGAGUUCGUUGACUUGUACA----UUUGGCCAACGAAAAGGCAGCAAGUCCUUUUUCGAAGCUAAGUGAACGUACACAA
........((((((((...(((((......(((((((.(.----...)(((........))).)))))))....))))).))))))))........... ( -24.60)
>DroEre_CAF1 64120 94 - 1
CGAAUUCGCACUUAGCCCCUUGAGUUCGUUGACUUGUACA----UUCGGCCAACGAAAAGGCAGCAAGUCCUU-UUUGGAGCUAAGUGAGCAUACACAA
........((((((((.((..(((......(((((((.(.----...)(((........))).))))))))))-...)).))))))))........... ( -25.90)
>DroYak_CAF1 63578 98 - 1
CGAAUUCACACUUAGCCCGUCGAGUUCGUUGACUUGUACAUAUAUUUGGCCAACGAAAAGGCAGCAAGUCCUU-UUUGGGGCUAAGUGAGCACACACAA
........((((((((((((((((((....)))))).))..............(((((((((.....).))))-))))))))))))))........... ( -33.00)
>consensus
CGAAUUCGCACUUAGCCACUUGAGUUCGUUGACUUGUACA____UUUGGCCAACGAAAAGGCAGCAAGUCCUU_UUCGGAGCUAAGUGAACGUACACAA
........((((((((...(((((......(((((((.((......))(((........))).)))))))....))))).))))))))........... (-24.10 = -23.74 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:46 2006