Locus 7680

Sequence ID 3L_DroMel_CAF1
Location 20,583,598 – 20,583,753
Length 155
Max. P 0.839234
window12481 window12482

overview

Window 1

Location 20,583,598 – 20,583,716
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.96
Mean single sequence MFE -34.44
Consensus MFE -33.46
Energy contribution -33.30
Covariance contribution -0.16
Combinations/Pair 1.13
Mean z-score -1.22
Structure conservation index 0.97
SVM decision value 0.74
SVM RNA-class probability 0.839234
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20583598 118 + 23771897
GUAAUUUCUGCAUGUUGUUUAUGGGCCUCGCAACGCUCUCAACGGGGGGAUGAGUUCGAC--UCGGACUCGAGUUCAUAAUAAAAUUUAUGAGCAAUGCCCUGUUUUGGAAUUGAGCAAA
.(((((((.((.(((((.....((((........)))).)))))((((.(((((((((..--.)))))))..((((((((......)))))))).)).))))))...)))))))...... ( -35.40)
>DroSec_CAF1 28313 118 + 1
GUAAUUUCUGCAUGUUGUUUAUGGGCCUCGCAACGCUCUCAACGGGGGGAUGAGUUCGAC--UGGGACUCGAGUUCAUAAUAAAAUUUAUGAGCAAUGCCCUGUUUUGGAAUUGAGCAAA
.(((((((.((.(((((.....((((........)))).)))))((((.((((((((...--..))))))..((((((((......)))))))).)).))))))...)))))))...... ( -34.70)
>DroAna_CAF1 49735 120 + 1
GUAAUUUCUGCAUGUUGUUUAUGAGCCUCGCAACGCUCUCGACGGGGGGAUGAGUUCGGCUCUCGGGUUCGAGUUCAUAAUAAAAUUUAUGAGCAAUGCCCUGUUUUGGAAUUGAGCAAA
.(((((((.(((..........(((((..((....(((((....)))))....))..)))))..((((....((((((((......))))))))...)))))))...)))))))...... ( -34.70)
>DroSim_CAF1 21847 118 + 1
GUAAUUUCUGCAUGUUGUUUAUGGGCCUCGCAACGCUCUCAACGGGGGGAUGAGUUCGAC--UGGGACUCGAGUUCAUAAUAAAAUUUAUGAGCAAUGCCCUGUUUUGGAAUUGAGCAAA
.(((((((.((.(((((.....((((........)))).)))))((((.((((((((...--..))))))..((((((((......)))))))).)).))))))...)))))))...... ( -34.70)
>DroEre_CAF1 21441 118 + 1
GUAAUUUCUGCAUGUUGUUUAUGGGCCUCGCAACGCUCUCAACGGGGGGAUGAGUUCGCC--UCGGCCUCGAGUUCAUAAUAAAAUUUAUGAGCAAUGCCCUGUUUUGGAAAUAAGCAAA
(((.....)))...((((((((((((........))))..(((((((.(.((((..((..--.))..)))).((((((((......))))))))..).)))))))......)))))))). ( -32.70)
>consensus
GUAAUUUCUGCAUGUUGUUUAUGGGCCUCGCAACGCUCUCAACGGGGGGAUGAGUUCGAC__UCGGACUCGAGUUCAUAAUAAAAUUUAUGAGCAAUGCCCUGUUUUGGAAUUGAGCAAA
(((.....)))...(((((((.((((........))))..(((((((.(.((((((((.....)))))))).((((((((......))))))))..).))))))).......))))))). (-33.46 = -33.30 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 2

Location 20,583,638 – 20,583,753
Length 115
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.33
Mean single sequence MFE -33.36
Consensus MFE -24.46
Energy contribution -24.62
Covariance contribution 0.16
Combinations/Pair 1.12
Mean z-score -1.84
Structure conservation index 0.73
SVM decision value 0.36
SVM RNA-class probability 0.705360
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20583638 115 + 23771897
AACGGGGGGAUGAGUUCGAC--UCGGACUCGAGUUCAUAAUAAAAUUUAUGAGCAAUGCCCUGUUUUGGAAUUGAGCAAAUCAAAAAAGGAAGGGGCCCACUGAG---GAGGCACAUGUG
..(((.((..((((((((..--.)))))))).((((((((......))))))))...(((((.((((....((((.....))))...)))).))))))).)))..---............ ( -32.80)
>DroSec_CAF1 28353 118 + 1
AACGGGGGGAUGAGUUCGAC--UGGGACUCGAGUUCAUAAUAAAAUUUAUGAGCAAUGCCCUGUUUUGGAAUUGAGCAAAUCAAAAAAGGAAGGGGCCCACUGCGGCGGAGUCACAUGUG
..((.((((.(((((((...--..))))))).((((((((......))))))))...(((((.((((....((((.....))))...)))).))))))).)).))............... ( -34.00)
>DroAna_CAF1 49775 116 + 1
GACGGGGGGAUGAGUUCGGCUCUCGGGUUCGAGUUCAUAAUAAAAUUUAUGAGCAAUGCCCUGUUUUGGAAUUGAGCAAAUCAAAAGACCUGGAUAUA-AAA---AAGGAGUCACAUGUG
(((.((((.(((((..((.....))..)))..((((((((......)))))))).)).))))(((..((..((((.....))))....))..)))...-...---.....)))....... ( -28.60)
>DroSim_CAF1 21887 117 + 1
AACGGGGGGAUGAGUUCGAC--UGGGACUCGAGUUCAUAAUAAAAUUUAUGAGCAAUGCCCUGUUUUGGAAUUGAGCAAAUCAAA-AAGGAAGGGGCCCACUGCGGCGGAGUCACAUGUG
..((.((((.(((((((...--..))))))).((((((((......))))))))...(((((.((((....((((.....)))).-.)))).))))))).)).))............... ( -33.70)
>DroEre_CAF1 21481 114 + 1
AACGGGGGGAUGAGUUCGCC--UCGGCCUCGAGUUCAUAAUAAAAUUUAUGAGCAAUGCCCUGUUUUGGAAAUAAGCAAAUCAAAAAAGGAAGGGGCC-ACA---AAGGAGGCACAUGUG
..(((((.((.....)).))--)))(((((..((((((((......))))))))...(((((.((((((...........))))))......))))).-...---...)))))....... ( -37.70)
>consensus
AACGGGGGGAUGAGUUCGAC__UCGGACUCGAGUUCAUAAUAAAAUUUAUGAGCAAUGCCCUGUUUUGGAAUUGAGCAAAUCAAAAAAGGAAGGGGCCCACUG_GAAGGAGUCACAUGUG
(((((((.(.((((((((.....)))))))).((((((((......))))))))..).)))))))....................................................... (-24.46 = -24.62 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:53:40 2006