Locus 4389

Sequence ID 3L_DroMel_CAF1
Location 12,862,058 – 12,862,218
Length 160
Max. P 0.585009
window6800 window6801

overview

Window 0

Location 12,862,058 – 12,862,178
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.06
Mean single sequence MFE -32.61
Consensus MFE -21.36
Energy contribution -20.76
Covariance contribution -0.60
Combinations/Pair 1.52
Mean z-score -1.29
Structure conservation index 0.66
SVM decision value -0.03
SVM RNA-class probability 0.517802
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12862058 120 + 23771897
GUAGUUCAGCUAAAACAUGGAGAAGCCCUUGAGUUCCACUGCAUCAAUUCUUUCAGUGGACCCUUCUCUGGUUAUACCUUCGUCAAUUCAACAUGCUGGCAACAGCAGAGCAUCCUGGCA
...((((.........((((((.((((...(((.(((((((.(........).))))))).....))).))))....))))))..........(((((....)))))))))......... ( -31.40)
>DroSec_CAF1 100460 120 + 1
UUAGUUCAGCUAAAACAUGGAGAAGCCCUUGAGUUCCACUGCAUCAAGUCCUUCAGUGGACCCUUCUCUGGUUAUACCUUUGUCAAUUCAACAUGCUGGCAACAGCAGAGCAUCCUGGCA
((((.....))))(((.((((((((...((((((......)).))))((((......)))).))))))))))).......(((((........(((((....)))))........))))) ( -31.99)
>DroSim_CAF1 101821 120 + 1
GUAGUUCAGCUAAAACAUGGGGAAGCCCUUGAGUUCCACUGCAUCAAGUCCUUCAGUGGACUCUUCUCUGGUUAUACAUUCGUCAAUUCAACAUGCUGGCAACAGCAGAGCAUCCUGGCA
(((..((((.........(((....)))..((((.((((((............))))))))))....))))...)))....((((........(((((....)))))........)))). ( -35.89)
>DroEre_CAF1 105849 120 + 1
AUAGUUCAGUUAAAACAUGGAGAGGCCCUAGAGUUUCACUGCAUCAAGUCCUUCAGUGGACUUUUCUCUGGUUAUACCUUCGUGAAUGCAACAUGCUGGCAACAGCAGAGUUUCCUCACA
...............(((((((.(...((((((............((((((......))))))..)))))).....)))))))).........(((((....)))))(((....)))... ( -31.44)
>DroWil_CAF1 135956 120 + 1
UUAGUGGAAUUGAAACAUGGUGAGGCCAUGGAAUUACAUUGUCUUGGUGCGUUCAUUCAGCCAUUUGCCACAUAUCGACAAGUGACUGUCAGCUGCUGGCAGAAACAGAUCUUCCUCGCC
..................(((((((....(((.((((.(((((...(((.((..............))))).....)))))))))(((((((...))))))).......))).))))))) ( -29.24)
>DroYak_CAF1 111848 120 + 1
AUAGUUCAGUUAAAACAUGGAGAGGCCCUAGAGUUUCACUGCAUCAAGUCCUUCAGUGGACUCUUCUCGGGUUACACCUUCGUGAAUUCAACAUGUUGGCAACAGCAGAGCUUCCUGACA
..(((((........(((((((.(((((.((((((.(((((............)))))))))))....)))))....))))))).........(((((....))))))))))........ ( -35.70)
>consensus
AUAGUUCAGCUAAAACAUGGAGAAGCCCUUGAGUUCCACUGCAUCAAGUCCUUCAGUGGACCCUUCUCUGGUUAUACCUUCGUCAAUUCAACAUGCUGGCAACAGCAGAGCAUCCUGGCA
.............(((.((((((((.....((((......)).)).(((((......))))))))))))))))........((((........(((((....)))))........)))). (-21.36 = -20.76 +  -0.60)

alignment

Postscript

secondary structure

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dotplot

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Window 1

Location 12,862,098 – 12,862,218
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.44
Mean single sequence MFE -34.88
Consensus MFE -23.17
Energy contribution -23.49
Covariance contribution 0.32
Combinations/Pair 1.44
Mean z-score -1.39
Structure conservation index 0.66
SVM decision value 0.10
SVM RNA-class probability 0.585009
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12862098 120 + 23771897
GCAUCAAUUCUUUCAGUGGACCCUUCUCUGGUUAUACCUUCGUCAAUUCAACAUGCUGGCAACAGCAGAGCAUCCUGGCAAUGGGCAGUUUGUAUCAGCUGCAGGACUUUGUCUGCACUU
...............(..(((((......)).....(((..((((........(((((....)))))........)))).....((((((......))))))))).....)))..).... ( -31.09)
>DroSec_CAF1 100500 120 + 1
GCAUCAAGUCCUUCAGUGGACCCUUCUCUGGUUAUACCUUUGUCAAUUCAACAUGCUGGCAACAGCAGAGCAUCCUGGCAAUGGGCAGCUUGUAUCAGCUGCAGGACUUUGUCUGCACUU
(((.((((((((((((.(((...))).)))).....((.((((((........(((((....)))))........)))))).))((((((......))))))))))).)))..))).... ( -42.09)
>DroSim_CAF1 101861 120 + 1
GCAUCAAGUCCUUCAGUGGACUCUUCUCUGGUUAUACAUUCGUCAAUUCAACAUGCUGGCAACAGCAGAGCAUCCUGGCAAUGGGCAGUUUGUAUCAGCUGCAGGACUUUGUCUGCACUU
(((.((((((((((((.(((...))).)))).....((((.((((........(((((....)))))........)))))))).((((((......))))))))))).)))..))).... ( -36.89)
>DroEre_CAF1 105889 120 + 1
GCAUCAAGUCCUUCAGUGGACUUUUCUCUGGUUAUACCUUCGUGAAUGCAACAUGCUGGCAACAGCAGAGUUUCCUCACAAUGGGCAGUUUGUACCAGCUGCAGGACUUUGUCUGCACAU
(((.((((((((((((.(((...))).)))).....((...((((..(.(((.(((((....)))))..))).).))))...))((((((......))))))))))).)))..))).... ( -37.60)
>DroWil_CAF1 135996 120 + 1
GUCUUGGUGCGUUCAUUCAGCCAUUUGCCACAUAUCGACAAGUGACUGUCAGCUGCUGGCAGAAACAGAUCUUCCUCGCCUUCGGUAGUCUUUAUAAUUUCCAGAAGUUUGUGUGCUCAU
....((((..(......).))))...((((((....((((......))))((((.((((.......(((.((.((........)).))))).........)))).)))))))).)).... ( -22.69)
>DroYak_CAF1 111888 120 + 1
GCAUCAAGUCCUUCAGUGGACUCUUCUCGGGUUACACCUUCGUGAAUUCAACAUGUUGGCAACAGCAGAGCUUCCUGACAAUGGGCAGUUUGUAUCAGCUGCAGGACUUCGUCUGCACAU
(((.((((((((((((.((((((.....(((((.(((....))))))))....(((((....)))))))).)))))))......((((((......))))))))))))).)..))).... ( -38.90)
>consensus
GCAUCAAGUCCUUCAGUGGACCCUUCUCUGGUUAUACCUUCGUCAAUUCAACAUGCUGGCAACAGCAGAGCAUCCUGGCAAUGGGCAGUUUGUAUCAGCUGCAGGACUUUGUCUGCACAU
(((..(((((((...(((((((.......)))).)))....((((........(((((....)))))........)))).....((((((......)))))))))))))....))).... (-23.17 = -23.49 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:21:22 2006