Locus 6638

Sequence ID 3L_DroMel_CAF1
Location 17,667,552 – 17,667,657
Length 105
Max. P 0.938455
window10794 window10795

overview

Window 4

Location 17,667,552 – 17,667,657
Length 105
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 87.58
Mean single sequence MFE -34.80
Consensus MFE -25.92
Energy contribution -25.92
Covariance contribution -0.00
Combinations/Pair 1.16
Mean z-score -1.60
Structure conservation index 0.74
SVM decision value 0.08
SVM RNA-class probability 0.574125
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17667552 105 + 23771897
GGCAG--GUGUGGGCGAUUGCUGCAAUAUGUGGCUGGCUUGAAGUGGCAAUUGCUGGCACAUUUUCUGAUGGUGCCGCCACAUAUUUUCCCGGCCACGAUU-UUCCCU
((.((--((((((.((........((((((((((..(((......))).......((((((((....))).)))))))))))))))....)).)))).)))-).)).. ( -36.10)
>DroSec_CAF1 44091 105 + 1
GACAG--GUGUGGGCGAUUGCUGCAAUAUGUGGCUGGCUUGAAGUGGCAAUUGCUGGCAUAUUUUCCGAUGGUGCCGCCACAUAUUUUCCUGGCCACGAUU-UUCCCU
..(((--((((((((((((((..(.....((.....)).....)..)))))))).((((((((....))).))))).)))))......)))).........-...... ( -31.60)
>DroSim_CAF1 44635 105 + 1
GCCAG--GUGUGGGCAAUUGCUGCAAUAUGUGGCUGGCUUGAAGUGGCAAUUGCUGGCAUAUUUUCCGAUGGUGCCGCCACAUAUUUUCCUGGCCACGAUU-UUCCCU
(((((--((((((((((((((..(.....((.....)).....)..)))))))).((((((((....))).))))).)))))......)))))).......-...... ( -37.60)
>DroEre_CAF1 39797 98 + 1
GGCAGAAAUGUGGCUGAUUGCUGCCAUAUGUGGCUG----------GCAAUUGCUGGCAUAUUUUCCAACAGUGCCACCACAUAUUUUCCUGGCCACGAUUUUUCCCU
((.((((((((((((..........((((((((.((----------(((.(((.(((........))).))))))))))))))))......)))))).)))))).)). ( -35.19)
>DroYak_CAF1 25187 108 + 1
GACAGAGUUGUGGGUGAUUGCUGCAAUAUGUGGCUGGCUUGAUGUGGCAAUUGCUGGCAUAUUUUCCGACAGUGCCGCCACAUAUUUUCCCGGGCACGAUUUUUCCCU
...........(((.(((((.(((((((((((((.(((..((((((.((.....)).))))))..........))))))))))))).......))))))))...))). ( -33.51)
>consensus
GACAG__GUGUGGGCGAUUGCUGCAAUAUGUGGCUGGCUUGAAGUGGCAAUUGCUGGCAUAUUUUCCGAUGGUGCCGCCACAUAUUUUCCUGGCCACGAUU_UUCCCU
........(((((.((........((((((((((...........(((....)))(((((...........)))))))))))))))....)).))))).......... (-25.92 = -25.92 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 5

Location 17,667,552 – 17,667,657
Length 105
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 87.58
Mean single sequence MFE -32.28
Consensus MFE -24.42
Energy contribution -25.30
Covariance contribution 0.88
Combinations/Pair 1.15
Mean z-score -2.34
Structure conservation index 0.76
SVM decision value 1.27
SVM RNA-class probability 0.938455
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17667552 105 - 23771897
AGGGAA-AAUCGUGGCCGGGAAAAUAUGUGGCGGCACCAUCAGAAAAUGUGCCAGCAAUUGCCACUUCAAGCCAGCCACAUAUUGCAGCAAUCGCCCACAC--CUGCC
((((..-...)((((.(((...(((((((((((((((...........))))).((....))............)))))))))).......))).)))).)--))... ( -33.00)
>DroSec_CAF1 44091 105 - 1
AGGGAA-AAUCGUGGCCAGGAAAAUAUGUGGCGGCACCAUCGGAAAAUAUGCCAGCAAUUGCCACUUCAAGCCAGCCACAUAUUGCAGCAAUCGCCCACAC--CUGUC
((((..-...)((((.......(((((((((((((......((........)).((....))........))).))))))))))...((....)))))).)--))... ( -29.20)
>DroSim_CAF1 44635 105 - 1
AGGGAA-AAUCGUGGCCAGGAAAAUAUGUGGCGGCACCAUCGGAAAAUAUGCCAGCAAUUGCCACUUCAAGCCAGCCACAUAUUGCAGCAAUUGCCCACAC--CUGGC
......-.......((((((..(((((((((((((......((........)).((....))........))).))))))))))((((...)))).....)--))))) ( -34.10)
>DroEre_CAF1 39797 98 - 1
AGGGAAAAAUCGUGGCCAGGAAAAUAUGUGGUGGCACUGUUGGAAAAUAUGCCAGCAAUUGC----------CAGCCACAUAUGGCAGCAAUCAGCCACAUUUCUGCC
.............(((.(((((.(((((((((((((.((((((........))))))..)))----------)).))))))))(((........)))...)))))))) ( -36.70)
>DroYak_CAF1 25187 108 - 1
AGGGAAAAAUCGUGCCCGGGAAAAUAUGUGGCGGCACUGUCGGAAAAUAUGCCAGCAAUUGCCACAUCAAGCCAGCCACAUAUUGCAGCAAUCACCCACAACUCUGUC
.(((..........)))(((..(((((((((((((......((........)).((....))........))).))))))))))(.(....)).)))........... ( -28.40)
>consensus
AGGGAA_AAUCGUGGCCAGGAAAAUAUGUGGCGGCACCAUCGGAAAAUAUGCCAGCAAUUGCCACUUCAAGCCAGCCACAUAUUGCAGCAAUCGCCCACAC__CUGCC
...........((((.(((...((((((((((((((.(((......))))))).((....))............)))))))))).......))).))))......... (-24.42 = -25.30 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:13 2006