Locus 8405

Sequence ID X_DroMel_CAF1
Location 20,879,245 – 20,879,387
Length 142
Max. P 0.998216
window13799 window13800

overview

Window 9

Location 20,879,245 – 20,879,364
Length 119
Sequences 3
Columns 119
Reading direction reverse
Mean pairwise identity 83.00
Mean single sequence MFE -40.03
Consensus MFE -29.29
Energy contribution -29.63
Covariance contribution 0.35
Combinations/Pair 1.16
Mean z-score -1.69
Structure conservation index 0.73
SVM decision value 0.09
SVM RNA-class probability 0.576837
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20879245 119 - 22224390
UCGGUGGAUCCAAUGUACAUAUGGAUACAUAUGUAUGUAUGUGUGCAUUAGGCGGGGAUUGCUCGAACGCGCUGGUGACGUCGCAGGAAUUCAAGGCAUUUGCAUCCCGCUGUGGAUUC
.....((((((((((((((((((.((((....)))).)))))))))))).(((((((...........(((.((....)).)))...........((....)).)))))))..)))))) ( -46.50)
>DroSec_CAF1 6866 113 - 1
UCGGUGGAUCCAAAGUGUAUAUGGAU----GUGUGCAUAUGUGUGCAUUAGGCGGGGAUUGCUCGA--GCGCUGGUGACGUCGCAGGAAUUCACGGCAUUUGCAUCCCGCUGUGGAUUC
.....(((((((.((((.....((((----((((((((....))))))...((.((((((.((...--(((.((....)).))))).))))).).))....)))))))))).))))))) ( -40.40)
>DroEre_CAF1 6897 115 - 1
GCGGUGGAUCCAAAGUACACUUGUAUA--UAGAUAUGUAUGUGUGCAUCAAGCGGGGAUUACUCGA--CUGCUGGUGACGUCGCAGGAAUUCAAGGCAUGUGCAUUUCUCGGUGGAUUC
.....(((((((..((((....)))).--.(((.((((((((((........((((.....)))).--((((((....))..)))).........)))))))))).)))...))))))) ( -33.20)
>consensus
UCGGUGGAUCCAAAGUACAUAUGGAUA__UAUGUAUGUAUGUGUGCAUUAGGCGGGGAUUGCUCGA__GCGCUGGUGACGUCGCAGGAAUUCAAGGCAUUUGCAUCCCGCUGUGGAUUC
.....(((((((..(((((((((.(((......))).))))))))).....(((((((((.((.....(((.((....)).))))).)))))...((....))...))))..))))))) (-29.29 = -29.63 +   0.35)

alignment

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secondary structure

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dotplot

Postscript

Window 0

Location 20,879,285 – 20,879,387
Length 102
Sequences 3
Columns 102
Reading direction reverse
Mean pairwise identity 74.17
Mean single sequence MFE -31.17
Consensus MFE -19.10
Energy contribution -19.33
Covariance contribution 0.23
Combinations/Pair 1.18
Mean z-score -2.47
Structure conservation index 0.61
SVM decision value 3.04
SVM RNA-class probability 0.998216
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20879285 102 - 22224390
GACUCACUGGUGAUAAACCAGAAUCGGUGGAUCCAAUGUACAUAUGGAUACAUAUGUAUGUAUGUGUGCAUUAGGCGGGGAUUGCUCGAACGCGCUGGUGAC
......(((((.....))))).(((((((...((((((((((((((.((((....)))).)))))))))))).))((((.....))))....)))))))... ( -37.60)
>DroSec_CAF1 6906 81 - 1
---------------AACCAGAAUCGGUGGAUCCAAAGUGUAUAUGGAU----GUGUGCAUAUGUGUGCAUUAGGCGGGGAUUGCUCGA--GCGCUGGUGAC
---------------.(((((..((((..(((((..((((((((((.((----(....))).))))))))))......)))))..))))--...)))))... ( -26.70)
>DroEre_CAF1 6937 98 - 1
GACUCACUGGUGAUAAACCAGAAGCGGUGGAUCCAAAGUACACUUGUAUA--UAGAUAUGUAUGUGUGCAUCAAGCGGGGAUUACUCGA--CUGCUGGUGAC
...((((((((.....)))...((((((.........((((((..(((((--(....))))))))))))......((((.....)))))--)))))))))). ( -29.20)
>consensus
GACUCACUGGUGAUAAACCAGAAUCGGUGGAUCCAAAGUACAUAUGGAUA__UAUGUAUGUAUGUGUGCAUUAGGCGGGGAUUGCUCGA__GCGCUGGUGAC
................(((((..((((..(((((...(((((((((.(((......))).))))))))).((....)))))))..)))).....)))))... (-19.10 = -19.33 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:03:05 2006