Locus 2081

Sequence ID X_DroMel_CAF1
Location 5,675,890 – 5,676,024
Length 134
Max. P 0.925891
window3382 window3383

overview

Window 2

Location 5,675,890 – 5,675,985
Length 95
Sequences 3
Columns 95
Reading direction forward
Mean pairwise identity 95.09
Mean single sequence MFE -20.70
Consensus MFE -18.99
Energy contribution -18.77
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -2.45
Structure conservation index 0.92
SVM decision value 1.17
SVM RNA-class probability 0.925891
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5675890 95 + 22224390
GAAAAGUACAUGUAGCAGGAAGUUAAUAAAUAAAAGUUAACUUCUUAAAGUUGCCUAAAGCAGUGCAUAACUUUUGGAUAUAUAUUAUGGCGUAA
.((((((..(((((..(((((((((((........)))))))))))....((((.....))))))))).)))))).................... ( -18.50)
>DroSec_CAF1 14844 95 + 1
GAAAAGUACAUGUAGCAGGAAGUUAAUAAAUAAAAGUUAACUUCUUAAAGCUGCCCAAAGCUGUGCAUAACUUUUUGGAAUAUAUAAUGGCGUAA
......(((..((((((((((((((((........)))))))))))...)))))((((((..((.....)).)))))).............))). ( -22.30)
>DroSim_CAF1 15412 95 + 1
GAAAAGUACAUGUAGCAGGAAGUUAAUAAAUAAAAGUUAACUUCUUAAAGCUGCCCAAAGCUGUGCAUAACUUUUGGGAAUAUAUAAUGGCGUAA
......(((..((((((((((((((((........)))))))))))...)))))((((((..((.....))))))))..............))). ( -21.30)
>consensus
GAAAAGUACAUGUAGCAGGAAGUUAAUAAAUAAAAGUUAACUUCUUAAAGCUGCCCAAAGCUGUGCAUAACUUUUGGGAAUAUAUAAUGGCGUAA
.((((((..(((((..(((((((((((........)))))))))))...(((......)))..))))).)))))).................... (-18.99 = -18.77 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 5,675,905 – 5,676,024
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 93.89
Mean single sequence MFE -27.17
Consensus MFE -23.22
Energy contribution -23.33
Covariance contribution 0.12
Combinations/Pair 1.10
Mean z-score -2.27
Structure conservation index 0.85
SVM decision value 0.47
SVM RNA-class probability 0.747836
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5675905 119 + 22224390
CAGGAAGUUAAUAAAUAAAAGUUAACUUCUUAAAGUUGCCUAAAGCAGUGCAUAACUUUUGGAUAUAUAUUAUGGCGUAAUUAUA-AUGUGCACAUAGCCCCACUUCGUAUGGCUCCAUA
.(((((((((((........)))))))))))((((((((((.....)).)))..)))))((((..((((((((((.....)))))-)))))......(((..((...))..))))))).. ( -24.40)
>DroSec_CAF1 14859 120 + 1
CAGGAAGUUAAUAAAUAAAAGUUAACUUCUUAAAGCUGCCCAAAGCUGUGCAUAACUUUUUGGAAUAUAUAAUGGCGUAAUUAUAUAAUUGCACAUAGCCCCACUUCGCAUGGCUCCAUA
.(((((((((((........)))))))))))..((((......))))(((((...((....))..((((((((......))))))))..)))))..((((...........))))..... ( -27.90)
>DroSim_CAF1 15427 120 + 1
CAGGAAGUUAAUAAAUAAAAGUUAACUUCUUAAAGCUGCCCAAAGCUGUGCAUAACUUUUGGGAAUAUAUAAUGGCGUAAUUAUAUAAUUGCACAUAGCCCCACUUCGCAUGGCUCCAUA
.(((((((((((........)))))))))))............((((((((........((((..((((((((......))))))))...((.....))))))....))))))))..... ( -29.20)
>consensus
CAGGAAGUUAAUAAAUAAAAGUUAACUUCUUAAAGCUGCCCAAAGCUGUGCAUAACUUUUGGGAAUAUAUAAUGGCGUAAUUAUAUAAUUGCACAUAGCCCCACUUCGCAUGGCUCCAUA
.(((((((((((........)))))))))))............((((((((...........((.((((((((......)))))))).))((.....))........))))))))..... (-23.22 = -23.33 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:46 2006