Locus 8051

Sequence ID X_DroMel_CAF1
Location 20,067,253 – 20,067,360
Length 107
Max. P 0.738738
window13213 window13214

overview

Window 3

Location 20,067,253 – 20,067,360
Length 107
Sequences 3
Columns 109
Reading direction forward
Mean pairwise identity 84.57
Mean single sequence MFE -19.34
Consensus MFE -17.23
Energy contribution -17.23
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.46
Structure conservation index 0.89
SVM decision value 0.44
SVM RNA-class probability 0.738738
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20067253 107 + 22224390
UUGCAUACAUAUGUAGAUUUCUGCAAUCUGCAGAGCCCCAAAACGAAAUGUGUAGAUCCUAAAACUAA--UCUCUUAAUCUACUGCACACAAUGUGGAUUCCAUAUGGU
.......((((((.....((((((.....))))))..(((........(((((((.............--............))))))).....)))....)))))).. ( -20.63)
>DroSec_CAF1 4813 93 + 1
----------------AUUUCUGCAAUCUGCAGAGCCCCAAAACGAAAUGUGUAGAUCCUAAACCUAAAUUAUCUUUAUCUACUGCACACAAAGUGGAUUCCAUAUGGG
----------------..((((((.....)))))).((((........(((((((....((((...........))))....)))))))....((((...)))).)))) ( -19.60)
>DroSim_CAF1 3521 93 + 1
----------------AUUUCUGCAAUCUGCAGAGCACCAAAACGAAAUGUGUAGAUCCUAAACCUAAAUUAUCUUUAUCUACUGCACACAAAGUGGAUUCCAUAUGGG
----------------..((((((.....))))))..(((........(((((((....((((...........))))....)))))))....((((...)))).))). ( -17.80)
>consensus
________________AUUUCUGCAAUCUGCAGAGCCCCAAAACGAAAUGUGUAGAUCCUAAACCUAAAUUAUCUUUAUCUACUGCACACAAAGUGGAUUCCAUAUGGG
..................((((((.....))))))..(((........(((((((...........................)))))))....((((...)))).))). (-17.23 = -17.23 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 20,067,253 – 20,067,360
Length 107
Sequences 3
Columns 109
Reading direction reverse
Mean pairwise identity 84.57
Mean single sequence MFE -24.33
Consensus MFE -21.08
Energy contribution -20.63
Covariance contribution -0.44
Combinations/Pair 1.04
Mean z-score -1.51
Structure conservation index 0.87
SVM decision value 0.28
SVM RNA-class probability 0.667969
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20067253 107 - 22224390
ACCAUAUGGAAUCCACAUUGUGUGCAGUAGAUUAAGAGA--UUAGUUUUAGGAUCUACACAUUUCGUUUUGGGGCUCUGCAGAUUGCAGAAAUCUACAUAUGUAUGCAA
.((....))........((((((((((((((((..((((--....))))..)))))))...........((((..(((((.....)))))..))))....))))))))) ( -27.50)
>DroSec_CAF1 4813 93 - 1
CCCAUAUGGAAUCCACUUUGUGUGCAGUAGAUAAAGAUAAUUUAGGUUUAGGAUCUACACAUUUCGUUUUGGGGCUCUGCAGAUUGCAGAAAU----------------
((((.(((((((.(((.....)))..((((((..((((.......))))...))))))..)))))))..))))..(((((.....)))))...---------------- ( -24.60)
>DroSim_CAF1 3521 93 - 1
CCCAUAUGGAAUCCACUUUGUGUGCAGUAGAUAAAGAUAAUUUAGGUUUAGGAUCUACACAUUUCGUUUUGGUGCUCUGCAGAUUGCAGAAAU----------------
.(((.(((((((.(((.....)))..((((((..((((.......))))...))))))..)))))))..)))...(((((.....)))))...---------------- ( -20.90)
>consensus
CCCAUAUGGAAUCCACUUUGUGUGCAGUAGAUAAAGAUAAUUUAGGUUUAGGAUCUACACAUUUCGUUUUGGGGCUCUGCAGAUUGCAGAAAU________________
.(((.(((((((.(((.....)))..((((((..((((.......))))...))))))..)))))))..)))...(((((.....)))))................... (-21.08 = -20.63 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:54:15 2006