Locus 5807

Sequence ID X_DroMel_CAF1
Location 15,051,863 – 15,051,963
Length 100
Max. P 0.999966
window9421 window9422

overview

Window 1

Location 15,051,863 – 15,051,963
Length 100
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 75.43
Mean single sequence MFE -26.76
Consensus MFE -18.60
Energy contribution -17.97
Covariance contribution -0.63
Combinations/Pair 1.29
Mean z-score -2.81
Structure conservation index 0.70
SVM decision value 3.86
SVM RNA-class probability 0.999670
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15051863 100 + 22224390
AUGGCUAACAGA---------GUCGUUAUUGGCUUUGUACUGCGUUUAUUUUGGCCAUGUAUUAUUUGCUUUUUGUUGACCCGUAAUCUUUAUGGCCUUGUUAGGCCAC
.(((((.(((((---------((((....)))))))))..............(((((((......((((.............))))....)))))))......))))). ( -27.72)
>DroSec_CAF1 7679 109 + 1
AUGGCUAAUGGAUAAUAUAUGGCCUUUAUUGGCUUUGUACUGCGUUUAUUUUGGCCAUGUAUUAUUUGCUUUUUGUUGACCCGUAAUCUUUAUGGCCUUGUUAGGCCAC
((((.....(((((((((((((((..((...((........))...))....)))))))))))))))((.....))....))))........((((((....)))))). ( -31.10)
>DroEre_CAF1 7279 93 + 1
AUGGCAAACAAAUAAUGUGUGGCCUUUAUUGGCAUUAC-UUGCU---------------UUGUAUUUGCUCUUUGUUGACCCUUUAUCUUUAUGGCCUAGUUAGGCCGC
..(((((((((((((.(((..(((......)))..)))-))).)---------------))))..))))).......................(((((....))))).. ( -21.80)
>DroYak_CAF1 8306 94 + 1
AUGGCCAACAAAUAAUGUAUGGCCUUUAUUGGCUUUGUAUUGCG---------------UAUUAUUUGCUUUUUGUUGACCCACAAUCUUUAUGGCCUUGUUAGGCCAC
..((.((((((((((((((.((((......)))).))))))).(---------------((.....)))..))))))).))...........((((((....)))))). ( -26.40)
>consensus
AUGGCUAACAAAUAAUGUAUGGCCUUUAUUGGCUUUGUACUGCG_______________UAUUAUUUGCUUUUUGUUGACCCGUAAUCUUUAUGGCCUUGUUAGGCCAC
..((.(((((((.........(((......)))........(((......................)))..))))))).))...........((((((....)))))). (-18.60 = -17.97 +  -0.63)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 2

Location 15,051,863 – 15,051,963
Length 100
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 75.43
Mean single sequence MFE -24.12
Consensus MFE -16.31
Energy contribution -17.81
Covariance contribution 1.50
Combinations/Pair 1.00
Mean z-score -3.50
Structure conservation index 0.68
SVM decision value 4.97
SVM RNA-class probability 0.999966
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15051863 100 - 22224390
GUGGCCUAACAAGGCCAUAAAGAUUACGGGUCAACAAAAAGCAAAUAAUACAUGGCCAAAAUAAACGCAGUACAAAGCCAAUAACGAC---------UCUGUUAGCCAU
(((((.(((((.((((((....((((...((.........))...))))..)))))).........((........))..........---------..)))))))))) ( -20.50)
>DroSec_CAF1 7679 109 - 1
GUGGCCUAACAAGGCCAUAAAGAUUACGGGUCAACAAAAAGCAAAUAAUACAUGGCCAAAAUAAACGCAGUACAAAGCCAAUAAAGGCCAUAUAUUAUCCAUUAGCCAU
(((((((....)))))))...(((.....)))............((((((.((((((.........((........)).......)))))).))))))........... ( -23.79)
>DroEre_CAF1 7279 93 - 1
GCGGCCUAACUAGGCCAUAAAGAUAAAGGGUCAACAAAGAGCAAAUACAA---------------AGCAA-GUAAUGCCAAUAAAGGCCACACAUUAUUUGUUUGCCAU
(((((((....))))).....(((.....)))........)).......(---------------(((((-((((((((......))).....)))))))))))..... ( -23.20)
>DroYak_CAF1 8306 94 - 1
GUGGCCUAACAAGGCCAUAAAGAUUGUGGGUCAACAAAAAGCAAAUAAUA---------------CGCAAUACAAAGCCAAUAAAGGCCAUACAUUAUUUGUUGGCCAU
(((((((....)))))))..........((((((((((..((........---------------.))........(((......))).........)))))))))).. ( -29.00)
>consensus
GUGGCCUAACAAGGCCAUAAAGAUUACGGGUCAACAAAAAGCAAAUAAUA_______________CGCAAUACAAAGCCAAUAAAGGCCAUACAUUAUCUGUUAGCCAU
(((((((....)))))))..........(((.((((((..((........................))........(((......))).........)))))).))).. (-16.31 = -17.81 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:50 2006