Locus 563

Sequence ID 3R_DroMel_CAF1
Location 2,100,005 – 2,100,135
Length 130
Max. P 0.826614
window895 window896

overview

Window 5

Location 2,100,005 – 2,100,109
Length 104
Sequences 3
Columns 104
Reading direction forward
Mean pairwise identity 86.54
Mean single sequence MFE -15.77
Consensus MFE -11.70
Energy contribution -12.04
Covariance contribution 0.34
Combinations/Pair 1.12
Mean z-score -2.18
Structure conservation index 0.74
SVM decision value 0.31
SVM RNA-class probability 0.681958
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2100005 104 + 27905053
CAUUUUUAUUUAUUAGCUUAUAAUAACUAUACAAAUCAAAGCCUAAGCCAUAUUUAUUGAAAAGCUGCACUCCCAUUCAGCUUUUUAUGAGUCAACUUAACUUU
.........((((((.....))))))...........((((..((((....((((((.(((((((((..........)))))))))))))))...)))).)))) ( -13.60)
>DroSec_CAF1 243000 103 + 1
CAUUUUUGUUUUUUAGCUUAUAAUAAGUAUGGAAACCAAAUCCAAUUCCAUAUUUAUUAAAAGGCUGCACUCCCAAUCAGCUUUAUAUGAGUCAACUUUAAAU-
...............(((((((((((((((((((...........)))))))))))))).(((((((..........)))))))...)))))...........- ( -21.20)
>DroSim_CAF1 246084 103 + 1
CAUUUUUAUUUAUCAGCUUAUA-UAAGUAUACAAACCAAAUCCAAAUCCGUAUUUAUUGAAAGGCUGCACUCCCAAUCAGCUUUUUAUGAGUCAACUUAAAUUU
.......(((((...(((((((-(((((((...................)))))))).(((((((((..........))))))))))))))).....))))).. ( -12.51)
>consensus
CAUUUUUAUUUAUUAGCUUAUAAUAAGUAUACAAACCAAAUCCAAAUCCAUAUUUAUUGAAAGGCUGCACUCCCAAUCAGCUUUUUAUGAGUCAACUUAAAUUU
...............(((((((((((((((...................)))))))))(((((((((..........)))))))))))))))............ (-11.70 = -12.04 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 2,100,029 – 2,100,135
Length 106
Sequences 3
Columns 106
Reading direction forward
Mean pairwise identity 85.53
Mean single sequence MFE -17.91
Consensus MFE -13.05
Energy contribution -13.50
Covariance contribution 0.45
Combinations/Pair 1.17
Mean z-score -2.46
Structure conservation index 0.73
SVM decision value 0.70
SVM RNA-class probability 0.826614
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2100029 106 + 27905053
AACUAUACAAAUCAAAGCCUAAGCCAUAUUUAUUGAAAAGCUGCACUCCCAUUCAGCUUUUUAUGAGUCAACUUAACUUUAACGCUUGUUUGUAAACUCUUAACUU
.....(((((((..((((...............((((((((((..........))))))))))((((....))))........)))))))))))............ ( -18.80)
>DroSec_CAF1 243024 100 + 1
AAGUAUGGAAACCAAAUCCAAUUCCAUAUUUAUUAAAAGGCUGCACUCCCAAUCAGCUUUAUAUGAGUCAACUUUAAAU------UUGUUUGUAAACUCUUAAUUU
((((((((((...........)))))))))).....(((((((..........)))))))....((((..((.......------......))..))))....... ( -16.62)
>DroSim_CAF1 246107 106 + 1
AAGUAUACAAACCAAAUCCAAAUCCGUAUUUAUUGAAAGGCUGCACUCCCAAUCAGCUUUUUAUGAGUCAACUUAAAUUUAACGCUUGUUUGUAAACUCUUAAUUU
.(((.(((((((.....................((((((((((..........))))))))))((((....))))............))))))).)))........ ( -18.30)
>consensus
AAGUAUACAAACCAAAUCCAAAUCCAUAUUUAUUGAAAGGCUGCACUCCCAAUCAGCUUUUUAUGAGUCAACUUAAAUUUAACGCUUGUUUGUAAACUCUUAAUUU
.(((.(((((((.....................((((((((((..........))))))))))((((....))))............))))))).)))........ (-13.05 = -13.50 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:09 2006