Locus 5413

Sequence ID 3R_DroMel_CAF1
Location 14,252,801 – 14,252,896
Length 95
Max. P 0.973171
window8809 window8810

overview

Window 9

Location 14,252,801 – 14,252,896
Length 95
Sequences 4
Columns 101
Reading direction forward
Mean pairwise identity 94.00
Mean single sequence MFE -34.42
Consensus MFE -32.90
Energy contribution -32.65
Covariance contribution -0.25
Combinations/Pair 1.03
Mean z-score -2.11
Structure conservation index 0.96
SVM decision value 1.71
SVM RNA-class probability 0.973171
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14252801 95 + 27905053
CUGGAUCGUCGUCGUGCUCCCGAUGAUUUCGAUCCAGUUCCCGAUCCGGAUGAC------GGUCGUGCUUAAUGUUAAAACACUUGACGCGACCUGCAAAC
((((((((((((((......))))))...)))))))).(((......)))((..------(((((((.(((((((....))).)))))))))))..))... ( -34.10)
>DroSim_CAF1 23789 95 + 1
CUGGAUCGUCGUCGUGCUCCCGAUGAUUUCGAUCCAGUUCCCGAUCCGGAUGAC------GGUCGUGCUUAAUGUUAAAACACUUGACGCGACCUGCAAAC
((((((((((((((......))))))...)))))))).(((......)))((..------(((((((.(((((((....))).)))))))))))..))... ( -34.10)
>DroEre_CAF1 34704 101 + 1
CUGGAUCGUCGUCGUGCUCCCGAUGGUUUCGAUCCAGUUCCCGUUCCGGAUGACGUGGAUGGUCGUGCUUAAUGUUAAAACACUUGACGCGACCUGCAAAC
((((((((((((((......))))))...)))))))).(((((((......)))).))).(((((((.(((((((....))).)))))))))))....... ( -36.70)
>DroYak_CAF1 28360 101 + 1
CUGGAUCGUCGUCGUGCUCCCGAUGGAUUCGAUCCAGUUCCCGAUCCGGAUGACGUAGGUGGUCGUGCUUAAUGUUAAAACACUUGACGCGACCUGCAAAC
((((((((((((((......))))))...)))))))).(((......)))........(((((((((.(((((((....))).))))))))))).)).... ( -32.80)
>consensus
CUGGAUCGUCGUCGUGCUCCCGAUGAUUUCGAUCCAGUUCCCGAUCCGGAUGAC______GGUCGUGCUUAAUGUUAAAACACUUGACGCGACCUGCAAAC
((((((((((((((......))))))...)))))))).(((......)))..........(((((((.(((((((....))).)))))))))))....... (-32.90 = -32.65 +  -0.25)

alignment

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secondary structure

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dotplot

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Window 0

Location 14,252,801 – 14,252,896
Length 95
Sequences 4
Columns 101
Reading direction reverse
Mean pairwise identity 94.00
Mean single sequence MFE -31.85
Consensus MFE -29.45
Energy contribution -29.95
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.33
Structure conservation index 0.92
SVM decision value -0.05
SVM RNA-class probability 0.508148
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14252801 95 - 27905053
GUUUGCAGGUCGCGUCAAGUGUUUUAACAUUAAGCACGACC------GUCAUCCGGAUCGGGAACUGGAUCGAAAUCAUCGGGAGCACGACGACGAUCCAG
.......(((((.((..(((((....)))))..)).)))))------....(((......))).((((((((...((.(((......))).)))))))))) ( -32.00)
>DroSim_CAF1 23789 95 - 1
GUUUGCAGGUCGCGUCAAGUGUUUUAACAUUAAGCACGACC------GUCAUCCGGAUCGGGAACUGGAUCGAAAUCAUCGGGAGCACGACGACGAUCCAG
.......(((((.((..(((((....)))))..)).)))))------....(((......))).((((((((...((.(((......))).)))))))))) ( -32.00)
>DroEre_CAF1 34704 101 - 1
GUUUGCAGGUCGCGUCAAGUGUUUUAACAUUAAGCACGACCAUCCACGUCAUCCGGAACGGGAACUGGAUCGAAACCAUCGGGAGCACGACGACGAUCCAG
.......(((((.((..(((((....)))))..)).))))).(((.(((........)))))).((((((((....(.(((......))).).)))))))) ( -32.50)
>DroYak_CAF1 28360 101 - 1
GUUUGCAGGUCGCGUCAAGUGUUUUAACAUUAAGCACGACCACCUACGUCAUCCGGAUCGGGAACUGGAUCGAAUCCAUCGGGAGCACGACGACGAUCCAG
.......(((((.((..(((((....)))))..)).))))).(((..(((.....))).)))..((((((((..((..(((......))).)))))))))) ( -30.90)
>consensus
GUUUGCAGGUCGCGUCAAGUGUUUUAACAUUAAGCACGACC______GUCAUCCGGAUCGGGAACUGGAUCGAAACCAUCGGGAGCACGACGACGAUCCAG
.......(((((.((..(((((....)))))..)).)))))..........(((......))).((((((((...((.(((......))).)))))))))) (-29.45 = -29.95 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:04 2006