Locus 5895

Sequence ID 2R_DroMel_CAF1
Location 18,615,779 – 18,615,897
Length 118
Max. P 0.539505
window9466

overview

Window 6

Location 18,615,779 – 18,615,897
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.55
Mean single sequence MFE -27.56
Consensus MFE -22.90
Energy contribution -22.30
Covariance contribution -0.60
Combinations/Pair 1.23
Mean z-score -1.37
Structure conservation index 0.83
SVM decision value 0.01
SVM RNA-class probability 0.539505
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18615779 118 + 20766785
UUGUAACUCCAUCAUCAUUAGUAGU--CUCCCCUUUUUCCCACCAGGGGGCGUAUUCGCUUUAAUUACAUGCUAAUUAUCAAAGAAUGACUUGGCUGAAUCGAGUUGAAUGAAUUGCAUU
.(((((.((..((...(((((((..--..(((((..........)))))(((....)))..........)))))))...........(((((((.....)))))))))..)).))))).. ( -23.70)
>DroSec_CAF1 26643 118 + 1
UUGUAACUCCAUCAUCAUUAGCAGU--CUCCCUAUUUUCCCGCCAGGGGGCGUAUUCGCUUUAAUUACAUGCUAAUUAUCAAAGAAUGACUUGGCUAAAUCGAGUUGAAUGAAUUGCAUU
.(((((.((..((...(((((((..--...........(((....)))((((....)))).........)))))))...........(((((((.....)))))))))..)).))))).. ( -24.20)
>DroEre_CAF1 28861 118 + 1
AUGUAACUCCAUCAUCAUUAGCAAA--CUCCCCUUUUCCCCACCAGGGGGCGUAUUCGCUUUAAUUACAUGCUAAUUAUCAAAGAAUGACUUGGCUGAAUCGAGUUGAAUGAAUUGCAUU
((((((.((..((...(((((((..--..........((((....))))(((....)))..........)))))))...........(((((((.....)))))))))..)).)))))). ( -26.30)
>DroYak_CAF1 25433 118 + 1
AUGUAAUUCCAUCAUCAUUAGCAGA--CUCCCCUUUUCCCCACCAGGGGGCGUAUUCGCUUUAAUUACAUGCUAAUUAUCAAAGAAUGACUUGGCUGAAUCGAGUUGAAUGAAUUGCAUU
(((((((((..((...(((((((..--..........((((....))))(((....)))..........)))))))...........(((((((.....)))))))))..))))))))). ( -30.00)
>DroAna_CAF1 31956 120 + 1
CUGUUACUUCAUCAUCAUUAGCAGCUCCUCCCACUGCUCCCACCCGGGGGCGUAUCCGCUUUAAUUACAUGCUAAUUAUCCACGAAUGACUCAACGGGAUCGAGCCGGAUGAGUUGCACU
....................(((((((.(((....((((((....))))))...................(((....((((.((..........))))))..))).))).)))))))... ( -33.60)
>consensus
AUGUAACUCCAUCAUCAUUAGCAGA__CUCCCCUUUUUCCCACCAGGGGGCGUAUUCGCUUUAAUUACAUGCUAAUUAUCAAAGAAUGACUUGGCUGAAUCGAGUUGAAUGAAUUGCAUU
.(((((.((..((...(((((((..............((((....))))(((....)))..........)))))))...........(((((((.....)))))))))..)).))))).. (-22.90 = -22.30 +  -0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:33 2006