Locus 5841

Sequence ID 3R_DroMel_CAF1
Location 15,295,450 – 15,295,542
Length 92
Max. P 0.583150
window9559

overview

Window 9

Location 15,295,450 – 15,295,542
Length 92
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 81.87
Mean single sequence MFE -18.42
Consensus MFE -13.47
Energy contribution -14.08
Covariance contribution 0.62
Combinations/Pair 1.27
Mean z-score -1.39
Structure conservation index 0.73
SVM decision value 0.10
SVM RNA-class probability 0.583150
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15295450 92 + 27905053
-----------------------UGACUUGCAAUUAAUGUAUGAAUGAAUGAAUUUCGCGAUAAGUAAAUUCAAUUAUCCGUAACAUUAAUGAAUGCGUAAAAUUUAAGCAGCGA
-----------------------....((((.(((((((((((.((((.(((((((.((.....))))))))).)))).))).))))))))...(((...........))))))) ( -20.30)
>DroVir_CAF1 57195 92 + 1
-----------------------UGAGUUGCGUUAAAUGCAUGAAUGAAUGAAUUUCGCGAUAAGUAAAUUCAAUUAUCCGUAACAUUAAUGAAUGCGUAAAAUUUAAGCAGCAA
-----------------------...(((((.((((((((((..((.((((.....((.(((((..........)))))))...)))).))..)))))).....))))))))).. ( -18.70)
>DroGri_CAF1 52873 89 + 1
--------------------------AUUGCAUUUAACGUACAAAUGAAUGAAUUUCGCGAUAAGUAAAUUCAAUUAUCCGUAGUAUUAAUGAAUGCGUAAAAUUUAAGCAGCAA
--------------------------...(((((((((.(((..((((.(((((((.((.....))))))))).))))..))))).....))))))).................. ( -14.90)
>DroYak_CAF1 46866 92 + 1
-----------------------UGACUUGCAAUUAAUGUAUGAAUGAAUGAAUUUCGCGAUAAGUAAAUUCAAUUAUCCGUAACACUAAUGAAUGCGUAAAAUUUAAGCAGCGG
-----------------------.....(((.((((.((((((.((((.(((((((.((.....))))))))).)))).))).))).))))...(((...........)))))). ( -16.20)
>DroMoj_CAF1 51901 115 + 1
AUUGCGACUGUCAGCAGAGUCGCAGAGUCGUGUUUAAUGUAUGAAUGAAUGUAUUUCACGAUAAGUAAAUUCAAUUAUCCGCAACAUUAAUGAAUGCGUAAAAUUUAAGCAGCAA
.((((((((........)))))))).((..(((((((...((((.(((((.(((((......))))).))))).)))).((((...........))))......))))))))).. ( -23.10)
>DroAna_CAF1 47098 92 + 1
-----------------------UGACUUGCAAUUAAUGCUCGAGUGAAUGAAUUCCGCGAUAAGUAAAUUCAAUUAUCCGUAACAUUAAUGAAUGCGUAAAAAUUAAGCGGCAA
-----------------------.....(((.(((((((..((..(((.((((((..((.....)).)))))).)))..))...)))))))...(((...........)))))). ( -17.30)
>consensus
_______________________UGACUUGCAAUUAAUGUAUGAAUGAAUGAAUUUCGCGAUAAGUAAAUUCAAUUAUCCGUAACAUUAAUGAAUGCGUAAAAUUUAAGCAGCAA
...........................((((..((((((((((.((((.(((((((.((.....))))))))).)))).)))).))))))....(((...........))))))) (-13.47 = -14.08 +   0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:59 2006