Locus 4232

Sequence ID 3L_DroMel_CAF1
Location 12,380,787 – 12,380,880
Length 93
Max. P 0.993885
window6551

overview

Window 1

Location 12,380,787 – 12,380,880
Length 93
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 72.01
Mean single sequence MFE -23.67
Consensus MFE -8.85
Energy contribution -10.67
Covariance contribution 1.82
Combinations/Pair 1.14
Mean z-score -2.80
Structure conservation index 0.37
SVM decision value 2.43
SVM RNA-class probability 0.993885
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12380787 93 + 23771897
GAAUGAACAAUCUUU-GAUCACAAAGAGCCACUUACAAGCUUUUAA---ACGCCUUGGACUAAUGAACUAACAUAAAUUCAAGGCGAAUA--CGCUUGA
..........(((((-(....))))))........(((((......---.(((((((((.(.(((......))).).)))))))))....--.))))). ( -23.40)
>DroSec_CAF1 7125 94 + 1
GAAUGGGCAAUCUUUGGAUCACAAAGAGCCACUUACAAGCUUUUAA---ACGCCUUGGACUAAUGAACUUACAUGAAUUCAAGGCGAAUG--CGCUUGA
.....(((..((((((.....))))))))).....(((((......---.(((((((((...(((......)))...)))))))))....--.))))). ( -30.30)
>DroSim_CAF1 7146 94 + 1
GAAUGGGCAACCUUUGGAUCACAAAGAGCCACUUACAAGCUUUUAA---ACGCCUUGGACUAAUGAACUAACAUGAAUUCAAGGCGAAUA--UGCUUGA
.....(((...(((((.....))))).))).....(((((...((.---.(((((((((...(((......)))...)))))))))..))--.))))). ( -29.40)
>DroEre_CAF1 7120 82 + 1
GAAUGA---AUUGUU-GAUUACUAAGAGCCACUUACAAGCUUUUAAACAACGCCUUGGACUAAUGAACUAACUCGAAUUCAAGGCG-------------
......---...(((-(.....(((((((.........)))))))..))))((((((((....(((......)))..)))))))).------------- ( -17.80)
>DroYak_CAF1 7188 93 + 1
GAAUGAACAAUCUUU-GAUUACCAAGAGCCAUUUACAAGCCUUCAA---ACGCCUUGGGCUAAUGAACUAACUCAAAUUCAAGGCGAAUA--CGCUUGA
(((((.....((((.-.......))))..))))).(((((......---.(((((((((....(((......)))..)))))))))....--.))))). ( -20.00)
>DroAna_CAF1 6705 74 + 1
GGCAGAGCAAUCAUA-GAUGGUAAUGAGGCCUUUACAGGCUUGGAA---AC----------AAUGCC-----------CCAAGGUGAGCAAUCGCUUGA
((((((....))...-..........((((((....))))))(...---.)----------..))))-----------...((((((....)))))).. ( -21.10)
>consensus
GAAUGAGCAAUCUUU_GAUCACAAAGAGCCACUUACAAGCUUUUAA___ACGCCUUGGACUAAUGAACUAACAUGAAUUCAAGGCGAAUA__CGCUUGA
...................................(((((..........(((((((((..................))))))))).......))))). ( -8.85 = -10.67 +   1.82)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:21 2006