Locus 4280

Sequence ID 3L_DroMel_CAF1
Location 12,535,355 – 12,535,453
Length 98
Max. P 0.967500
window6612

overview

Window 2

Location 12,535,355 – 12,535,453
Length 98
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 85.80
Mean single sequence MFE -23.72
Consensus MFE -20.63
Energy contribution -21.02
Covariance contribution 0.39
Combinations/Pair 1.09
Mean z-score -2.66
Structure conservation index 0.87
SVM decision value 1.61
SVM RNA-class probability 0.967500
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12535355 98 + 23771897
AUGUAUAUAUGCAUAUUCAAAACGCCAGUCGCUGCUAAUA-UGUAGUAGCGGCUUAUAAAAUGUUACAAGUUUUGUAUUAAUUAAAAACUUUGGCUCGU--
(((((....))))).........((((((((((((((...-..)))))))))).((((((((.......))))))))..............))))....-- ( -25.70)
>DroPse_CAF1 23359 95 + 1
CUG------CUCGCAUUCAAAACGCCAGUCGCUGCUAAUAUUGUAGUAGCGGCUUAUAAAAUGUUACAAGUUUUGUAUUAAUUAAAAACUUUUGCUUAUGU
...------...((((.(((((....(((((((((((......)))))))))))((((((((.......))))))))............)))))...)))) ( -21.80)
>DroEre_CAF1 24856 92 + 1
AUG------UGCAUAUUCAAAACGCCAGUCGCUGCUAAUA-UGUAGUAGCGGCUUAUAAAAUGUUACAAGUUUUGUAUUAAUUAAAAACUUCGGCUCGU--
...------..............((((((((((((((...-..)))))))))))((((((((.......))))))))...............)))....-- ( -24.10)
>DroYak_CAF1 24191 92 + 1
AUG------UGCAUAUUCAAAACGCCAGUCGCUGCUAAUA-UGUAGUAGCGGCUUAUAAAAUGUUACAAGUUUUGUAUUAAUUAAAAACUUCGGCUCGU--
...------..............((((((((((((((...-..)))))))))))((((((((.......))))))))...............)))....-- ( -24.10)
>DroAna_CAF1 21114 86 + 1
CUG------UAC----GCCAGCCGCCGUGUGCUGCUAAUA-UGUAGUAGCGGCUUAUAAAAUGUUACAAGUUUUGUAUUAAUUAAAAACUUUGGCUU----
...------...----(((((..(((((.((((((.....-.))))))))))).((((((((.......)))))))).............)))))..---- ( -25.10)
>DroPer_CAF1 23363 95 + 1
CUA------GUCACAUUCAAAACGCCAGUCGCUGCUAAUAUUGUAGUAGCGGCUUAUAAAAUGUUACAAGUUUUGUAUUAAUUAAAAACUUUUGCCUAUGU
...------...((((.(((((....(((((((((((......)))))))))))((((((((.......))))))))............)))))...)))) ( -21.50)
>consensus
AUG______UGCAUAUUCAAAACGCCAGUCGCUGCUAAUA_UGUAGUAGCGGCUUAUAAAAUGUUACAAGUUUUGUAUUAAUUAAAAACUUUGGCUCGU__
.......................((((((((((((((......)))))))))))((((((((.......))))))))...............)))...... (-20.63 = -21.02 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:21 2006