Locus 3380

Sequence ID 3L_DroMel_CAF1
Location 9,885,668 – 9,885,770
Length 102
Max. P 0.829938
window5285

overview

Window 5

Location 9,885,668 – 9,885,770
Length 102
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 82.24
Mean single sequence MFE -21.90
Consensus MFE -16.05
Energy contribution -15.28
Covariance contribution -0.77
Combinations/Pair 1.37
Mean z-score -2.23
Structure conservation index 0.73
SVM decision value 0.71
SVM RNA-class probability 0.829938
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9885668 102 + 23771897
GUUUUCGUUUAACGUCCGUAUACCUGCAGCUGUUUAUCAUAAUUUUGUUGAUUUGCUGUCUGCUAACAGUAACAAUAAUAAUCAUAACAGCAACAGAAACAA
((((..(((........(((....))).((((((..........((((((..(((((((......))))))))))))).......)))))))))..)))).. ( -21.33)
>DroVir_CAF1 44293 91 + 1
GUU-----GGAAGGUCCCUUUACCUGCAGCUGUUUAUCAUAAUUUUGUUGAUUUGCUGUCUGCCAACAGCAACAACAGAGG---CAACAA-G--AAAAACAA
(((-----(..((((......)))).))))(((((.((.....(((((((..(((((((......))))))))))))))(.---...)..-)--).))))). ( -26.70)
>DroGri_CAF1 46754 87 + 1
----------GGGGUUCCUUUACCUGCAGCUGUUUAUCAUAAUUUUGUUGAUUUGCUGUCUGCCAACAGCAGUAGCAAAAA---CAACAGCA--AAAAACAA
----------.((((......))))...((((((..(((.........)))(((((((.((((.....)))))))))))..---.)))))).--........ ( -23.80)
>DroSim_CAF1 48502 102 + 1
GCUUUCGUUUAACGGCCUUAUACCUGCAGCUGUUUAUCAUAAUUUUGUUGAUUUGCUGUCUGCUAACAGUAACAAUAAUAAUCAUAACAGCAACAGAAACAA
....(((.....)))........(((..((((((..........((((((..(((((((......))))))))))))).......))))))..)))...... ( -19.63)
>DroYak_CAF1 47945 102 + 1
GUUUUCGUUUAACGGCCUUAUACCUGCAGCUGUUUAUCAUAAUUUUGUUGAUUUGCUGUCUGCUAACAGUAACAAUAAUAAUCACAACAGCAACAGAAACAA
((((..(((....((.......))....((((((..........((((((..(((((((......))))))))))))).......)))))))))..)))).. ( -20.43)
>DroAna_CAF1 46356 102 + 1
GUUUUCGUUUAACGGUCUUAUACCUGCAGCUGUUUAUCAUAAUUUUGUUGAUUUGCUGUCUGCUAACAGUAACAAUAAUAAUCAUAACAGUAACAAAAACAA
(((((.(((....(((.....)))....((((((..........((((((..(((((((......))))))))))))).......))))))))).))))).. ( -19.53)
>consensus
GUUUUCGUUUAACGGCCUUAUACCUGCAGCUGUUUAUCAUAAUUUUGUUGAUUUGCUGUCUGCUAACAGUAACAAUAAUAAUCACAACAGCAACAAAAACAA
............................((((((..........((((((..(((((((......))))))))))))).......))))))........... (-16.05 = -15.28 +  -0.77)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:44 2006