Locus 4666

Sequence ID X_DroMel_CAF1
Location 12,188,210 – 12,188,321
Length 111
Max. P 0.630792
window7655

overview

Window 5

Location 12,188,210 – 12,188,321
Length 111
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 94.37
Mean single sequence MFE -35.25
Consensus MFE -29.90
Energy contribution -30.03
Covariance contribution 0.13
Combinations/Pair 1.05
Mean z-score -1.68
Structure conservation index 0.85
SVM decision value 0.20
SVM RNA-class probability 0.630792
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12188210 111 + 22224390
------GGCGGGUCCUUGAGAGACUGGGG---CGCCAAAUGAAGUGACAGGCAACUUAACGCAUUUAAAUUAAUUAAAAAUGUGCUUAAGAUGUUUUCGACUCGCUUUGGCGACGAUGCG
------.(((.(((((.........))))---)(((((((((..(((.(((((.((((((((((((...........))))))).))))).))))))))..))).)))))).....))). ( -32.50)
>DroSec_CAF1 14541 111 + 1
------GGCGGGUCCUUGAGAGACUGGGG---CGCCAAAUGAAGUGACAGGCAACUUAACGCAUUUAAAUUAAUUAAAAAUGUGCUUAAGAUGUUUUCGACUCGCUUUGGCGACGAUGCG
------.(((.(((((.........))))---)(((((((((..(((.(((((.((((((((((((...........))))))).))))).))))))))..))).)))))).....))). ( -32.50)
>DroEre_CAF1 14515 111 + 1
------GGCGGGUCCUUGAGAGACUGGGG---CGCCAAAUGAAGUGACAGGCAACUUAACGCAUUUAAAUUAAUUAAAAAUGUGCUUAAGAUGUUUUCGACUCGCUUUGGCGACGAUGCG
------.(((.(((((.........))))---)(((((((((..(((.(((((.((((((((((((...........))))))).))))).))))))))..))).)))))).....))). ( -32.50)
>DroAna_CAF1 27244 120 + 1
UGUCCUGGUGGGUCCUUGAGAGACUGGGGGCCCGCCAAAUGAAGUGACAGGCAACUUAGCGCAUUUAAAUUAAUUAAAAAUGUGCUUAAGAUGUUUUCGACUCGCGAUGGCGACGAUGCG
.(((.((((((((((((........))))))))))))........((.(((((.((((((((((((...........)))))))).)))).)))))))))).((((.((....)).)))) ( -43.50)
>consensus
______GGCGGGUCCUUGAGAGACUGGGG___CGCCAAAUGAAGUGACAGGCAACUUAACGCAUUUAAAUUAAUUAAAAAUGUGCUUAAGAUGUUUUCGACUCGCUUUGGCGACGAUGCG
.......((((((((....).)))).......((((((((((..(((.(((((.((((((((((((...........))))))).))))).))))))))..))).)))))))....))). (-29.90 = -30.03 +   0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:28 2006