Locus 34

Sequence ID 3R_DroMel_CAF1
Location 281,011 – 281,131
Length 120
Max. P 0.509493
window56

overview

Window 6

Location 281,011 – 281,131
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.92
Mean single sequence MFE -44.33
Consensus MFE -38.90
Energy contribution -38.62
Covariance contribution -0.28
Combinations/Pair 1.17
Mean z-score -1.22
Structure conservation index 0.88
SVM decision value -0.05
SVM RNA-class probability 0.509493
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 281011 120 + 27905053
UGGGCCUGCUCAAAACGCACAAUGGCCAGCGACGCCUGCGCCCUUGACUCACUUGUGCUGGCCUGGCCAAAACCAUGAGCGGAAUACAUAUGGCCAUUGAGCAGUCGGUGGCCAUUGGGG
.....(((((((..........(((((((....(((.((((.............)))).))))))))))......)))))))....((.(((((((((((....)))))))))))))... ( -45.41)
>DroSec_CAF1 16245 120 + 1
UGGGCCUGCACAAAACGCACAAUGGCCAGCGACGCCUGCGCCCUUGACUCACUUGUGCUGGCCUGGCAAAAACCAUGAGCGGAAUACAUAUGGCCAUUGAGUAGUCGGUGGCCAUUGGAG
.(((((.((((((......(((.((((((......))).))).)))......)))))).)))))........((......))....((.(((((((((((....)))))))))))))... ( -44.60)
>DroSim_CAF1 17542 120 + 1
UGGGCCUGCUCAAAACUCACAAUGGCCAGCGACGCCUGCGCCCUUGACUCACUUGUGCUGGCCUGGCCAAAACCAUGAGCGGAAUACAUAUGGCCAUUGAGCAGUCGGUGGCCAUUGGAG
((((....))))...(((.(((((((((.(((((((.((((.............)))).))).((((((...((......))........)))))).......)))).)))))))))))) ( -47.62)
>DroEre_CAF1 18986 118 + 1
UUGGGCUGCUCAAUACGCGAGUUGGCCAGCGACG-CUGCGCCCUUGACUCACUUGUGCUGGCCUGGCCAAAACCAUGAGCGGAAUACAUAUGGCUGGUGAGCAGC-AUUGGCCAUUGGAA
.((..(((((((......((((((((((((...)-))).)))...)))))....((..((((...))))..))..)))))))..))((.(((((..(((.....)-))..)))))))... ( -43.70)
>DroYak_CAF1 18196 120 + 1
UUGGGCUGCUCAAAACGCACGAUGGCCAGUGAGACCUGCGCCCUUGACUCACUUGUGCUGGCCUGGCCAAAACCAUGAGCGGAAUACAUAUGGCUGGUGAGCAGCCAGUGGCCAUUAGCA
....(((((.......))..(((((((((((((..............))))))...((((((((.((((...(((((.(.......).))))).)))).))..)))))))))))))))). ( -40.34)
>consensus
UGGGCCUGCUCAAAACGCACAAUGGCCAGCGACGCCUGCGCCCUUGACUCACUUGUGCUGGCCUGGCCAAAACCAUGAGCGGAAUACAUAUGGCCAUUGAGCAGUCGGUGGCCAUUGGAG
.....(((((((...........(((((((.(((..((.(.......).))..))))))))))(((......))))))))))....((.((((((((((......))))))))))))... (-38.90 = -38.62 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:30:54 2006