Locus 1940

Sequence ID 3L_DroMel_CAF1
Location 5,394,640 – 5,394,760
Length 120
Max. P 0.965754
window3030

overview

Window 0

Location 5,394,640 – 5,394,760
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 95.97
Mean single sequence MFE -30.75
Consensus MFE -29.24
Energy contribution -28.93
Covariance contribution -0.31
Combinations/Pair 1.09
Mean z-score -2.29
Structure conservation index 0.95
SVM decision value 1.59
SVM RNA-class probability 0.965754
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5394640 120 + 23771897
AAAGUGCAGAGCAAACACACCAAUUUAGAAAAAUUCAGAACUUUGGUUCAGUUUGUUUGUAUUUUGUCUGCGCUUGGAAACAACGGCGAAAAAAGUGUCACUUAUUCACUCAGUCGCAAA
.((((((((((((((((.((.......((.....)).((((....)))).)).)))))))......)))))))))(....)....((((....((((.........))))...))))... ( -32.10)
>DroSec_CAF1 43630 120 + 1
AAAGUGCAGAGCAAACACACCAAUUUAGAAAAAUUCAGAACUUUGGUUCAGUUUGUUUGUUUUUUGUCUGCGCUUGGAAACAACGGCGAAAAAAGUGUCACUUAUUCACUCAGUCGCAAA
.((((((((((((((((.((.......((.....)).((((....)))).)).)))))))......)))))))))(....)....((((....((((.........))))...))))... ( -32.10)
>DroSim_CAF1 43288 120 + 1
AAAGUGCAGAGCAAACACACCAAUUUAGAAAAAUUCAGAACUUUGGUUCAGUUUGUUUGUUUUUUGUCUGCGCUUGGAAACAACGGCGAAAAAAGUGUCACUUAUUCACUCAGUCGCAAA
.((((((((((((((((.((.......((.....)).((((....)))).)).)))))))......)))))))))(....)....((((....((((.........))))...))))... ( -32.10)
>DroYak_CAF1 43326 119 + 1
AAAGUGCAGAGCAAACACAGCAAUUUAGAAAAAUUCGGAACUUUGGUUCAGUUUGUUUGUCA-UAGUCUGUGUUUGGAAACAACGGCGGAAAAAGUGUCACUUAUUCACUCAGUCGCAAA
.(((..(((((((((((.(((......((.....)).((((....)))).))))))))))..-...))))..)))(....)....((((....((((.........))))...))))... ( -26.70)
>consensus
AAAGUGCAGAGCAAACACACCAAUUUAGAAAAAUUCAGAACUUUGGUUCAGUUUGUUUGUUUUUUGUCUGCGCUUGGAAACAACGGCGAAAAAAGUGUCACUUAUUCACUCAGUCGCAAA
.((((((((((((((((.((.......((.....)).((((....)))).)).)))))))......)))))))))(....)....((((....((((.........))))...))))... (-29.24 = -28.93 +  -0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:33 2006