Locus 1238

Sequence ID 3R_DroMel_CAF1
Location 3,721,669 – 3,721,766
Length 97
Max. P 0.763330
window2020

overview

Window 0

Location 3,721,669 – 3,721,766
Length 97
Sequences 5
Columns 99
Reading direction forward
Mean pairwise identity 79.37
Mean single sequence MFE -14.85
Consensus MFE -7.40
Energy contribution -7.40
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.10
Structure conservation index 0.50
SVM decision value 0.51
SVM RNA-class probability 0.763330
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3721669 97 + 27905053
--AAACAAUAGGAAUAAACGCUGAAAUAACGUCCGAAAAAACGUCCGUCGACGGCAACAACAAAACGGAAGUGAAAAAUUCGCGUUUUUUCACACAACA
--.........(((.((((((.(((...((.((((.......(((....)))(....).......)))).))......))))))))).)))........ ( -20.40)
>DroPse_CAF1 8509 79 + 1
UUGAAAAAUAGAA--AAACUGUAGAAUA------GAAACA------------AGCAACAACAAAACGGAAGUGAAAAAUUCGCGUUUUUUCACACAACA
.(((((((.....--...((((...)))------).....------------.((.........((....)).........))..)))))))....... (  -8.27)
>DroSim_CAF1 9146 97 + 1
--AAACAAUAGGAAUAAACGCUCAAAUAACGUCCGAAAAAACGUCCGUCGACGGCAACAACAAAACGGAAGUGAAAAAUUCGCGUUUUUUCACACAACA
--.........(((.((((((.......((.((((.......(((....)))(....).......)))).)).........)))))).)))........ ( -19.09)
>DroEre_CAF1 13346 90 + 1
--AAACAAUAGGAAUGAACGCUGAAACAACGUCCGAAAAA-------UCGACGGCAACAACAAAACGGAAGUGAAAAAUUCGCGUUUUUUCACACAACA
--.........(((.((((((.(((....((((.((....-------))))))...........((....))......))))))))).)))........ ( -18.20)
>DroPer_CAF1 8349 79 + 1
UUGAAAAAUAGAA--AAACUGUAGAAUA------GAAACA------------AGCAACAACAAAACGGAAGUGAAAAAUUCGCGUUUUUUCACACAACA
.(((((((.....--...((((...)))------).....------------.((.........((....)).........))..)))))))....... (  -8.27)
>consensus
__AAACAAUAGGAAUAAACGCUAAAAUAACGUCCGAAAAA_______UCGACGGCAACAACAAAACGGAAGUGAAAAAUUCGCGUUUUUUCACACAACA
......................................................................((((((((.......))))))))...... ( -7.40 =  -7.40 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:21 2006