Locus 670

Sequence ID 3R_DroMel_CAF1
Location 2,438,822 – 2,438,936
Length 114
Max. P 0.689816
window1063

overview

Window 3

Location 2,438,822 – 2,438,936
Length 114
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.24
Mean single sequence MFE -20.83
Consensus MFE -14.44
Energy contribution -15.52
Covariance contribution 1.08
Combinations/Pair 1.05
Mean z-score -2.28
Structure conservation index 0.69
SVM decision value 0.33
SVM RNA-class probability 0.689816
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2438822 114 + 27905053
ACA------CAGAAUAAGCUAACACAAUUUUUUGUUAAUUGAAUUGAAAUAAUUGACUUUCGAGUGCUUUUGGAAAUUGACAAUUUCAUUUGAACCUUUUCAAAGAAAUUCAAUUACUAU
..(------(((((...............))))))(((((((((((((((..(..(.(((((((....))))))).)..)..))))).((((((....))))))..)))))))))).... ( -19.46)
>DroSec_CAF1 5264 112 + 1
--A------CACUAUAAGCUAACACUAUUUUUUUUUAAUUGAAUUCAAAUAACUGACUUUCGAGUGCUUAUGGAAAUUGUCAAUUUCAUUUGAACCUUUUCAAAGAAAUUCAAUUACUAU
--.------..((((((((...................(((((.(((......)))..)))))..)))))))).(((((..((((((.((((((....)))))))))))))))))..... ( -19.60)
>DroSim_CAF1 5371 112 + 1
--A------CACUAUAAGCUAACACAAUUUUUUGUUAAUUGAAUUCAAAUAACUGACUUUCGAGUGCUUAUGGAAAUUGUCAAUUUCAUUUGAACCUUUUCAAAGAAAUUCAAUUACUAU
--.------..(((((((((((((........))))).(((((.(((......)))..)))))..)))))))).(((((..((((((.((((((....)))))))))))))))))..... ( -23.50)
>DroEre_CAF1 5299 113 + 1
ACA------CACAAUAAGCUAACA-CAAUUUUUGUUAAUUGAAUUCGAAUAACUGACUUUCGAGUGCCAAUGGAAGUUGUCAAUUUCAUUUGAACCUUUUGAAAGAAAUUCAAUUACUAU
...------..............(-(((((((..((......(((((((.........)))))))...))..)))))))).((((((.((..(.....)..)).)))))).......... ( -16.80)
>DroYak_CAF1 4906 120 + 1
AAACACAAACACAAUAAGCUAACAACAUUUUUUGGUAAUUGAAUUCAAAUAACUGACUUUCGAGUGCUUAUGGUAAUUGACAAUUUCAUUUGAAUAUUUUCAAAGAAAUUCAAUUACUAU
.............((((((...(((......)))....(((((.(((......)))..)))))..))))))(((((((((..(((((.((((((....)))))))))))))))))))).. ( -24.80)
>consensus
A_A______CACAAUAAGCUAACACAAUUUUUUGUUAAUUGAAUUCAAAUAACUGACUUUCGAGUGCUUAUGGAAAUUGUCAAUUUCAUUUGAACCUUUUCAAAGAAAUUCAAUUACUAU
.............(((((((((((........))))).(((((.(((......)))..)))))..))))))((.(((((..((((((.((((((....))))))))))))))))).)).. (-14.44 = -15.52 +   1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:55 2006