Locus 2977

Sequence ID X_DroMel_CAF1
Location 7,917,589 – 7,917,687
Length 98
Max. P 0.543218
window4886

overview

Window 6

Location 7,917,589 – 7,917,687
Length 98
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 85.03
Mean single sequence MFE -21.73
Consensus MFE -16.92
Energy contribution -16.67
Covariance contribution -0.25
Combinations/Pair 1.09
Mean z-score -1.78
Structure conservation index 0.78
SVM decision value 0.02
SVM RNA-class probability 0.543218
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7917589 98 + 22224390
GCUGAACACGGGAUGGGAUUUCUUGAACCAAUAGUAGUGUUGGAAGAAGACCAGAAAGUAGUCCAGUCUAAAAAAAAAAAAGAAGGA--CAGCUUUAGUA
(((((((((....(((..((((((...((((((....)))))))))))).)))....)).((((..(((...........))).)))--).).)))))). ( -21.50)
>DroSec_CAF1 18005 93 + 1
GCUGAACACGGGAUGGGAUUUCUUGAACCAAUAGUAGUGUUGGAAGAAGACCAGGAAGUAGUCCAGUCUGAAA-----AAGGAAGGA--CAGCUUAAGUA
(((....((....(((..((((((...((((((....)))))))))))).)))....)).((((..(((....-----.)))..)))--))))....... ( -23.00)
>DroSim_CAF1 21122 93 + 1
GCUGAACACGGGAUGGGAUUUCUUGAACCAAUAGUAGUGUUGGAAGAAGACCAGGAAGUAGUCCAGUCUGAAA-----AAGGAAGGA--CAGCUUUAGUA
(((((((((....(((..((((((...((((((....)))))))))))).)))....)).((((..(((....-----.)))..)))--).).)))))). ( -24.10)
>DroEre_CAF1 9206 88 + 1
GCUGAACACGGGAUGGGAUUUCUUGAACCAAUAGUAGUGUUGGAAGAAGACCAGGAAGUAGUCCAGUCUGAAA-----AA--AAGGA--CGGAGUU---A
....(((...((((...((((((((..((((((....))))))..(....))))))))).)))).((((....-----..--..)))--)...)))---. ( -20.00)
>DroYak_CAF1 21217 94 + 1
GCUGAACACGGGAUGGGAUUUCUUGAACCAAUAGUAGUGUUGGAAGAAGACCAGGAAGUAGUCCAGUCUGAAAUCAA-AA--AACGAACCGGCUUU---A
((((....((......((((((.....((((((....))))))....((((..(((.....))).))))))))))..-..--..))...))))...---. ( -22.00)
>DroAna_CAF1 9336 82 + 1
GCUGAACACGGGAUGCGACUUCUUGAACCAGUAGUAGUGCUGGAAGAAGACCAGGAAGUAGUCCAGUCUGAAAAUAA------AGUA--U----------
..........((((...((((((((..((((((....))))))..(....))))))))).)))).............------....--.---------- ( -19.80)
>consensus
GCUGAACACGGGAUGGGAUUUCUUGAACCAAUAGUAGUGUUGGAAGAAGACCAGGAAGUAGUCCAGUCUGAAA_____AA__AAGGA__CAGCUUU___A
((((.((((....(((..((((((...((((((....)))))))))))).)))....)).)).))))................................. (-16.92 = -16.67 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:11 2006