Locus 187

Sequence ID 3L_DroMel_CAF1
Location 541,777 – 541,884
Length 107
Max. P 0.628772
window270

overview

Window 0

Location 541,777 – 541,884
Length 107
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 88.56
Mean single sequence MFE -25.77
Consensus MFE -19.27
Energy contribution -19.47
Covariance contribution 0.20
Combinations/Pair 1.08
Mean z-score -1.67
Structure conservation index 0.75
SVM decision value 0.20
SVM RNA-class probability 0.628772
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 541777 107 - 23771897
GAUAGCCAGGAGAAGCAAAAGCGAAGA-GGCCAAGACAAAAACCCAAAC-----------AAAACACAAACUUCAUGUUUUUGUUUUGGGGUGAAAACUAGCAGUGACAUUGGGCUAGG
..(((((..((....((...((.....-..(((((((((((((......-----------................)))))))))))))(((....))).))..))...)).))))).. ( -25.55)
>DroSec_CAF1 15806 106 - 1
GAUAGCCAGGAGAAGCAAAAGGGAAGA-GGCCAAGACAAAAACCCAAAC-----------AAAACACAAACUUCAUGUUUUUGUU-UGGGGUGAAAACUAGCAGUGACAUUGGGCUAGG
..(((((.(..(..((.....((....-..))..........(((((((-----------((((.(((.......))))))))))-))))((....))..))..)..)....))))).. ( -25.60)
>DroSim_CAF1 16714 106 - 1
GAUAGCCAGGAGAGGCAAAAGGGAAGA-GGCCAAGACAAAAACCCCAAC-----------AAAACACAAACUUCGUGUUUUUGUU-UGGGGUGAAAACUAGCAGUGACAUUGGGCUAGG
..(((((.(..(..((.....((....-..)).........((((((((-----------(((((((.......))).))))).)-))))))........))..)..)....))))).. ( -28.30)
>DroEre_CAF1 16193 118 - 1
GAUAGCCAGGAAAAGCAAAAGGAAAGAUGGCCAAGACAAAAACCCAAACAAAAACUGAACAAAACACAAACUUCUUGUUUUCGUU-UGGGGUGAAAACUAGCAGUGACAUUGGGCUAGG
..(((((.(..(..((....((........))..........(((((((.(((((.(((............)))..))))).)))-))))((....))..))..)..)....))))).. ( -24.40)
>DroYak_CAF1 16408 117 - 1
CAUAGCCGGGAAAAGCAAAAGGGAAGA-GGCCAAGACUAAAACCCAAACAAAAACCGAACAAAACACAAACUUCUUGUUUUCGUU-UGGGGUGAAAAGCAGCAGUGACAUUGGGCUAGG
..(((((.......((....(((...(-(.......))....)))...((....((((((((((((.........)))))).)))-)))..))....))..((((...))))))))).. ( -25.00)
>consensus
GAUAGCCAGGAGAAGCAAAAGGGAAGA_GGCCAAGACAAAAACCCAAAC___________AAAACACAAACUUCAUGUUUUUGUU_UGGGGUGAAAACUAGCAGUGACAUUGGGCUAGG
..(((((.(..(..((..............(((.(((((((((.................................))))))))).)))(((....))).))..)..)....))))).. (-19.27 = -19.47 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:35:17 2006