Locus 5056

Sequence ID X_DroMel_CAF1
Location 13,247,459 – 13,247,560
Length 101
Max. P 0.934808
window8223

overview

Window 3

Location 13,247,459 – 13,247,560
Length 101
Sequences 5
Columns 103
Reading direction reverse
Mean pairwise identity 69.89
Mean single sequence MFE -39.42
Consensus MFE -24.82
Energy contribution -25.00
Covariance contribution 0.18
Combinations/Pair 1.14
Mean z-score -1.69
Structure conservation index 0.63
SVM decision value 1.24
SVM RNA-class probability 0.934808
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13247459 101 - 22224390
CCGUGGGCGAUGCCUCUGCAUCGGCGUGUUUUAACGAUGGAUUAAUGUGCGGG--GGCGUAUUUCCCAACGCGGAAAGCGCCACUUUCGGCGGGCGACCACGU
.(((((.(((((((((((((((.((((......))).).))......))))))--)))))....(((...((.....))(((......)))))))).))))). ( -40.90)
>DroSec_CAF1 3860 86 - 1
GCGUGGGCGAUGCCCCUGCAUCGGCGCUCUUCAUCGCUGGAUUGAUGUGCGGG--GGCGUGUU---------------CGUCACUUUCGGCGGGCGACCACGU
((((((...(((((((((((((((((........))))).......)))))))--)))))(((---------------((((......)))))))..)))))) ( -44.11)
>DroSim_CAF1 3938 86 - 1
GCGUGGGCGAUGCCCCUGCAUCGGCGCUCUUCAUCGCUGGAUUGAUGUGCGGG--GGCGUGUU---------------CGUCACUUUCGGCGGGCGACCACGU
((((((...(((((((((((((((((........))))).......)))))))--)))))(((---------------((((......)))))))..)))))) ( -44.11)
>DroEre_CAF1 3921 101 - 1
GCGUGGGCGAAGCCACUGCAUCGGCAUUCUUUAUCGCUAAACUGCUGUGUUUCAAUGCGUGUC--CCACUGCUGUAGGCGCCACUUUUGGCGGGCGACCACGU
((((((.....(((.(((((.(((((((...(((.((......)).)))....)))))(((..--.))))).))))).(((((....))))))))..)))))) ( -34.40)
>DroYak_CAF1 3840 77 - 1
GCGUGGGCGAUGCCUCUGCAUCGGCAUUCUUUAGCGCUG--------------------------CCAUGGCUGGAGGCGCCACUUUCGGUGGGCGACCACGU
((((((.((..((((((((...((((...........))--------------------------))...)).)))))).((((.....)))).)).)))))) ( -33.60)
>consensus
GCGUGGGCGAUGCCCCUGCAUCGGCGUUCUUUAUCGCUGGAUUGAUGUGCGGG__GGCGUGUU__CCA__GC_G_A_GCGCCACUUUCGGCGGGCGACCACGU
((((((.((((((....))))))...........((((..........((......))....................((((......)))))))).)))))) (-24.82 = -25.00 +   0.18)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:03 2006