Locus 534

Sequence ID 3L_DroMel_CAF1
Location 1,564,067 – 1,564,185
Length 118
Max. P 0.561922
window807

overview

Window 7

Location 1,564,067 – 1,564,185
Length 118
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 80.71
Mean single sequence MFE -36.40
Consensus MFE -16.44
Energy contribution -17.20
Covariance contribution 0.76
Combinations/Pair 1.20
Mean z-score -2.10
Structure conservation index 0.45
SVM decision value 0.06
SVM RNA-class probability 0.561922
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1564067 118 + 23771897
GUCAAGUUGG-AGGGGCAUGGGAAUAUUCUCUGCGUCCUCCACAAAUUGAACGCAAUUGGAGGCUGCAAUUGGUGUGUAAAUUAUGCAACAACAGCAGCAGCAGCUCCAUACAUCAAUC
.((((..(((-(((((((.((((....))))))).)))))))....)))).......((((((((((..(((.((((((.....))).))).)))..)))))..))))).......... ( -39.10)
>DroSec_CAF1 8450 113 + 1
GUCAAGUUGGUGGGAGCAUGGGAAUAUUCACCGUGUCCUCCACAAAUUGGACUCAAUUGGAGGCUGCAAUUGGUGUGUAAAUUAUGCAACA---GCAACAGCAGCUC---ACAUCAAUC
(((.((((.(((((..(((((((....)).)))))..).)))).)))).))).....((..((((((..(((.((((((.....))).)))---.)))..)))))).---.))...... ( -39.20)
>DroSim_CAF1 8539 109 + 1
GUCAAGUUGG-GGGAGCAUGGGAAUAUUCUCUGUGUCCUCCACAAAUUGGACUCAAUUGGAGGCUGCAAUUGGUGUGUAAAUUAUGCAACA---GC---AGCAGCUC---ACAUCAAUC
(((...((((-(((..(((((((....)).)))))..)))).)))....))).....((..((((((..(((.((((((...)))))).))---).---.)))))).---.))...... ( -34.30)
>DroEre_CAF1 14658 113 + 1
GUCAAGCCGG-UG--GCAUGGGAAUAUUCUCUGCGGCCUCCACAAAGUGGCCUCAAUUGGAGGCUGCAGUUGCUGGGCAAAUUAUGUAAAUUACGCAACAGCAGCUC---ACAUCAAUC
........((-(.--(((.((((....))))))).)))........(..(((((.....)))))..)((((((((.((.((((.....))))..))..)))))))).---......... ( -37.40)
>DroYak_CAF1 8711 103 + 1
GUCAGGUCGG-UG--GCAUGGGAAUACUCGCAGUGUGCUCCGCAA-UUGGCCUCAAUUGGAGGCUGCAAUUGCUG---------UGUGAAUUAUGCAACAGCAGCUC---ACAUCAAUC
((((......-))--))..(((.((((.....))))..)))((((-((((((((.....)))))..))))))).(---------(((((....(((....)))..))---))))..... ( -32.00)
>consensus
GUCAAGUUGG_GGG_GCAUGGGAAUAUUCUCUGUGUCCUCCACAAAUUGGACUCAAUUGGAGGCUGCAAUUGGUGUGUAAAUUAUGCAACA___GCAACAGCAGCUC___ACAUCAAUC
.(((.(((......))).)))...........(((.((((((...((((....)))))))))).))).((((((((........(((.............))).......)))))))). (-16.44 = -17.20 +   0.76)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:34 2006