Locus 9535

Sequence ID 3R_DroMel_CAF1
Location 25,192,778 – 25,192,872
Length 94
Max. P 0.971361
window15252

overview

Window 2

Location 25,192,778 – 25,192,872
Length 94
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 76.58
Mean single sequence MFE -20.35
Consensus MFE -14.12
Energy contribution -14.65
Covariance contribution 0.53
Combinations/Pair 1.05
Mean z-score -2.05
Structure conservation index 0.69
SVM decision value 1.67
SVM RNA-class probability 0.971361
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25192778 94 + 27905053
GCCACAAUGCAAAUU------------------------AAUAAAAAAGCAUUUGAGGCUG-AACAUUUUUACC-AGCUUGGCUAAUAAAUAACGCGACGGCGACAGCUUCAUUUGUUUA
((......)).....------------------------.......(((((..((((((((-......((((..-(((...)))..))))...(((....))).))))))))..))))). ( -22.40)
>DroVir_CAF1 72627 83 + 1
GCCACAGGGCAAAUU------------------------AAUAAAAAAGCAUUUGAGGCUG-AAAAGG---------C---CCUAAUAAAUAACGCGACGGCGACAGCUUCAUUUGUUUA
(((....))).....------------------------.......(((((..((((((((-...((.---------.---.)).........(((....))).))))))))..))))). ( -22.30)
>DroGri_CAF1 154567 83 + 1
GCCACAGAGCAAAUU------------------------AAUAAAAAAGCAUUUGAGGCUG-AAAGGA---------C---UCUAAUAAAUAAUACUCUGGCGACAGCUUCAUUUGUUUA
((......)).....------------------------.......(((((..((((((((-...(((---------.---...............))).....))))))))..))))). ( -16.29)
>DroSec_CAF1 51985 94 + 1
GCCACAAUGCAAAUU------------------------AAUAAAAAAGCAUUUGAGGCUG-AACAUUCUUACC-AGCUCGGCUAAUAAAUAACGCGACGGCGACAGCUUCAUUUGUUUA
((......)).....------------------------.......(((((..((((((((-............-(((...))).........(((....))).))))))))..))))). ( -22.00)
>DroWil_CAF1 131913 120 + 1
GCCACAAUGCAAAUUAAUAAAAAAAAGAAAAAGAAGAGUAAAAAAAAACCAUUUGAGGCUGGAACAAUGUCACCAAGCUUGGCUAAUAAAUAACGCAAUGGCGACAGCUUCAUUUGUUUA
((......)).......................................((..((((((((.......((((.......))))..........(((....))).))))))))..)).... ( -19.70)
>DroMoj_CAF1 65171 83 + 1
GCCACAGAGCAAAUU------------------------AAUAAAAAAGCAUUUGAGGCUG-AAAAGG---------C---GCCAAUAAAUAACGCGACGGGGACAGCUUCAUUUGUUUA
((......)).....------------------------.......(((((..((((((((-......---------(---((...........))).......))))))))..))))). ( -19.42)
>consensus
GCCACAAUGCAAAUU________________________AAUAAAAAAGCAUUUGAGGCUG_AAAAGU_________C___GCUAAUAAAUAACGCGACGGCGACAGCUUCAUUUGUUUA
((......))....................................(((((..((((((((......................((.....)).(((....))).))))))))..))))). (-14.12 = -14.65 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:36:39 2006