Locus 5289

Sequence ID X_DroMel_CAF1
Location 13,852,873 – 13,852,992
Length 119
Max. P 0.571266
window8559

overview

Window 9

Location 13,852,873 – 13,852,992
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 72.81
Mean single sequence MFE -33.51
Consensus MFE -17.67
Energy contribution -18.82
Covariance contribution 1.15
Combinations/Pair 1.00
Mean z-score -1.64
Structure conservation index 0.53
SVM decision value 0.08
SVM RNA-class probability 0.571266
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13852873 119 + 22224390
ACGGCAGGCCUCCAGGACUUGUCUUGCUGUGUGUGCGUUAGUCAGUGUGUAUGGACACGCACACGUGCCUGUGCACAGAGAAAAAUGAAAU-GUUACUUUGUGCAAAAGCAUUGGCUUAU
..((((((((....)).))))))..(((..((((((((..(((..........)))))))))))((((...(((((((((...........-....)))))))))...)))).))).... ( -41.56)
>DroSec_CAF1 1165 91 + 1
ACGGCAGGACUCCAGGACUUGUCUUGCUGUGUGUGCGUUAGUCAGUGUGUAUGGACACGCACACGUGCCUGUGCACAGAGAAAAAA--AAU-GU--------------------------
((((((((((..........))))))))))((((((((..(((..........)))))))))))((((....))))..........--...-..-------------------------- ( -33.60)
>DroSim_CAF1 5805 91 + 1
ACGGCAGGACUCCAGGACUUGUCUUGCUGUGUGUGCGUUAGUCAGUGUGUAUGGACACGCACACGUGCCUGUGCACAGAGAAAAAC--AAU-GU--------------------------
((((((((((..........))))))))))......(((..((..(((((((((.((((....)))).)))))))))..))..)))--...-..-------------------------- ( -33.80)
>DroEre_CAF1 1100 95 + 1
ACG-CAGGACUCCAGGACUUG--------------------UCAGUGUGUAUGGACACGCACACGUGCCUGUGCAGAGAGAGCAAA--AAU-GUUGCUUUGU-UAAAAGCUGAGGCUUUU
.((-((((((.....((....--------------------)).((((((........)))))))).))))))..((.(((((((.--...-.))))))).)-)((((((....)))))) ( -29.10)
>DroYak_CAF1 3185 117 + 1
ACUCCAGGACUCCAGGACUUGCCUUGCUGUGUGUGCGUCAGUCAGAGUGUAUGGACACGCACACGUGCCUGUGCAGAGAGAGAAAA--AAUAGUUACUUUGU-UAAGAGCUUAGACUUGG
...(((((.(((......(((((..((((((((((.(((...(.....)....))).)))))))).))..).))))...)))....--...((((.(((...-.)))))))....))))) ( -29.50)
>consensus
ACGGCAGGACUCCAGGACUUGUCUUGCUGUGUGUGCGUUAGUCAGUGUGUAUGGACACGCACACGUGCCUGUGCACAGAGAAAAAA__AAU_GUU_CUUUGU__AA_AGC___G_CUU__
.........(((...((((.....(((.......)))..))))..(((((((((.((((....)))).))))))))))))........................................ (-17.67 = -18.82 +   1.15)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:02 2006