Locus 1114

Sequence ID 3R_DroMel_CAF1
Location 3,363,894 – 3,363,998
Length 104
Max. P 0.564046
window1822

overview

Window 2

Location 3,363,894 – 3,363,998
Length 104
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 78.21
Mean single sequence MFE -24.69
Consensus MFE -14.52
Energy contribution -14.72
Covariance contribution 0.20
Combinations/Pair 1.17
Mean z-score -1.53
Structure conservation index 0.59
SVM decision value 0.06
SVM RNA-class probability 0.564046
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3363894 104 + 27905053
UGUUCGGAAUUAAGUUUUCUAAUUUAGAAGACUUACAGUUUUUACUGAUAUGUUCAGGUAAAGGCAAUCCUCGGAGCCUUCCACCUCCUUGGUUAAUGUGCUCA
.....(((..(((((((((((...)))))))))))..(((((((((((.....))).))))))))..)))...(((((....(((.....)))....).)))). ( -30.10)
>DroPse_CAF1 42779 102 + 1
AGAAUCGUCUCAAGUUAA--ACCCAAAAUUUCUCACCGUUUUCAUAGAGAUAUUCAGAUAUAGACAAUCCUCGGAGCCCUCCACUUGCUUUGUAUAGCUGCUCA
.((((.(((((.....((--((...............)))).....))))))))).......((((......(((....)))....(((......))))).)). ( -13.26)
>DroSec_CAF1 57423 104 + 1
UGUUCGGAAUUAAGUUUUCUAAUUAAAAAGACUUACGGUUUUUACUGAUAUGUUCAGGUAAAGGCAAUCCUCGGAGCCUUCCACCUCCUUGGUUAAUGUGCUCA
.....(((..((((((((.........))))))))..(((((((((((.....))).))))))))..)))...(((((....(((.....)))....).)))). ( -24.10)
>DroSim_CAF1 52301 104 + 1
UAUUGGAAUUUAAGUUUUAGAAUUUACAACACUUACAGUUUUUACUGAUAUGUUCAGGUAAAGGCAAUCCUCGGAGCCUUCCACCUCCUUGGUUAAUGUGCUCA
....(((...((((((....))))))...........(((((((((((.....))).))))))))..)))...(((((....(((.....)))....).)))). ( -20.90)
>DroEre_CAF1 55238 104 + 1
UGUUUGGGCUUCAGUUCCAGAAAGUACAAGACUCACAGUUUUUACUGAUAUGUUCAGGUAGAGGCAAUCCUCGGAGCCCUCUACCAGCUUGGUUAGUGUGCUCA
..(((((((....).)))))).((((((((((.....))))).((((((..(((..((((((((...((....))..)))))))))))...))))))))))).. ( -31.40)
>DroYak_CAF1 75902 104 + 1
UGUUUGGACUAAAGUACUAGAAAGUAAGAGACUUACAGUUUUUACUGAUAUGUUCAGAUAAAGACAGUCCUCAGAGCCCUCUACCAACUUGGUUAAUGUGCUCA
.....(((((.............(((((...))))).(((((((((((.....)))).))))))))))))...((((.(...(((.....)))....).)))). ( -28.40)
>consensus
UGUUUGGACUUAAGUUUUAGAAUUUAAAAGACUUACAGUUUUUACUGAUAUGUUCAGGUAAAGGCAAUCCUCGGAGCCCUCCACCUCCUUGGUUAAUGUGCUCA
.....................................(((((((((((.....)))).)))))))........((((.....(((.....)))......)))). (-14.52 = -14.72 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:14 2006