Locus 521

Sequence ID 3R_DroMel_CAF1
Location 1,914,913 – 1,915,017
Length 104
Max. P 0.545968
window833

overview

Window 3

Location 1,914,913 – 1,915,017
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 72.15
Mean single sequence MFE -22.53
Consensus MFE -2.27
Energy contribution -2.95
Covariance contribution 0.68
Combinations/Pair 1.11
Mean z-score -1.47
Structure conservation index 0.10
SVM decision value 0.02
SVM RNA-class probability 0.545968
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1914913 104 + 27905053
AGUGCAUACUUUACUUUUUAUGCCUG---UAAUAUGUGUG--UGCUUGUGUAUCUCUGUAUUUGCACUGUUAGAAAUCUC-------UCACUUAACAUGCUUGACUCAAGAUAU----AU
((..(((((.((((...........)---)))...)))))--..)).((((((((..((....(((.((((((.......-------....)))))))))...))...))))))----)) ( -23.60)
>DroSec_CAF1 73422 105 + 1
AGCGCAUACUUUACUUUUUAUGCCUAUGGUGAUAUUUGUG--UGCUUGUGUAUCUCUGUAUUUGCACUGUGAGAAAUCUC-------UCACUUUACAUGCUUGACUCAAGAUAU------
((((((((..(((((............)))))....))))--))))...((((((..((....(((..((((((....))-------))))......)))...))...))))))------ ( -24.10)
>DroSim_CAF1 74207 95 + 1
AGUGCAUACUUUACUUUUUAUGCCUAU----------GUG--UGCUUGUGUAUCUCUGUAUUUGCACUGUGAGAAAUCUC-------UCACUUAACAUGCUUGACUCAAGAUAU------
...((((((..................----------)))--)))....((((((..((....(((..((((((....))-------))))......)))...))...))))))------ ( -19.77)
>DroEre_CAF1 75371 110 + 1
AGUGAAUACUUUACUUUUUAUGCCUG---UGCUAUGUGUGAGUGUUUGUGUAU--GUGUUUUUGCACUGUGAGAAAUCUUUAAUAAAGCAUUCAACA-----GGCUCAAGCUCUGAAGAU
.............((((....((.((---.(((.(((.((((((((((((((.--.......)))))...((....)).......))))))))))))-----))).)).))...)))).. ( -26.40)
>DroYak_CAF1 79584 105 + 1
CGUGCAUACUUUACUUUUUAUGCUUU---UCAUAUGUGUGGC---------UU--GUGUGUUUGCACUGUGAGAAA-CUUUAAUAAAUCAUUCAACAUGUUUGACUCGAGCUCUGAAGAU
...(((((..........)))))(((---(((((.(((..((---------..--....).)..))))))))))).-.........(((.((((....(((((...)))))..))))))) ( -18.80)
>consensus
AGUGCAUACUUUACUUUUUAUGCCUA___UGAUAUGUGUG__UGCUUGUGUAUCUCUGUAUUUGCACUGUGAGAAAUCUC_______UCACUUAACAUGCUUGACUCAAGAUAU____AU
((((((.....(((...........................................)))..)))))).................................................... ( -2.27 =  -2.95 +   0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:08 2006