Locus 5547

Sequence ID 2R_DroMel_CAF1
Location 17,693,946 – 17,694,040
Length 94
Max. P 0.950904
window8898

overview

Window 8

Location 17,693,946 – 17,694,040
Length 94
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 73.86
Mean single sequence MFE -24.70
Consensus MFE -10.34
Energy contribution -10.50
Covariance contribution 0.16
Combinations/Pair 1.21
Mean z-score -2.13
Structure conservation index 0.42
SVM decision value 1.41
SVM RNA-class probability 0.950904
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17693946 94 + 20766785
AAUCGUUAAUCCACUUAUCUUCAAUUUGGUCA---AUCCUUCGUCUCAACUUC--CGGACUUCUUC---CGGGAAUGAGUAAAGUGGGCUUAUCUCGA------------------GUUU
..(((.((((((((((...........((...---..)).....((((..(((--((((.....))---))))).))))..))))))).)))...)))------------------.... ( -24.00)
>DroSec_CAF1 3568 94 + 1
AAUCUCUAACCCACUUAUCUUCAAUCUCGGCA---AUCCUCCGUCUCAACUUC--CGAACUACUUC---CGGGAUUGAGCCAAGUCGGCUUAUCUCGA------------------GCUU
...(((..............((((((((((..---......((..........--))........)---)))))))))(((.....))).......))------------------)... ( -18.49)
>DroSim_CAF1 2748 100 + 1
AAUCUCUAACCCACUUAUCUUCAAUUUCCUUAUAAGGAGUCCGUCUCAACUUC--CGGACUAUCUUACACGGGAUUGAGCCAAGUCGGCUUAUCUCGA------------------GCUU
................................(((((((((((..........--)))))).)))))..((((((.(((((.....))))))))))).------------------.... ( -24.80)
>DroEre_CAF1 3376 114 + 1
AAUCUCUAACCCACUUAUCUUCAACUUGGGCA---AUCCUCCGACUCAGCUUCUUCGGACUUCUUC---CGGGAAUGAGCAAAGUGGGCUUAUCUCAACCCGUCUCUGCUGAUCGUGUUA
.........(((((((.........(((((..---....)))))((((..((((.((((.....))---))))))))))..)))))))........(((.((((......)).)).))). ( -25.50)
>DroYak_CAF1 3241 112 + 1
AAUCUCUAACCCACUUAUCUUCAACUUGGGCA---AUCCUCCGGCUCAGCUUC--CGGACUUUAUC---CGGGAAUGAGCAAAGUGUGCUUAUCUCAAGCCGUCUCUGUUGCUCGUGCUU
...........................(((((---((....(((((....(((--((((.....))---)))))(((((((.....)))))))....))))).....)))))))...... ( -30.70)
>consensus
AAUCUCUAACCCACUUAUCUUCAAUUUGGGCA___AUCCUCCGUCUCAACUUC__CGGACUUCUUC___CGGGAAUGAGCAAAGUGGGCUUAUCUCGA__________________GCUU
.......................................((((............))))...........((((.((((((.....))))))))))........................ (-10.34 = -10.50 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:26 2006