Locus 3840

Sequence ID 2R_DroMel_CAF1
Location 12,687,614 – 12,687,713
Length 99
Max. P 0.642144
window6202

overview

Window 2

Location 12,687,614 – 12,687,713
Length 99
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 84.18
Mean single sequence MFE -27.65
Consensus MFE -20.63
Energy contribution -21.02
Covariance contribution 0.39
Combinations/Pair 1.15
Mean z-score -2.05
Structure conservation index 0.75
SVM decision value 0.23
SVM RNA-class probability 0.642144
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12687614 99 - 20766785
GGGAUCAAUAAAUAUGCUCAAUGACUUUUUGAGCGCCAUAUGAUGCCUGAAAAGGCCAUUAAAACCAAUGCUAAGA----CA-----AGGCAGUGUGGAGGUCAUUGA
....(((((......((((((.......))))))(((...((((((((....))).)))))...(((.((((....----..-----.))))...))).))).))))) ( -28.70)
>DroSim_CAF1 43630 99 - 1
GGGAUCAAUAAAUAUGCUCAAUGACUUUUUGAGCGCCAUAUGAUGCCUGAAAAGGCCAUUAAAACAAAAGCUAAGA----CA-----AGGCAGUGUGGAGGUCAUUGA
..((((.........((((((.......)))))).(((((((((((((....))).)))).........(((....----..-----.))).)))))).))))..... ( -27.70)
>DroEre_CAF1 41326 99 - 1
GGGAUCAAUAAAUAUGCUCAAUGACUUUUCGAGCGCCAUAUGAUGCCUGAAAAGGCCAUUAGAACCAACGCUGAGA----CA-----AGGCAAUGUGGAGGUCAUUCA
..((((.........((((...........)))).(((((((((((((....))).)))).........(((....----..-----.))).)))))).))))..... ( -24.50)
>DroYak_CAF1 43266 99 - 1
GGGAUCAAUAAAUAUGCUCAAUGUCUUUUGGGGCGCCAUAUAAUGCCUGCAAAGGCCAUUAAAACAAGCGCUAAGA----CA-----AGGCAAUGUGGAGGUCAUUGA
..((((..((....((((...((((((....(((((....((((((((....))).)))))......)))))))))----))-----.))))...))..))))..... ( -26.10)
>DroAna_CAF1 39374 103 - 1
GGGAUCAAUAAAAAUGCUCAAUGACUUUUUGAGCGCCAUAUGAUGCCUGGAAAGGCCAUUAAAAUAAAAGCUAAAACGGCCA-----AGCCAAUGUGGGGGUCAUUGG
..((((.........((((((.......)))))).(((((((((((((....))).)))).................(((..-----.))).)))))).))))..... ( -28.40)
>DroPer_CAF1 41480 102 - 1
GGGAUCAAUAAAUAUGCUCAAUGACUUUUUGAGCGCCACAUGAUGCCGGC--UGGCCAUUAACAUAACAGCUAAGG----CCGUUAACGGGCACAUGAAGGUCAAUGG
..((((.........((((((.......))))))....((((.((((.(.--(((((.(((.(......).)))))----)))....).))))))))..))))..... ( -30.50)
>consensus
GGGAUCAAUAAAUAUGCUCAAUGACUUUUUGAGCGCCAUAUGAUGCCUGAAAAGGCCAUUAAAACAAAAGCUAAGA____CA_____AGGCAAUGUGGAGGUCAUUGA
..((((.........((((((.......)))))).(((((((((((((....))).)))).........(((................))).)))))).))))..... (-20.63 = -21.02 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:17 2006