Locus 3220

Sequence ID 2R_DroMel_CAF1
Location 10,996,327 – 10,996,438
Length 111
Max. P 0.582032
window5293

overview

Window 3

Location 10,996,327 – 10,996,438
Length 111
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 79.50
Mean single sequence MFE -28.70
Consensus MFE -13.82
Energy contribution -14.34
Covariance contribution 0.52
Combinations/Pair 1.20
Mean z-score -1.97
Structure conservation index 0.48
SVM decision value 0.10
SVM RNA-class probability 0.582032
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10996327 111 + 20766785
AACUACAGUCAAUACUCGAGAACGCAAACUACAGUCA-GCGGCUGUGAGCUUUUUGGCUAGUGUGACAUCCAAAACUCAUACUCAUAAGC--CGUUUACUUAUGUGCUCUCUUA
.................((((.((((......(((.(-(((((((((((((....))))(((((((..........)))))))))).)))--)))).)))..)))).))))... ( -29.90)
>DroSec_CAF1 108599 111 + 1
AAAUACAGUCAAUACCCGAGAACGCAAACUACGGUCA-GCGGCUGUGAGCUUUUUGGCUAGUGUGACAUCCAAAACUCAUACUCAUGAGC--CUUUAACUUAUGUGUUCUCUUA
.................(((((((((.((....))..-..(((((((((((....))))(((((((..........)))))))))).)))--).........)))))))))... ( -30.00)
>DroSim_CAF1 111013 111 + 1
AACUACAGUCAAUACUCGAAAACGCAAACUACGGUCA-GCGGCUGUGAGCUUUUUGGCUAGUGUGACAUCCAAAACUCAUACUCAUGAGC--CGUUAACUUAUGUGCUCUCUUA
......((((((..((((....(((..((....))..-)))....))))....))))))(((((((..........)))))))...((((--(((......))).))))..... ( -28.30)
>DroEre_CAF1 111824 97 + 1
AAGUACAGUCAGUACUCGAGAACGCGAACUACGGUUU-GUGGCUGUGAGCUUUUUGGCUUGGGUGACUUCCAAAACUCA------AGAGCAACGUUAAC----------UCUCA
.(((((.....))))).((((.(((((((....))))-)))(((.((((..((((((...((....)).))))))))))------..))).........----------)))). ( -34.00)
>DroYak_CAF1 113690 98 + 1
AACUACAGUCAAUACUCGAGAACGGAAACUACGGAUCGGUGGUUGUGAGCAGUUUGGUUUGGGUGACUCCCAAAACUCA------AGAGCAACGUUAAC----------UCUUA
.................(((((((..((((((......))))))....((..(((((((((((.....))).)))).))------)).))..))))..)----------))... ( -21.30)
>consensus
AACUACAGUCAAUACUCGAGAACGCAAACUACGGUCA_GCGGCUGUGAGCUUUUUGGCUAGUGUGACAUCCAAAACUCAUACUCAUGAGC__CGUUAACUUAUGUG_UCUCUUA
.......((((.((.(((((((.((....(((((((....))))))).))))))))).))...))))........(((........)))......................... (-13.82 = -14.34 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:21 2006