Locus 4888

Sequence ID 2R_DroMel_CAF1
Location 15,979,445 – 15,979,548
Length 103
Max. P 0.746348
window7839

overview

Window 9

Location 15,979,445 – 15,979,548
Length 103
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 77.93
Mean single sequence MFE -32.28
Consensus MFE -24.38
Energy contribution -23.93
Covariance contribution -0.44
Combinations/Pair 1.21
Mean z-score -1.15
Structure conservation index 0.76
SVM decision value 0.46
SVM RNA-class probability 0.746348
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15979445 103 + 20766785
CUUGUAAGAACUCCCCAAU--UCCUCCACCUUCCACAGGCCGCCCGCAGCCGAGGGUUACCUGGCUGCAUGGAAACACCGUCUACAAGAAUGCCAGUGUGGGCCA
...................--..........(((((((((.....((((((.(((....))))))))).((....))..............)))..))))))... ( -30.00)
>DroPse_CAF1 39683 88 + 1
-UCGUUCGGCGUU-------G---------UCGUGCAGGUCGGCCACAGCCGAGGGUUACCUGGCUGCAUGGGAAUACCAUCUACAAGAACGCCAGUGUGGGCCA
-....(((((((.-------(---------(((.......)))).)).)))))((.(((((((((....(((.....)))((.....))..))))).)))).)). ( -32.60)
>DroSec_CAF1 35194 103 + 1
CUUGUAAAAACUCCCCACC--ACCUCCACCUUCCACAGGCCGCCCGCAGCCGAGGGUUACCUGGCUGCACGGAAACACCGUCUACAAGAACGCCAGUGUGGGCCA
...................--..........(((((((((.....((((((.(((....)))))))))((((.....))))..........)))..))))))... ( -31.40)
>DroEre_CAF1 41610 105 + 1
CUUGUAAAAACUCCCCAAUGCUCCUCCGCCUUCCACAGGUCGGCCGCAGCCGAGGGUCACCUGGCUGCACGGCAACACCGUCUACAAGAACGCCAGUGUGGGCCA
((((((...................((((((.....))).)))..((((((.(((....)))))))))((((.....)))).))))))...(((......))).. ( -34.70)
>DroYak_CAF1 43422 98 + 1
CUUGUAAAAAGUC-------CUCCUGCCACUUCCACAGGUCGACCACAGCCGAGGGUUACCUGGCUGCACGGCAACACCGUCUACAAGAACGCCAGUGUGGGCCA
((((((....(((-------..((((.........))))..)))..(((((.(((....)))))))).((((.....)))).))))))...(((......))).. ( -32.40)
>DroPer_CAF1 40174 88 + 1
-UUGUUCGGCGUU-------G---------UCGUGCAGGUCGGCCACAGCCGAGGGUUACCUGGCUGCAUGGGAAUACCAUCUACAAGAACGCCAGUGUGGGCCA
-....(((((((.-------(---------(((.......)))).)).)))))((.(((((((((....(((.....)))((.....))..))))).)))).)). ( -32.60)
>consensus
CUUGUAAAAACUC________UCCUCC_CCUUCCACAGGUCGGCCACAGCCGAGGGUUACCUGGCUGCACGGAAACACCGUCUACAAGAACGCCAGUGUGGGCCA
.....................................((((.(((.(((((.(((....)))))))).((((.....))))..............).)).)))). (-24.38 = -23.93 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:32 2006