Locus 3949

Sequence ID 2R_DroMel_CAF1
Location 13,029,258 – 13,029,360
Length 102
Max. P 0.993284
window6376

overview

Window 6

Location 13,029,258 – 13,029,360
Length 102
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 80.63
Mean single sequence MFE -38.88
Consensus MFE -31.15
Energy contribution -31.15
Covariance contribution 0.00
Combinations/Pair 1.15
Mean z-score -2.55
Structure conservation index 0.80
SVM decision value 2.39
SVM RNA-class probability 0.993284
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13029258 102 - 20766785
UGCGCUC----UGGUGACAACGCCCACUUUCC----CAAAAGUGGGCUGGUCUCUUCUGAUCAGA----------ACAUCGCUUCCGGAGCAGACACACCUGCAGGAACACUGUUGCGCG
.((((..----.((((.....(((((((((..----..)))))))))..((((((((.((...(.----------....)...)).)))).)))).)))).((((.....)))).)))). ( -40.40)
>DroSec_CAF1 12486 102 - 1
UGCGCUC----UGGUGACAACGCCCACUUUCC----CAAAAGUGGGCUGGUCUCUUCUGAUCAGA----------ACAUCGCUUCCGGAGCAGACACACCUGCAGGAACACUGUUGCGCG
.((((..----.((((.....(((((((((..----..)))))))))..((((((((.((...(.----------....)...)).)))).)))).)))).((((.....)))).)))). ( -40.40)
>DroSim_CAF1 8886 102 - 1
UGCGCUC----UGGUGACAACGCCCACUUUCC----CAAAAGUGGGCUGGUCUCUUCUGAUCAGA----------ACAUCGCUUCCGGAGCGGACACACCUGCAGGAACACUGUUGCGCG
.((((..----.((((.....(((((((((..----..)))))))))(((((......)))))..----------...((((((...))))))...)))).((((.....)))).)))). ( -40.00)
>DroAna_CAF1 8887 117 - 1
GAUGCUCAACAUGGUGACAACGCCCACUUUGCCACACAAAAGUGGGU-GG--CCUUCCGAUCGCGACGAGAAUCAAAAUGCUUUUCAACGCAGACACACCUGCAGGAACAAUAUCGCGCG
((.((......((....)).((((((((((........)))))))))-))--)..))....(((((.(((((.(.....).)))))...((((......))))..........))))).. ( -34.70)
>consensus
UGCGCUC____UGGUGACAACGCCCACUUUCC____CAAAAGUGGGCUGGUCUCUUCUGAUCAGA__________ACAUCGCUUCCGGAGCAGACACACCUGCAGGAACACUGUUGCGCG
.((((......((....))..(((((((((........))))))))).((((......))))....................((((...((((......)))).)))).......)))). (-31.15 = -31.15 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:04 2006