Locus 1238

Sequence ID 3L_DroMel_CAF1
Location 3,522,267 – 3,522,359
Length 92
Max. P 0.746839
window1940

overview

Window 0

Location 3,522,267 – 3,522,359
Length 92
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 82.94
Mean single sequence MFE -24.28
Consensus MFE -16.65
Energy contribution -16.40
Covariance contribution -0.25
Combinations/Pair 1.25
Mean z-score -2.37
Structure conservation index 0.69
SVM decision value 0.46
SVM RNA-class probability 0.746839
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3522267 92 + 23771897
-CUACUCUUUACACUAGUCUGCAAGAC-------AAGCCAGCUCCAUAAAGUUGGACGUCAAAUUGGU--UUGCCAAAAUUAUGUUUGCAGAUCUUUGCAGG
-.................(((((((((-------...((((((......))))))..))).....(((--((((.(((......)))))))))).)))))). ( -25.10)
>DroSec_CAF1 52631 92 + 1
-CUACUCUCUACACUAGUCUGCAAGAA-------AAGCCAACUCCAUAAAGUUGGACGUCAAAUUGGU--UUGCCAAAAUUAUGUUUGCAGAUCUUUGCAGG
-.......((.((...((((((((((.-------...((((((......))))))...))...((((.--...))))........))))))))...)).)). ( -23.40)
>DroSim_CAF1 53312 92 + 1
-CUACUCUCUACACUAGUCUGCAAGAC-------AAGCCAACUCCAUAAAGUUGGACGUCAAAUUGGU--UUGCCAAAAUUAUGUUUGCAGAUCUUUGCAGG
-.......((.((...(((((((((((-------...((((((......))))))..)))...((((.--...))))........))))))))...)).)). ( -25.60)
>DroEre_CAF1 68912 92 + 1
-CUACUCUUUACACUAGUCUGCAAGAC-------AAGCCAGCUCCAUAAAGUUGGACGUCAAAUUGGU--UUGCCAAAAUUAUGUUUGCAGAUCUUUGCAGG
-.................(((((((((-------...((((((......))))))..))).....(((--((((.(((......)))))))))).)))))). ( -25.10)
>DroYak_CAF1 55055 82 + 1
-----------CACUGGUCUGCAAGAC-------AAGCCAGCUCCAUAAAGUUGGACGUCAAAUUGGU--UUGCCAAAAUUAUGUUUGCAGAUCUUUGCAGG
-----------((..((((((((((((-------...((((((......))))))..)))...((((.--...))))........)))))))))..)).... ( -27.60)
>DroAna_CAF1 66420 100 + 1
CCAGCUCCUAACUCUACAUGGCCAAAAGAGUAAAAAGUGAA--AAACAAAGUUGGCCAUCAAAUUAGUUUUUGCGAAAAUUAUGUUUGCAGAUCUUGGCAGA
...(((.((((......((((((((....((..........--..))....))))))))....))))..((((((((.......))))))))....)))... ( -18.90)
>consensus
_CUACUCUUUACACUAGUCUGCAAGAC_______AAGCCAACUCCAUAAAGUUGGACGUCAAAUUGGU__UUGCCAAAAUUAUGUUUGCAGAUCUUUGCAGG
..................(((((((...........(((((((......)))))).)(((...(((((....))))).....((....))))).))))))). (-16.65 = -16.40 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:47 2006