Locus 1975

Sequence ID 3R_DroMel_CAF1
Location 5,575,418 – 5,575,538
Length 120
Max. P 0.616597
window3236

overview

Window 6

Location 5,575,418 – 5,575,538
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.83
Mean single sequence MFE -34.05
Consensus MFE -22.98
Energy contribution -23.21
Covariance contribution 0.23
Combinations/Pair 1.37
Mean z-score -1.91
Structure conservation index 0.67
SVM decision value 0.17
SVM RNA-class probability 0.616597
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5575418 120 + 27905053
GCGAAGUACACCAGCGCCAUGGCUGACAUAUUCACGCAAGUUUUCAACUGGCUGCCGUUGUGCCACUGCAUCAACCAAAAGAUCCUGGUCAUGCACGGCGGGCUCUUCUCCACGGAAGAC
(((.((((...((((......))))...))))..)))............(.((((((((((((((..(.(((........))).)))).)))).))))))).)((((((....)))))). ( -32.30)
>DroVir_CAF1 9694 120 + 1
GCCAAGUAUAACAACACAAUGGCGAAUAUAUUUACGCAAGUAUUCAACUGGCUGCCAUUAUGCCAUUGCAUAAAUCAGAAGAUUCUGGUUAUGCAUGGGGGCCUCUUUUCAUCAGACAAU
(((...........((.(((((((..((....(((....)))......))..))))))).))((((.((((((.(((((....))))))))))))))).))).................. ( -32.10)
>DroGri_CAF1 10174 120 + 1
GCCAAGUAUACUAGCACAAUGGCGGAUAUAUUUACGCAAGUAUUUAACUGGUUGCCGUUAUGCCAUUGCAUCAAUCAGAAGAUCCUGGUAAUGCAUGGUGGUCUCUUCUCGUCAAACAAU
((((.........(((.((((((((...((..(((....)))..)).....)))))))).)))...(((((..(((((......))))).)))))))))..................... ( -30.00)
>DroWil_CAF1 8745 120 + 1
GCCAAGUAUACCAGCACUAUGGCGGAUAUCUUUACGCAAGUGUUCAAUUGGCUGCCAUUGUGCCAUUGUAUCAAUCAGAAGAUUCUUGUCAUGCAUGGCGGCCUCUUUUCAUCGGACAAU
((((.((((..((((((.(((((((.......(((....))).........))))))).)))).........((((....))))..))..)))).))))..................... ( -32.19)
>DroMoj_CAF1 9992 120 + 1
GCCAAGUAUACCAGUACAAUGGCGGAUAUAUUUACGCAAGUAUUUAACUGGCUGCCAUUAUGCCAUUGCAUUAACCAGAAAAUCCUGGUAAUGCAUGGCGGUCUGUUCUCAUCAGACAAU
.....((((....))))((((((((...((..(((....)))..)).....)))))))).((((((.((((((.((((......))))))))))))))))(((((.......)))))... ( -44.50)
>DroAna_CAF1 10176 120 + 1
GCCAAGUACACCAGUGCAAUGGCAGACAUAUUUACGCAGGUGUUCAACUGGCUUCCGCUCUGCCACUGCAUCAAUCAAAAGAUCUUGGUUAUGCACGGCGGACUCUUCUCCUCAGACAAU
(((..((((....))))..(((((((..........(((........)))((....))))))))).(((((.((((((......))))))))))).)))(((......)))......... ( -33.20)
>consensus
GCCAAGUAUACCAGCACAAUGGCGGAUAUAUUUACGCAAGUAUUCAACUGGCUGCCAUUAUGCCAUUGCAUCAAUCAGAAGAUCCUGGUAAUGCAUGGCGGCCUCUUCUCAUCAGACAAU
(((..........(((.((((((((.......(((....))).........)))))))).)))...(((((..(((((......))))).))))).)))..................... (-22.98 = -23.21 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:12 2006