Locus 2012

Sequence ID 3L_DroMel_CAF1
Location 5,536,153 – 5,536,273
Length 120
Max. P 0.717914
window3150

overview

Window 0

Location 5,536,153 – 5,536,273
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.33
Mean single sequence MFE -40.60
Consensus MFE -27.32
Energy contribution -27.22
Covariance contribution -0.11
Combinations/Pair 1.36
Mean z-score -2.07
Structure conservation index 0.67
SVM decision value 0.39
SVM RNA-class probability 0.717914
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5536153 120 - 23771897
CCAAGUACAAUCUGAACUACGUCGCCAUGGAUGGCAACAUUGGCUGCUUGGUUAAUGGUGCCGGCCUGGCCAUGGCCACCAUGGACAUCAUCAAGCUGAAUGGAGGCGAGCCCGCCAACU
(((....................(((((((..((((.((((((((....)))))))).))))((((.......)))).)))))).).(((......))).))).((((....)))).... ( -42.70)
>DroVir_CAF1 303 120 - 1
CUAAAUAUAAUCUCAACUAUGUGGCCAUGGACGGAAACAUUGGCUGUUUAGUUAAUGGCGCCGGCCUAGCCAUGGCCACCAUGGACAUAAUAAAGUUGAAUGGCGGUGAGCCUGCAAACU
................((((((((((((((.(((...((((((((....))))))))...)))......))))))))).))))).........((((....(((.....)))....)))) ( -42.30)
>DroGri_CAF1 303 120 - 1
ACAAAUAUAAUCUCAACUAUGUGGCUAUGGAUGGCAACAUUGGAUGCUUGGUAAAUGGUGCCGGUCUCGCCAUGGCUACAAUGGACAUCAUCAAGUUGAGAGGCGGCGAGCCGGCAAAUU
..........((((((((.((((((((((((((....)))..((.(((.((((.....))))))).)).)))))))))))(((.....)))..))))))))(.(((....))).)..... ( -42.20)
>DroWil_CAF1 1001 120 - 1
CUAAAUAUAAUCUCAAUUAUGUGGCCAUGGAUGGUAAUAUUGGUUGUUUGGUCAAUGGCGCUGGAUUGGCCAUGGCCACAAUGGAUAUCAUCAAAUUGAAUGGUGGUGAACCGGCCAAUU
....(((((((....)))))))((((.....((((.(((((.(((((..(((((.((((.(......))))))))))))))).))))).))))........(((.....))))))).... ( -38.00)
>DroAna_CAF1 306 120 - 1
CCAAAUACAAUCUAAACUAUGUGGCGAUGGAUGGAAACAUUGGAUGCCUGGUGAAUGGCGCCGGAUUGGCCAUGGCCACCAUGGAUAUUAUCAAGUUGAAUGGGGGUGAGCCAGCUAACU
.......((((((.........((((.(.((((....)))).).)))).((((.....)))))))))).((((((...)))))).........(((((..(((.......)))..))))) ( -36.20)
>DroPer_CAF1 306 120 - 1
CCAAGUACAACCUCAACUAUGUGGCAAUGGACGGCAACAUUGGCUGCCUGGUGAAUGGCGCCGGCCUGGCCAUGGCCACCAUGGACAUCAUCCAGCUGAACGGCGGCUCACCGGCCAACU
....................(((((...((.((((..((((.(((....))).))))..)))).))..)))))((((....((((.....))))((((.....)))).....)))).... ( -42.20)
>consensus
CCAAAUACAAUCUCAACUAUGUGGCCAUGGAUGGCAACAUUGGCUGCUUGGUGAAUGGCGCCGGCCUGGCCAUGGCCACCAUGGACAUCAUCAAGUUGAAUGGCGGCGAGCCGGCCAACU
................((((((((((((((..(....).((((.((((........)))))))).....)))))))))).)))).................(((((....)).))).... (-27.32 = -27.22 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:27 2006