Locus 4976

Sequence ID 2L_DroMel_CAF1
Location 14,343,122 – 14,343,242
Length 120
Max. P 0.526329
window7891

overview

Window 1

Location 14,343,122 – 14,343,242
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.67
Mean single sequence MFE -41.40
Consensus MFE -26.29
Energy contribution -26.74
Covariance contribution 0.45
Combinations/Pair 1.45
Mean z-score -1.45
Structure conservation index 0.64
SVM decision value -0.01
SVM RNA-class probability 0.526329
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14343122 120 + 22407834
CAAGAAACAGGAUGCGGAGGGCGGAGCCGAGUCGCAGCUAAUCAGCGAGGGCAACGCCAAGGGAGUCUCCAUCAGGCAGAAGAUCUCUGAGAUGCCCUGCAGUUAUAAUCUGGCAUGUAG
.......((((.(((((..(((...)))...)))))........((.((((((.(....(((((.(((((....)).)))...)))))..).))))))))........))))........ ( -36.30)
>DroVir_CAF1 12233 120 + 1
CAAAAAACAGGAUGCGGAUGGCAAUGCCGAGUCGCAGCUAAUCAGCGAGGGCAAUGCCAAGGGCGUGGCCAUUAGGCAGAAUAUUGCAGAUAUGCCCUGCAGCUAUAAUCUGGCCUGUCG
......(((((...(((((((((.((((...((((.........)))).)))).)))).(((((((((((....))).(.......)...)))))))).........))))).))))).. ( -42.40)
>DroGri_CAF1 16085 120 + 1
CAAGAAACAGGAUGGAGAGGGCAAUGCCGAGUCGCAGCUCAUUAGCGAGGGCAAUGCCAAGGGCGUGGCUAUUAGGCAGACAAUUGGCGACAUGCCCUGCAGUUACAAUCUCGCCUGUCG
......(((((...((((.((((.((((...((((.........)))).)))).)))).((((((((((((...(.....)...))))..))))))))..........)))).))))).. ( -44.40)
>DroWil_CAF1 17126 120 + 1
UAAGAAACAGGAUGCCGAGGGUGGUGCUGAAUCGCAGUUAAUUAACGAAGGACAUGCCAAAGGUGUGGCCAUAAGGCAAAAGAUAGCCGAUAUGCCAUGUAGCUACAAUUUGGCAUGUCG
(((..(((.((...))....(((((.....))))).)))..)))......(((((((((((..((((((.(((.((((...(.....)....)))).))).)))))).))))))))))). ( -38.90)
>DroMoj_CAF1 13286 120 + 1
CAAGAAGCAGGAUGCAGAGGGCAAUCCCGAAGCGCAGCUCAUCGCCGAGGGCAAUGCCAAGGGCGUGGCCAUUAGGCAAACAAUUGCCGAUAUGCCCUGCAGCUAUAAUCUCGCCUGUCG
......(((((.((.((((((....)))..(((((((.....((((...(((...)))...)))).(((.....(((((....))))).....))))))).)))....)))))))))).. ( -41.20)
>DroAna_CAF1 9579 120 + 1
UAAGAAGCAGGACGCCGAGGGCGGAGCCGAGUCCCAGUUGAUCAGCGAGGGUAAUGCCAAGGGCGUGGCCAUUCGGCAGAAGAUAGCCGAGAUGCCGUGCAGCUACAAUUUGGCCUGCCG
......((((..((((...))))..(((((((...(((((....(((..(((.(((((...))))).))).((((((........))))))....))).)))))...))))))))))).. ( -45.20)
>consensus
CAAGAAACAGGAUGCAGAGGGCAAUGCCGAGUCGCAGCUAAUCAGCGAGGGCAAUGCCAAGGGCGUGGCCAUUAGGCAGAAGAUUGCCGAUAUGCCCUGCAGCUACAAUCUGGCCUGUCG
......(((((...((((.((((..(((...((((.........)))).)))..)))).(((((((((((....))).............))))))))..........)))).))))).. (-26.29 = -26.74 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:23 2006