Locus 3608

Sequence ID X_DroMel_CAF1
Location 9,663,321 – 9,663,428
Length 107
Max. P 0.543263
window5904

overview

Window 4

Location 9,663,321 – 9,663,428
Length 107
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.02
Mean single sequence MFE -37.98
Consensus MFE -26.01
Energy contribution -26.45
Covariance contribution 0.44
Combinations/Pair 1.03
Mean z-score -2.18
Structure conservation index 0.68
SVM decision value 0.02
SVM RNA-class probability 0.543263
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9663321 107 + 22224390
AAUGGCAGCUGCAAUUGGCAGU-------UGG-CAGUUUGC-----UGGCCGAGAGUUUCCAGUUGAGUUCUAAGCUCGCUUAAUUGUUCCCAAUGGUUGGAACAAUGGCAUGGCAACAA
..((.(((((((.....)))))-------)).-))(((.((-----(((((..((((((..((.......)))))))).....((((((((........))))))))))).))))))).. ( -36.90)
>DroAna_CAF1 27273 113 + 1
AAUGGCAGCUGCAAUUGGCAGU-------UUGUGAGUCCGGAGCAGGGGGCGGGCGCUUCCAGUUGAGUUCUAAGCCCGUUUAAUUGUUCCCAAUGGCUGGAACAAUGGCAUGGCAACAA
.(((.(((((((.....)))))-------((((.((((.(((((((..(((((((((((......)))).....)))))))...)))))))....))))...)))))).)))(....).. ( -36.30)
>DroSim_CAF1 13313 107 + 1
AAUGGCAGCUGCAAUUGGCAGU-------UGG-CAGUUUGC-----UGGCCGAAAGUUUCCAGUUGAGUUCUAAGCUCGCUUAAUUGUUCCCAAUGGUUGGAACAAUGGCAUGGCAACAA
..((.(((((((.....)))))-------)).-))....((-----(((.(....)...))))).((((.....))))(((..((((((((........))))))))))).((....)). ( -37.60)
>DroEre_CAF1 5732 107 + 1
AAUGGCAGCUGCAAUUGGCAGU-------UGG-CAGUUUGC-----UGGCCGAAAGUUUCCAGUUGAGUUCUAAGCUCGCUUAAUUGUUCCCAAUGGUUGGAACAAUGGCAUGGCAACAA
..((.(((((((.....)))))-------)).-))....((-----(((.(....)...))))).((((.....))))(((..((((((((........))))))))))).((....)). ( -37.60)
>DroYak_CAF1 9717 114 + 1
AAUGGCAGCUGCAAUUGGCAGUUGGCAGUUGG-CAGUUUGC-----UGGCCGAGAGUUUCCAGUUGAGUUCUAAGCUCGCUUAAUUGUUCCCAAUGGCUGGAACAAUGGCAUGGCAACAA
..((.(((((((.....))))))).))((((.-((....((-----(((.(....)...))))).((((.....))))(((..((((((((........))))))))))).)).)))).. ( -41.50)
>consensus
AAUGGCAGCUGCAAUUGGCAGU_______UGG_CAGUUUGC_____UGGCCGAGAGUUUCCAGUUGAGUUCUAAGCUCGCUUAAUUGUUCCCAAUGGUUGGAACAAUGGCAUGGCAACAA
..((((.(((((.....)))))..........................))))...(((.(((...((((.....))))(((..((((((((........))))))))))).))).))).. (-26.01 = -26.45 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:36 2006