Locus 1328

Sequence ID 2L_DroMel_CAF1
Location 3,513,814 – 3,513,934
Length 120
Max. P 0.576803
window2170

overview

Window 0

Location 3,513,814 – 3,513,934
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 83.56
Mean single sequence MFE -43.07
Consensus MFE -28.06
Energy contribution -28.73
Covariance contribution 0.67
Combinations/Pair 1.31
Mean z-score -2.25
Structure conservation index 0.65
SVM decision value 0.09
SVM RNA-class probability 0.576803
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3513814 120 + 22407834
GCCAGCGGUGGGAAGUAGUUAAGCCAGUGUUCGGCAUUGGCAAAGUCCUUGAUUUCCUCGUCCUUCAGUCCGAGACUCUGCAUAAUUUGCCAUUGGUAUUUGGCAGCGCCGGUUUUGGCA
((((((((((....((((....(((((((.....)))))))...............((((..(....)..))))...)))).....((((((........)))))))))))...))))). ( -41.50)
>DroVir_CAF1 24646 120 + 1
GCCAGCGGUGGAAAGUAGUUGAGCCAGUGCUCAGCAUUGGCAAACUGCUUGAUUUCCUCAUCCUGCAGGCCCAGGCUUUGCAUGAUCUGCCAUUGGUAUUUGGCAGUACCCGUUUUAGCC
(((.((((.(((((((((((..((((((((...)))))))).)))))))....)))).....)))).)))...((((..((.....((((((........)))))).....))...)))) ( -47.50)
>DroGri_CAF1 40859 120 + 1
GCCAGCGGUGGGAAGUAGUCAAGCCAAUGCUCGGCAUUAGCAAACUGCUUGAUGUCCUCAUCCUGCAGGCCCAGGCUCUGCAUGAUCUGCCAUUGGUAUUUGGCAGUGCCAGCUUUGGCC
((.((.(((((((....(((((((...((((.......))))....))))))).))).)))))))).((((.(((((..(((....((((((........))))))))).))))).)))) ( -47.50)
>DroWil_CAF1 49302 120 + 1
GCCAGAGGUGGAAAAUAGUUUAGCCAAUGCUCAGCAUUGGCAAAGUCUUUGAUUUCCUCAUCUUGUAGACCAAGACUCUGCAUAAUUUGCCAUUGAUAUUUUGCUGCUCCUGUCUUGGCC
((.(((((.(((((..(((((.((((((((...)))))))).))).))....))))).).(((((.....))))))))))).......((((..((((............)))).)))). ( -34.00)
>DroMoj_CAF1 24888 120 + 1
GCCAGCGGUGGGAAAUAGCCCAGCCAAUGCUCGGCAUUGGCGAAUUGCUUGAUUUCCUCAUCCUGCAGGCCGAGACUUUGCAUGAUUUGCCAUUGGUAUUUGGCACUACCCGUUUUGGCC
((.((.(((((((((((((...((((((((...)))))))).....)))..)))))).)))))))).(((((((((...(((.....)))....((((........)))).))))))))) ( -46.20)
>DroAna_CAF1 18637 120 + 1
GCCAGCGGUGGAAAAUAAUUAAGCCAGUGUUCGGCAUUGGCGAAAUCCUUGAUUUCUUCGUCCUUCAGGCCGAGACUCUGCAUAAUCUGCCACUGGUACUUGGCUGAACCAGUUUUGGCC
(((((.((..((..........(((((((.....)))))))((((((...))))))((((.((....)).))))...........))..)).)))))....(((..((.....))..))) ( -41.70)
>consensus
GCCAGCGGUGGAAAAUAGUUAAGCCAAUGCUCGGCAUUGGCAAACUCCUUGAUUUCCUCAUCCUGCAGGCCGAGACUCUGCAUAAUCUGCCAUUGGUAUUUGGCAGUACCAGUUUUGGCC
..(((.((((((((((......((((((((...))))))))..........)))).)))))))))..(((((((((..........((((((........)))))).....))))))))) (-28.06 = -28.73 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:45 2006