Locus 4088

Sequence ID 3R_DroMel_CAF1
Location 11,154,326 – 11,154,431
Length 105
Max. P 0.728838
window6549

overview

Window 9

Location 11,154,326 – 11,154,431
Length 105
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 77.97
Mean single sequence MFE -26.40
Consensus MFE -17.35
Energy contribution -16.47
Covariance contribution -0.88
Combinations/Pair 1.20
Mean z-score -1.68
Structure conservation index 0.66
SVM decision value 0.42
SVM RNA-class probability 0.728838
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11154326 105 + 27905053
UAAGAAUAAUAAUUGGAAGAGAGAUAAAGAUCUGCUCCCACGAUUAUCUUCAUAUCUGAUUUGGAGACUCGCCAAAAAGCUUGCGACAAAGCUCGCAGGCCGAGA
.........((((((...(((((((....)))).)))...))))))((((((.........))))))((((.......((((((((......)))))))))))). ( -28.71)
>DroSec_CAF1 11514 105 + 1
UAAGAAUAAUGAUUGGAAGGGAGAUAAAGAUCUGCUCCCACGAUUCUCUCCAUAUCUGAUUUGGAGACUCACCAAAAAGCUUGCGACAAAGCUUGCAAGCCGAGA
............((((..(((((.((......)))))))..((...((((((.........)))))).)).))))...((((((((......))))))))..... ( -29.40)
>DroSim_CAF1 7224 105 + 1
UAAUAAUAAUGAUUGGAAGGGAGAUAAAGAUCUGCUCCCACGAUUCUCUCCAUAUCUGAUUUGGAGACUCGCCAAAAAGCUUGCGACAAAGCUUGCAGGCCGAGA
..........(((((...(((((.((......))))))).))))).((((((.........))))))((((((...((((((......))))))...)).)))). ( -31.50)
>DroEre_CAF1 7253 81 + 1
---------------------AGAUAAAGAUCUGCUCCCACGAUUAU--CCGUAUCUGAUGUGGAGACUCACCAA-AAGCUUACGACAAAGCUCGCGGGCUGAGC
---------------------((((....))))((((((((.((((.--.......))))))))...........-.((((..(((......)))..)))))))) ( -18.90)
>DroYak_CAF1 7258 81 + 1
---------------------UGAUAACGAUCGGCUCCCACGAUGGU--CCGUAUCUGAUUUGGAGACUCACCAA-AAGCUUGCGACAAAGCUCGCGGGCUGAGC
---------------------.(((....))).((((......((((--..((.(((.....))).))..)))).-.(((((((((......))))))))))))) ( -23.50)
>consensus
UAA_AAUAAU_AUUGGAAG_GAGAUAAAGAUCUGCUCCCACGAUUAUCUCCAUAUCUGAUUUGGAGACUCACCAAAAAGCUUGCGACAAAGCUCGCAGGCCGAGA
.....................((((....)))).((((((.(((.........)))))....)))).((((.......((((((((......)))))))))))). (-17.35 = -16.47 +  -0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:51 2006