Locus 5340

Sequence ID 3R_DroMel_CAF1
Location 14,014,976 – 14,015,093
Length 117
Max. P 0.864513
window8704

overview

Window 4

Location 14,014,976 – 14,015,093
Length 117
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 75.94
Mean single sequence MFE -33.03
Consensus MFE -22.37
Energy contribution -22.73
Covariance contribution 0.36
Combinations/Pair 1.21
Mean z-score -1.45
Structure conservation index 0.68
SVM decision value 0.84
SVM RNA-class probability 0.864513
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14014976 117 - 27905053
CUUCUUGAGGUCGUCCAGCGACGUCUUGCUGAAGUCUAUGCGCGCCGCACAUUUCGCCAGACUUUCCGACAAAGUCGGCGGCCUAAGGAGAAAAAA--ACAAAGAACCCAAUAAA-UCAU
((((((.((((((((....)))((((.((.(((((...((((...)))).))))))).))))...(((((...))))).)))))))))))......--.................-.... ( -32.40)
>DroPse_CAF1 130 106 - 1
CUUCUUCAGAUCGUCCAGCGAUGUUUUGCUGAAGUCUAUGCGGGCCGCACACUUGGCCAGGCUCUCGGAUAGAGUCGGCGGUCUGAAAAGUUCA-------------UCAACAAC-UUGU
....(((((((((((((((((....))))))...........(((((......))))).((((((.....)))))))))))))))))(((((..-------------.....)))-)).. ( -38.50)
>DroEre_CAF1 133 115 - 1
CUUCUUGAGGUCGUCCAGCGACGUCUUGCUGAAAUCUAUGCGUGCCGCACAUUUCGCCAGACUUUCGGACAAAGUUGGCGGCCUACAAAGAAAA--AGA--CACAACACAAUAAA-UUUU
.(((((.((((((.(((((...((((.((.(((((...((((...)))).))))))).))))(((.....))))))))))))))...)))))..--...--..............-.... ( -31.20)
>DroYak_CAF1 132 116 - 1
CUUCUUGAGGUCGUCGAGCGACGUCUUACUAAAAUCUAUACGCGCCGCACAUUUCGCCAGACUUUCGGACAAAGUCGGCGGCCUAAGGAGAAAAAAAAA--CAGAGCUCAAUAAA-UUU-
((((((.(((((((((.(((.(((..((........)).)))))))).)).....(((.((((((.....)))))))))))))))))))).........--..............-...- ( -31.40)
>DroAna_CAF1 126 117 - 1
CUUCUUCAGGUCGUCCAGCGACGUCUUGCUAAAGUCUAUGCGAGCUGCACAUUUCGCUAAACUCUCCGACAAAGUAGGCGGCCUACAACGAAAC---GCCGGAACGCCCAAACAACUUGU
........((.(((((.(((..(((.......(((.((.(((((........))))))).)))....)))...(((((...))))).......)---)).)).))).))........... ( -26.20)
>DroPer_CAF1 130 106 - 1
CUUCUUCAGAUCGUCCAGCGAUGUUUUGCUGAAGUCUAUGCGGGCCGCACACUUGGCCAGGCUCUCGGAUAGAGUCGGCGGUCUGAAAAGUUCA-------------UCAACAAC-UUGU
....(((((((((((((((((....))))))...........(((((......))))).((((((.....)))))))))))))))))(((((..-------------.....)))-)).. ( -38.50)
>consensus
CUUCUUCAGGUCGUCCAGCGACGUCUUGCUGAAGUCUAUGCGCGCCGCACAUUUCGCCAGACUCUCGGACAAAGUCGGCGGCCUAAAAAGAAAA____A___A_A_CUCAAUAAA_UUGU
.(((((.((((((((((((((....)))))).......((((...))))..........((((((.....))))))))))))))...)))))............................ (-22.37 = -22.73 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:21 2006