Locus 6354

Sequence ID 3L_DroMel_CAF1
Location 17,001,954 – 17,002,074
Length 120
Max. P 0.529239
window10182

overview

Window 2

Location 17,001,954 – 17,002,074
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.06
Mean single sequence MFE -47.20
Consensus MFE -18.96
Energy contribution -19.72
Covariance contribution 0.75
Combinations/Pair 1.38
Mean z-score -2.27
Structure conservation index 0.40
SVM decision value -0.01
SVM RNA-class probability 0.529239
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17001954 120 + 23771897
AGACUCUCCACGAGAUGUACGAGCGCAAGCAGGGCGUCGACUUUCCACGCACCUUCGAAUGCGGUCCUGGCAAGGGCCUGGUCCAGGUCCUGGAAAAAGUAAAUGCCAAGGCCGCUCAAU
..((((((...)))).)).(((((....))(((((((.(.....).)))).))))))...((((((.(((((((((((((...))))))))............))))).))))))..... ( -46.90)
>DroVir_CAF1 14540 120 + 1
AAACGCUGCACGAGCUCUACGAGCGGCGACAGGGCGUCGACUUUCCGCGCACCUUCGAGUGUGGUCCCGGCAAGGGACUGCUCCAGGUACUCGAGAAGGUUAAUGCGAAGGCUGCCCAGA
...((((((.((.......)).))))))...((((((..((((((((.(.((((..((((..((((((.....)))))))))).)))).).)).))))))..))((....)).))))... ( -53.00)
>DroGri_CAF1 10447 120 + 1
AGACGCUGCACGAGCUCUACGAGCGGCGGCAAGGCGCCGACUUUCCGCGCACCUUCGAGUGUGGUCCCGGCAAGGGACUGACACAGGUGCUCGAGAAGGUCAACGCCAAGGCGGCACAAA
....(((((....((((...))))((((((.....)))(((((((((.((((((....((((((((((.....)))))).)))))))))).)).)))))))...)))...)))))..... ( -61.30)
>DroWil_CAF1 9296 120 + 1
AAACCCUCCAUGAAAUGUACGAGAGACAACAGGGUGUUGAAUUUCCACGCACUUUCGAAUGCGGACCCGGCAAGGGUCUUAUCCAGGUUCUGGAAAAGGUUAAUGCCAAGGCAGCUCAAU
.((((.((((.(((.(((.(....))))...(((((...........((((........))))(((((.....))))).)))))...)))))))...))))..(((....)))....... ( -32.30)
>DroMoj_CAF1 15058 120 + 1
AGACGCUGCACGAGCUUUACGAACGACGUCAGGGCGUCGACUUUCCGCGCACCUUUGAAUGCGGCCCGGGCAAGGGUCUGCUCCAGGUGCUAGAGAAGGUGAACGCCAAGGCAGCGCAGA
.(.((((((....(((((((...((((((....)))))).(((..(..((((((..((..(((((((......))).)))))).))))))..)..)))))))).))....)))))))... ( -51.10)
>DroAna_CAF1 8421 120 + 1
AAACCCUACACGAAAUGUAUGAAAGGAAACAGGGGGUAGACUUUCCCCGGACGUUCGAAUGUGGUCCGGGAAAAGGACUUAUUCAGGUGCUGGAGAAAGUCAACGCAAAGGCCUCCCAAA
....(.((((.....)))).)...(....).(((((..(((((((.((((.(((..(((((.(((((.......))))))))))..))))))).)))))))...((....)))))))... ( -38.60)
>consensus
AAACGCUGCACGAGAUGUACGAGCGGCAACAGGGCGUCGACUUUCCGCGCACCUUCGAAUGCGGUCCCGGCAAGGGACUGAUCCAGGUGCUGGAGAAGGUCAACGCCAAGGCAGCCCAAA
...............................((((((.(((((((..((((........))))(((((.....)))))................))))))).))((....)).))))... (-18.96 = -19.72 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:21 2006