Locus 1982

Sequence ID 3L_DroMel_CAF1
Location 5,454,401 – 5,454,511
Length 110
Max. P 0.786638
window3104

overview

Window 4

Location 5,454,401 – 5,454,511
Length 110
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.08
Mean single sequence MFE -30.21
Consensus MFE -16.34
Energy contribution -19.07
Covariance contribution 2.73
Combinations/Pair 1.19
Mean z-score -1.77
Structure conservation index 0.54
SVM decision value 0.57
SVM RNA-class probability 0.786638
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5454401 110 + 23771897
AGAUA---------ACGUCCUCUACCCCCUCAAGU-UACCUCCCAACAUCCAGUUGGGAUCCACCACCGGCACCACCGGGAAUUUCAGAUGACUACUGUCGCAACAAGGAGGAUGGCUCG
.((..---------.((((((((.....((.((((-(...(((((((.....))))))).......((((.....)))).))))).))..(((....))).......))))))))..)). ( -34.30)
>DroSec_CAF1 15903 119 + 1
AGAUAACCACUGAAACGUCCUCUACCCCCUCAAUU-UACCACCCAACAACCAGUUGGGAUCCACCACCGGCACCACCGGGAAUUUCAGAUGACUACUGUCGCAAUAAGGAGGAUGGCUCG
...........((..((((((((........((((-(....((((((.....))))))........((((.....)))))))))...(.((((....))))).....))))))))..)). ( -33.80)
>DroSim_CAF1 16020 119 + 1
AGAUAACCACUGAAACGUCCUCUACCCCCUCAAUU-UACCACCCAACAACCAGUUGGGAUCCACCACCGGCACCGCCGGGAAUUUCAGAUGACUACUGUCGCAAUAAGGAGGAUGGCUCG
...........((..((((((((........((((-(....((((((.....))))))........(((((...))))))))))...(.((((....))))).....))))))))..)). ( -36.00)
>DroEre_CAF1 15501 116 + 1
AGAUAACAACAGAAGCGUCCUCUACCC---CAAAC-UACCCCCCAACAUCCAGUUGGGAUCCACCACCUGCACCACCUGGAAUUUCAGAUGAUUACUGUCGCAAUAAAGCCGAUGGGUCG
.(((............(((.(((....---.....-.....((((((.....)))))).((((..............)))).....))).)))..(((((((......).))))))))). ( -21.04)
>DroYak_CAF1 2722 116 + 1
UGAUAACCAAAGAAACAUCCUCUACAC---CAAGU-AACCCCCCAACAUCCAGUUGGGAUCCACCACCUGCACCACCGGGAAUUUCAGAUGACUACUGUCGCAAUAAGGAGGAUGGCUCC
...........((..((((((((....---.....-.....((((((.....))))))..........(((.((....))..........(((....))))))....))))))))..)). ( -30.60)
>DroMoj_CAF1 7191 102 + 1
------------------CGUCCAACCACUGAGGAGAAUUGGCCCACAUCGGACUAUGAUCCACCACCGCCACCACCGGGCGUUGCGGAAUCAUUCUGUAAGAACUUCAAGGAUGGUUCG
------------------.((((..((.....)).((..((.....))))))))...((.(((((..((((.......))))(((((((.....))))))).........)).))).)). ( -25.50)
>consensus
AGAUAACCAC_GAAACGUCCUCUACCCCCUCAAGU_UACCACCCAACAUCCAGUUGGGAUCCACCACCGGCACCACCGGGAAUUUCAGAUGACUACUGUCGCAAUAAGGAGGAUGGCUCG
...............((((((((..................((((((.....))))))........((((.....))))...........(((....))).......))))))))..... (-16.34 = -19.07 +   2.73)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:43 2006