Locus 3689

Sequence ID 3R_DroMel_CAF1
Location 9,999,749 – 9,999,856
Length 107
Max. P 0.857055
window5921

overview

Window 1

Location 9,999,749 – 9,999,856
Length 107
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 93.64
Mean single sequence MFE -27.42
Consensus MFE -23.60
Energy contribution -24.30
Covariance contribution 0.69
Combinations/Pair 1.04
Mean z-score -1.85
Structure conservation index 0.86
SVM decision value 0.81
SVM RNA-class probability 0.857055
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9999749 107 + 27905053
GGCAGGCGUAAAAGUUAUAAAAAUGCCAAAAUAUAGCUAAAGUUAAGCCGAGCGAGAAGGACAAGGUAGCUGCGAAAACUUUUGGCGGCCAACUGUUGAUAGUUAGC
(((.(((((.............)))))........(((((((((..((..(((...............)))))...))).)))))).)))(((((....)))))... ( -22.58)
>DroSec_CAF1 82143 107 + 1
GGCAGGCGUAAAAGUUAUAAAAAUGCCAAAAUAUAGCCAAAGUUAAGCCGAGCGAGAAGGACAAGGUAGCUGCGAAAACUUUUGGCGGCCAACUGUUGAUAGUUGGC
....(((((.............)))))........(((((((((..((..(((...............)))))...))).)))))).((((((((....)))))))) ( -27.68)
>DroSim_CAF1 82310 107 + 1
GGCAGGCGUAAAAGUUAUAAAAAUGCCAAAAUAUAGCCAAAGUUAAGCCGAGCGAGAAGGACAAGGUAGCUGCGAAAACUUUUGGUGGCCAACUGUUGAUAGUUGGC
....(((((.............)))))........(((((((((..((..(((...............)))))...))).)))))).((((((((....)))))))) ( -25.38)
>DroEre_CAF1 86693 107 + 1
GGCAGGCGUAAAAGUUAUAAAAAUGCCAAAAUAUAGCCAAAGUUAAGCCGAGCGAGAAGGACAAGGUAGCUGGGAAAACUUUUGGCGGCCAACUGUUGAUAGUUGGC
....(((((.............)))))........(((((((((...((.(((...............))).))..))).)))))).((((((((....)))))))) ( -31.88)
>DroYak_CAF1 86346 107 + 1
GGCAGGCGUAAAAGUUAUAAAAAUGCCAAAAUAUAGCCAAAGUUAAGCCGAGCGAGAAGGACAAGGUAGCUGCGAAAACUUUUGGCGGCCAACUGUUGAUAGUUGGC
....(((((.............)))))........(((((((((..((..(((...............)))))...))).)))))).((((((((....)))))))) ( -27.68)
>DroAna_CAF1 92846 101 + 1
GGCAGGCGUAAAAGUUAUAAAAAUGCCAAAAUAUAGCUAAAGUUAAGCCGAGCGAGACGCGCCAGGA-----UGAAAA-UUUCUCCAGCCAACUGUUGAUAGUUGGC
(((.(((.(((.(((((((............)))))))....))).)))..(((...)))))).(((-----.((...-..))))).((((((((....)))))))) ( -29.30)
>consensus
GGCAGGCGUAAAAGUUAUAAAAAUGCCAAAAUAUAGCCAAAGUUAAGCCGAGCGAGAAGGACAAGGUAGCUGCGAAAACUUUUGGCGGCCAACUGUUGAUAGUUGGC
(((.(((((.............)))))......((((....)))).)))..((.(((((...................))))).)).((((((((....)))))))) (-23.60 = -24.30 +   0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:33 2006