Locus 8688

Sequence ID 3R_DroMel_CAF1
Location 23,196,498 – 23,196,588
Length 90
Max. P 0.923915
window13953

overview

Window 3

Location 23,196,498 – 23,196,588
Length 90
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 75.21
Mean single sequence MFE -34.87
Consensus MFE -22.72
Energy contribution -21.78
Covariance contribution -0.94
Combinations/Pair 1.48
Mean z-score -1.67
Structure conservation index 0.65
SVM decision value 1.16
SVM RNA-class probability 0.923915
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23196498 90 + 27905053
---------------GCCAGCGGUAG---CCGCUGUAACCACAAGGUGGCUCUGGAAUUGUCGCACGGCAAGAACAAACAGCUAAUUUCACUGCCCGCGGAAAAGCUG
---------------..((((.....---((((....(((....)))(((..((((((((..((................))))))))))..))).))))....)))) ( -25.09)
>DroVir_CAF1 11996 102 + 1
------GAUGUCGGCUUUGGCGGCAGCGGCAAGUGCAGCCACAAAGUUGCUCUAGAGCUGUCACACGGAAAGAGCAAACAACUAAUUUCACUGCCAGCGGACAAGUUG
------..((((.(((..(((((((((..(.((.(((((......))))).)).).))))))....((((..((.......))..))))...)))))).))))..... ( -34.70)
>DroPse_CAF1 11877 105 + 1
AGUGGUGGUGGCGGUGGCGGUGGCAG---CCGCUGCAACCACAAGGUUGCUCUGGAGCUGUCACAUGGCAAGAAUAAGCAACUAAUUUCACUGCCAGCGGAAAAGUUG
.(..(((((((..(..(((((....)---))))..)..))))..(((((((.((...(((((....))).))..))))))))).....)))..)((((......)))) ( -41.20)
>DroGri_CAF1 13164 102 + 1
------GACGUCGGCUUUGGUGGCAGCGGCAAAUGUAGCCACAAAGUUGCUCUGGAGUUGUCGCACGGAAAGAGUAAACAACUAAUUUCACUGCCAGCGGAUAAGUUG
------..(((.(((....((((((((..((...(((((......)))))..))..))))))))..((((..(((.....)))..))))...))).)))......... ( -28.90)
>DroEre_CAF1 11797 90 + 1
---------------GCCAGCGCCGG---CCGCUGUAACCACAAGGUGGCGCUGGAGCUGUCGCACGGCAAGAACAAGCAGCUAAUUUCACUGCCCGCGGAAAAGCUG
---------------.(((((((((.---((..(((....))).)))))))))))((((.((((..((((.(((............)))..)))).))))...)))). ( -36.30)
>DroPer_CAF1 11939 105 + 1
AGUGGCGGUGGCGGUGGCAGUGGCAG---CCGCUGCAACCACAAGGUUGCUCUGGAGCUGUCACAUGGCAAGAAUAAGCAACUAAUUUCACUGCCAGCGGAAAAGUUG
.....((.(((((((((..(((((((---(..(.((((((....))))))...)..))))))))...((........))........))))))))).))......... ( -43.00)
>consensus
______G_UG_CGG_GCCAGCGGCAG___CCGCUGCAACCACAAGGUUGCUCUGGAGCUGUCACACGGCAAGAACAAACAACUAAUUUCACUGCCAGCGGAAAAGUUG
...............(((((((((((...(((..((((((....))))))..)))..))))))).)))).........(((((...(((.(.....).)))..))))) (-22.72 = -21.78 +  -0.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:17:17 2006