Locus 1489

Sequence ID X_DroMel_CAF1
Location 4,421,272 – 4,421,392
Length 120
Max. P 0.808100
window2383 window2384

overview

Window 3

Location 4,421,272 – 4,421,392
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.43
Mean single sequence MFE -28.32
Consensus MFE -25.18
Energy contribution -24.94
Covariance contribution -0.24
Combinations/Pair 1.03
Mean z-score -1.34
Structure conservation index 0.89
SVM decision value 0.64
SVM RNA-class probability 0.808100
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4421272 120 + 22224390
AUCAUGACAGAGAGCAUUUCCUGUCCCUGUCUGCGUUUUCAGUUUGAGUUUGCGUUUGGCUUUGCUUUUGCGUCAUGUGGUUAAAGUGUCUUUCUCUUUUCCAUUUUCAAAGUCCAGACC
.....(((((.(..((.....))..)))))).(((..(((.....)))..)))((((((((((((....))(....((((..((((.(.....).)))).))))...))))).)))))). ( -29.80)
>DroSec_CAF1 23772 119 + 1
AUCAUGACAGAGAGCAUUUCCUGUCCCUGUCUGCGUU-UCAGUUUGAGUUUGCGUUUGGCUUUGCUUUUGCGUCAUGUGGUUAAAGUGUCUUUCUCUUUUCCAUUUUCAAAGUCCAGACC
.....(((((.(..((.....))..)))))).(((.(-((.....)))..)))((((((((((((....))(....((((..((((.(.....).)))).))))...))))).)))))). ( -27.70)
>DroSim_CAF1 25064 119 + 1
AUCAUGACAGAGAGCAUUUCCUGUCCCUGUCUGCGUU-UCAGUUUGAGUUUGCGUUUGGCUUUGCUUUUGCGUCAUGUGGUUGAAGUGUCUUUCUCUUUUCCAUUUUCAAAGUCCAGACC
.....(((((.(..((.....))..)))))).(((.(-((.....)))..)))((((((((((((....))(....((((..((((.(.....).)))).))))...))))).)))))). ( -28.10)
>DroEre_CAF1 24721 113 + 1
AUCAUGACAGAGAGCAUUUCCUGUCCCUGUCUGGG-------UUUGAGUUUGCGUUUGGCUUUGCUUUUGCGUCAUGUGGUUGAAGUGUCUUUCUCUUUUCCAUUUUCAAAGUCCAGACC
.....(((((.(((...))))))))...(((((((-------((((((...((((..(((...)))...))))...((((..((((.(.....).)))).)))).)))))).))))))). ( -30.30)
>DroYak_CAF1 24329 107 + 1
AUCAUGACAGAGAGCAUUUCCUGUCCCUGUCUGCG-------------UUUGCGUUUGGCUUUGCUUUUGCGUUAUGUGGUUGAAGUGUCUUUCUCUUUUCCAUUUUCAAAGUCCAGACC
.....(((((.(..((.....))..)))))).((.-------------...))((((((((((((....))(....((((..((((.(.....).)))).))))...))))).)))))). ( -25.70)
>consensus
AUCAUGACAGAGAGCAUUUCCUGUCCCUGUCUGCGUU_UCAGUUUGAGUUUGCGUUUGGCUUUGCUUUUGCGUCAUGUGGUUGAAGUGUCUUUCUCUUUUCCAUUUUCAAAGUCCAGACC
.....(((((.(..((.....))..))))))......................((((((((((((....))(....((((..((((.(.....).)))).))))...))))).)))))). (-25.18 = -24.94 +  -0.24)

alignment

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secondary structure

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dotplot

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Window 4

Location 4,421,272 – 4,421,392
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.43
Mean single sequence MFE -23.32
Consensus MFE -21.90
Energy contribution -21.90
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.07
Structure conservation index 0.94
SVM decision value 0.05
SVM RNA-class probability 0.559507
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4421272 120 - 22224390
GGUCUGGACUUUGAAAAUGGAAAAGAGAAAGACACUUUAACCACAUGACGCAAAAGCAAAGCCAAACGCAAACUCAAACUGAAAACGCAGACAGGGACAGGAAAUGCUCUCUGUCAUGAU
.((.(((.((((.....(((...((((.......))))..)))......((....))))))))).))((....((.....))....)).((((((((((.....)).))))))))..... ( -23.90)
>DroSec_CAF1 23772 119 - 1
GGUCUGGACUUUGAAAAUGGAAAAGAGAAAGACACUUUAACCACAUGACGCAAAAGCAAAGCCAAACGCAAACUCAAACUGA-AACGCAGACAGGGACAGGAAAUGCUCUCUGUCAUGAU
.((.(((.((((.....(((...((((.......))))..)))......((....))))))))).))((....((.....))-...)).((((((((((.....)).))))))))..... ( -23.50)
>DroSim_CAF1 25064 119 - 1
GGUCUGGACUUUGAAAAUGGAAAAGAGAAAGACACUUCAACCACAUGACGCAAAAGCAAAGCCAAACGCAAACUCAAACUGA-AACGCAGACAGGGACAGGAAAUGCUCUCUGUCAUGAU
.((.(((.((((.....(((....(((.......)))...)))......((....))))))))).))((....((.....))-...)).((((((((((.....)).))))))))..... ( -22.50)
>DroEre_CAF1 24721 113 - 1
GGUCUGGACUUUGAAAAUGGAAAAGAGAAAGACACUUCAACCACAUGACGCAAAAGCAAAGCCAAACGCAAACUCAAA-------CCCAGACAGGGACAGGAAAUGCUCUCUGUCAUGAU
(((...((.((((....(((......(((......)))...........((....))....)))....)))).))..)-------))..((((((((((.....)).))))))))..... ( -23.50)
>DroYak_CAF1 24329 107 - 1
GGUCUGGACUUUGAAAAUGGAAAAGAGAAAGACACUUCAACCACAUAACGCAAAAGCAAAGCCAAACGCAAA-------------CGCAGACAGGGACAGGAAAUGCUCUCUGUCAUGAU
.((.(((.((((.....(((....(((.......)))...)))......((....))))))))).))((...-------------.)).((((((((((.....)).))))))))..... ( -23.20)
>consensus
GGUCUGGACUUUGAAAAUGGAAAAGAGAAAGACACUUCAACCACAUGACGCAAAAGCAAAGCCAAACGCAAACUCAAACUGA_AACGCAGACAGGGACAGGAAAUGCUCUCUGUCAUGAU
.((.(((.((((.....(((....(((.......)))...)))......((....))))))))).))......................((((((((((.....)).))))))))..... (-21.90 = -21.90 +   0.00)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:46 2006