Locus 7079

Sequence ID 3L_DroMel_CAF1
Location 19,142,178 – 19,142,338
Length 160
Max. P 0.958980
window11476 window11477

overview

Window 6

Location 19,142,178 – 19,142,298
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.67
Mean single sequence MFE -30.08
Consensus MFE -27.66
Energy contribution -27.86
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.27
Structure conservation index 0.92
SVM decision value 0.45
SVM RNA-class probability 0.739280
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19142178 120 + 23771897
UUGGGAAACGCAGUUAGAGUCAGACAAUAACUGGUCAAGGUCAAGCAGAACGGAAAACCGAAAUCCAUGCCAAAGGGUUAACUAGUCAAGUGACCUUUGCGUUACUCUAAAAUGAACUUU
..(((.((((((....((.((((.......))))))(((((((.((((..(((....))).(((((........)))))..)).))....))))))))))))).)))............. ( -28.90)
>DroSec_CAF1 5104 120 + 1
UUGGGAAACGCAGUUAGAGUCAGACAAUAACAGGUCAAGGUCAAGCAGAACGGAAACCCGAAAUCCAUGCCAAAGGGUUAACUAGUCAAGUGACCUUUGCGUUACUCUAAAAUGAACUUU
..(((.((((((..........(((........)))(((((((....((..(..(((((...............)))))..)...))...))))))))))))).)))............. ( -28.86)
>DroSim_CAF1 4670 120 + 1
UUGCGAAACGCAGUUAGAGUCAGACAAUAACUGGUCAAGGUCAAGCAGAACGGAAACCCGAAAUCCAUGCCAAAGGGUUAACUAGUCAAGUGACCUUUGCGUUACUCUAAAAUGAACUUU
(((((...)))))((((((((((.......)))((.(((((((....((..(..(((((...............)))))..)...))...))))))).))...))))))).......... ( -28.96)
>DroEre_CAF1 5522 120 + 1
UUGGGAAACGCAGUUAGAGUCAGACAAUAACUGGUCAAGGUCAAGUAGAACGGAAACCCGAAAUCCAUGCCAAUGGGUUAACUAGUCCAGUGACCUUUGCGUUGCUCUAAAAUGAACUUU
..(((.((((((((((..(.....)..)))))(((((.((.(.(((....(((....))).(((((((....))))))).))).).))..)))))...))))).)))............. ( -33.90)
>DroYak_CAF1 5447 120 + 1
UUGGGAAACGCAGUUAGAGUCGGACAAUAACUGGUCAAGGUCAAGUAGAACGGAAACCCGAAAUCCGUGCCAAAGGGUUAACUAGUCAAGUGACCUUUGCGUUGCUCUAAAAUGAACUUU
..(((.((((((((((..(.....)..)))))(((((..(.(.(((....(((....))).(((((........))))).))).).)...)))))...))))).)))............. ( -29.80)
>consensus
UUGGGAAACGCAGUUAGAGUCAGACAAUAACUGGUCAAGGUCAAGCAGAACGGAAACCCGAAAUCCAUGCCAAAGGGUUAACUAGUCAAGUGACCUUUGCGUUACUCUAAAAUGAACUUU
..(((.((((((..........(((........)))(((((((....((.(((....))).(((((........)))))......))...))))))))))))).)))............. (-27.66 = -27.86 +   0.20)

alignment

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secondary structure

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dotplot

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Window 7

Location 19,142,218 – 19,142,338
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.00
Mean single sequence MFE -29.04
Consensus MFE -27.08
Energy contribution -27.04
Covariance contribution -0.04
Combinations/Pair 1.03
Mean z-score -1.48
Structure conservation index 0.93
SVM decision value 1.50
SVM RNA-class probability 0.958980
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19142218 120 + 23771897
UCAAGCAGAACGGAAAACCGAAAUCCAUGCCAAAGGGUUAACUAGUCAAGUGACCUUUGCGUUACUCUAAAAUGAACUUUAGAGAAAUAAAACCGAAACGAAUUUCGCCUUGGCUGCACU
....((((..(((....)))......((((..((((((((.((.....))))))))))))))..(((((((......)))))))........((((..((.....))..))))))))... ( -28.30)
>DroSec_CAF1 5144 120 + 1
UCAAGCAGAACGGAAACCCGAAAUCCAUGCCAAAGGGUUAACUAGUCAAGUGACCUUUGCGUUACUCUAAAAUGAACUUUAGAGGCAUACAUCCGAAACGAAUUUCGCCUUGGCUGCACU
....((((..(((....)))......(((((.((((((((.((.....)))))))))).......((((((......)))))))))))....((((..((.....))..))))))))... ( -30.80)
>DroSim_CAF1 4710 120 + 1
UCAAGCAGAACGGAAACCCGAAAUCCAUGCCAAAGGGUUAACUAGUCAAGUGACCUUUGCGUUACUCUAAAAUGAACUUUAGAGGCAUACAUCCGAAACGAAUUUCGCCUUGGCUGCACU
....((((..(((....)))......(((((.((((((((.((.....)))))))))).......((((((......)))))))))))....((((..((.....))..))))))))... ( -30.80)
>DroEre_CAF1 5562 120 + 1
UCAAGUAGAACGGAAACCCGAAAUCCAUGCCAAUGGGUUAACUAGUCCAGUGACCUUUGCGUUGCUCUAAAAUGAACUUUAGAGAAAUAAAGCCGAAACAAAUUUCGCCUUGGCUGCACU
...(((....(((....))).(((((((....))))))).)))(((.((((.........(((.(((((((......))))))).))).(((.(((((....))))).))).)))).))) ( -26.80)
>DroYak_CAF1 5487 120 + 1
UCAAGUAGAACGGAAACCCGAAAUCCGUGCCAAAGGGUUAACUAGUCAAGUGACCUUUGCGUUGCUCUAAAAUGAACUUUAGAGAAAUAAAGCCGAAACAAAUUUCGCCUUGGCUGCACU
....(((..(((((.........)))))(((.((((((((.((.....))))))))))..(((.(((((((......))))))).))).(((.(((((....))))).)))))))))... ( -28.50)
>consensus
UCAAGCAGAACGGAAACCCGAAAUCCAUGCCAAAGGGUUAACUAGUCAAGUGACCUUUGCGUUACUCUAAAAUGAACUUUAGAGAAAUAAAGCCGAAACGAAUUUCGCCUUGGCUGCACU
....(((...(((....)))........((((((((((((.((.....))))))))))((....(((((((......)))))))..........((((....))))))..)))))))... (-27.08 = -27.04 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:09 2006