Locus 8359

Sequence ID 3R_DroMel_CAF1
Location 22,306,067 – 22,306,164
Length 97
Max. P 0.999475
window13466 window13467

overview

Window 6

Location 22,306,067 – 22,306,164
Length 97
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 92.42
Mean single sequence MFE -40.32
Consensus MFE -33.40
Energy contribution -34.28
Covariance contribution 0.88
Combinations/Pair 1.03
Mean z-score -3.76
Structure conservation index 0.83
SVM decision value 3.64
SVM RNA-class probability 0.999475
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22306067 97 + 27905053
GGGGGGAAGAUUGGAGCAGAGAUGGGUUCCUGGGUUCCUGGAGAAACCGGGAUG--------GCGGGGAACUGGGCGCUGCUGCACAAAUUUGCAUAGUUGAACG
...(.(((...((.(((((...(.(((((((.(.(((((((.....)))))).)--------.).))))))).)...))))).))....))).)........... ( -34.40)
>DroSec_CAF1 22470 97 + 1
GGGGGGCAGAUUGCAGCAGAGAUGGGUUCCAGGGUUCCUGGGGAAACCGGGAAG--------GCGUGGAACUGGGCGCUGCUGCACAAAUUUGCAUAGUUGAACG
.....((((((((((((((...(.(((((((.(.(((((((.....))))))).--------.).))))))).)...))))))))...))))))........... ( -44.40)
>DroSim_CAF1 21955 97 + 1
GGGGGGCAGAUUGCAGCAGAGAUGGGUUCCUGGGUUCCUGGGGAAACCGGGAAG--------GCGGGGAACUGGGCGCUGCUGCACAAAUUUGCAUAGUUGAACG
.....((((((((((((((...(.(((((((.(.(((((((.....))))))).--------.).))))))).)...))))))))...))))))........... ( -44.40)
>DroEre_CAF1 23503 97 + 1
GGGGGGCAGAUUGCAGCAGAGAUGGGUUCCUUGGUUCCUGGGGAAAACGAGAAG--------GCGGGGAACUGGGCGCUGCUGCACAAAUUUGCAUAGUUGAACG
.....((((((((((((((...(.(((((((((.((.((.(......).)).))--------.))))))))).)...))))))))...))))))........... ( -38.70)
>DroYak_CAF1 22244 105 + 1
GGGGGGCAGAUUGCAGCAAAGAUGGGUUCCUUGGUUCCUGGAGAAACCGGGAAGGCGGAAAGGCGGGGAACUGGGCGCUGCUGCACAAAUUUGCAUAGUUGAACG
.....(((((((((((((..(.(.((((((((..(((((((.....))))))).((......)))))))))).).)..)))))))...))))))........... ( -39.70)
>consensus
GGGGGGCAGAUUGCAGCAGAGAUGGGUUCCUGGGUUCCUGGGGAAACCGGGAAG________GCGGGGAACUGGGCGCUGCUGCACAAAUUUGCAUAGUUGAACG
.....((((((((((((((...(.(((((((.(.(((((((.....)))))))..........).))))))).)...))))))))...))))))........... (-33.40 = -34.28 +   0.88)

alignment

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secondary structure

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dotplot

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Window 7

Location 22,306,067 – 22,306,164
Length 97
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 92.42
Mean single sequence MFE -25.10
Consensus MFE -20.42
Energy contribution -20.86
Covariance contribution 0.44
Combinations/Pair 1.04
Mean z-score -2.31
Structure conservation index 0.81
SVM decision value 1.98
SVM RNA-class probability 0.984664
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22306067 97 - 27905053
CGUUCAACUAUGCAAAUUUGUGCAGCAGCGCCCAGUUCCCCGC--------CAUCCCGGUUUCUCCAGGAACCCAGGAACCCAUCUCUGCUCCAAUCUUCCCCCC
..........((((......))))((((.(....(((((....--------..(((.((.....)).))).....)))))....).))))............... ( -19.30)
>DroSec_CAF1 22470 97 - 1
CGUUCAACUAUGCAAAUUUGUGCAGCAGCGCCCAGUUCCACGC--------CUUCCCGGUUUCCCCAGGAACCCUGGAACCCAUCUCUGCUGCAAUCUGCCCCCC
...........(((......((((((((.(....((((((.(.--------.((((.((.....)).))))..)))))))....).))))))))...)))..... ( -29.60)
>DroSim_CAF1 21955 97 - 1
CGUUCAACUAUGCAAAUUUGUGCAGCAGCGCCCAGUUCCCCGC--------CUUCCCGGUUUCCCCAGGAACCCAGGAACCCAUCUCUGCUGCAAUCUGCCCCCC
...........(((......((((((((.(....(((((..(.--------.((((.((.....)).))))..).)))))....).))))))))...)))..... ( -27.50)
>DroEre_CAF1 23503 97 - 1
CGUUCAACUAUGCAAAUUUGUGCAGCAGCGCCCAGUUCCCCGC--------CUUCUCGUUUUCCCCAGGAACCAAGGAACCCAUCUCUGCUGCAAUCUGCCCCCC
...........(((......((((((((.(....(((((..(.--------.((((.(......).))))..)..)))))....).))))))))...)))..... ( -22.10)
>DroYak_CAF1 22244 105 - 1
CGUUCAACUAUGCAAAUUUGUGCAGCAGCGCCCAGUUCCCCGCCUUUCCGCCUUCCCGGUUUCUCCAGGAACCAAGGAACCCAUCUUUGCUGCAAUCUGCCCCCC
...........(((......((((((((.(....(((((..((......))......((((((....))))))..)))))....).))))))))...)))..... ( -27.00)
>consensus
CGUUCAACUAUGCAAAUUUGUGCAGCAGCGCCCAGUUCCCCGC________CUUCCCGGUUUCCCCAGGAACCCAGGAACCCAUCUCUGCUGCAAUCUGCCCCCC
...........(((......((((((((.(....(((((..(.........).....((((((....))))))..)))))....).))))))))...)))..... (-20.42 = -20.86 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:09:35 2006