Locus 7729

Sequence ID 3L_DroMel_CAF1
Location 20,621,090 – 20,621,196
Length 106
Max. P 0.998578
window12585 window12586

overview

Window 5

Location 20,621,090 – 20,621,196
Length 106
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.19
Mean single sequence MFE -18.63
Consensus MFE -16.88
Energy contribution -17.28
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.21
Structure conservation index 0.91
SVM decision value 0.35
SVM RNA-class probability 0.698543
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20621090 106 + 23771897
CAUCGUGGGUUUUCCCACUAAAAAUUUUGACUUUUUGACUUCUUUACGAGCUAUCAAAAUCACUUGUGGCCCAGCCUCACGCAGACCUUUAAAUCUAAUUUCGUUU--------------
...((((((((...((((.....(((((((...((((.........))))...))))))).....))))...)))).)))).........................-------------- ( -18.40)
>DroSec_CAF1 65843 106 + 1
CAUCGUGGGUUUUCCCACUAAAAAUUUUGACUUUUUGACUUCUUUACGAGCUAUCAAAAUCACUUGUGGCCCAGCCUCACGCAGACCUUUAAAUCUAAUUUCGUUU--------------
...((((((((...((((.....(((((((...((((.........))))...))))))).....))))...)))).)))).........................-------------- ( -18.40)
>DroAna_CAF1 87672 120 + 1
GAUCGUGGGUUUUCCCACUAAAAUUUUUGACUUUUUGACUUCUUUACGAGCUAUCAAAAUCACUUGCGGCCCAGCCUCACGCAGGCCUUUAAAUCUAAUUUCGUUUCUUUACUUUUUUUU
....(((((....)))))...........................((((((..............))((((..((.....)).)))).............))))................ ( -19.54)
>DroSim_CAF1 60754 106 + 1
CAUCGUGGGUUUUCCCACUACAAAUUUUGACUUUUUGACUUCUUUACGAGCUAUCAAAAUCACUUGUGGCCCAGCCUCACGCAGACCUUUAAAUCUAAUUUCGUUU--------------
...((((((((...((((.....(((((((...((((.........))))...))))))).....))))...)))).)))).........................-------------- ( -18.40)
>DroEre_CAF1 58349 106 + 1
CAUCGUGGGUUUUCCCACUAAAAAUUUUGACUUUUUGACUUCUUUACGAGCUAUCAAAAUCACUUGUGGCCCAGCCUCACGCAGACCUUUAAAUCUAAUUUCGUUU--------------
...((((((((...((((.....(((((((...((((.........))))...))))))).....))))...)))).)))).........................-------------- ( -18.40)
>consensus
CAUCGUGGGUUUUCCCACUAAAAAUUUUGACUUUUUGACUUCUUUACGAGCUAUCAAAAUCACUUGUGGCCCAGCCUCACGCAGACCUUUAAAUCUAAUUUCGUUU______________
...((((((((...((((.....(((((((...((((.........))))...))))))).....))))...)))).))))....................................... (-16.88 = -17.28 +   0.40)

alignment

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secondary structure

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dotplot

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Window 6

Location 20,621,090 – 20,621,196
Length 106
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.19
Mean single sequence MFE -25.04
Consensus MFE -24.60
Energy contribution -24.44
Covariance contribution -0.16
Combinations/Pair 1.04
Mean z-score -1.82
Structure conservation index 0.98
SVM decision value 3.15
SVM RNA-class probability 0.998578
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20621090 106 - 23771897
--------------AAACGAAAUUAGAUUUAAAGGUCUGCGUGAGGCUGGGCCACAAGUGAUUUUGAUAGCUCGUAAAGAAGUCAAAAAGUCAAAAUUUUUAGUGGGAAAACCCACGAUG
--------------...........(((((...(((((((.....)).))))).........((((((..((.....))..)))))))))))..........(((((....))))).... ( -23.90)
>DroSec_CAF1 65843 106 - 1
--------------AAACGAAAUUAGAUUUAAAGGUCUGCGUGAGGCUGGGCCACAAGUGAUUUUGAUAGCUCGUAAAGAAGUCAAAAAGUCAAAAUUUUUAGUGGGAAAACCCACGAUG
--------------...........(((((...(((((((.....)).))))).........((((((..((.....))..)))))))))))..........(((((....))))).... ( -23.90)
>DroAna_CAF1 87672 120 - 1
AAAAAAAAGUAAAGAAACGAAAUUAGAUUUAAAGGCCUGCGUGAGGCUGGGCCGCAAGUGAUUUUGAUAGCUCGUAAAGAAGUCAAAAAGUCAAAAAUUUUAGUGGGAAAACCCACGAUC
..................((((((.........(((((((.....)).))))).....((((((((((..((.....))..))))))..))))..)))))).(((((....))))).... ( -27.10)
>DroSim_CAF1 60754 106 - 1
--------------AAACGAAAUUAGAUUUAAAGGUCUGCGUGAGGCUGGGCCACAAGUGAUUUUGAUAGCUCGUAAAGAAGUCAAAAAGUCAAAAUUUGUAGUGGGAAAACCCACGAUG
--------------..(((((.((.(((((...(((((((.....)).))))).........((((((..((.....))..))))))))))).)).))))).(((((....))))).... ( -26.40)
>DroEre_CAF1 58349 106 - 1
--------------AAACGAAAUUAGAUUUAAAGGUCUGCGUGAGGCUGGGCCACAAGUGAUUUUGAUAGCUCGUAAAGAAGUCAAAAAGUCAAAAUUUUUAGUGGGAAAACCCACGAUG
--------------...........(((((...(((((((.....)).))))).........((((((..((.....))..)))))))))))..........(((((....))))).... ( -23.90)
>consensus
______________AAACGAAAUUAGAUUUAAAGGUCUGCGUGAGGCUGGGCCACAAGUGAUUUUGAUAGCUCGUAAAGAAGUCAAAAAGUCAAAAUUUUUAGUGGGAAAACCCACGAUG
.........................(((((...(((((((.....)).))))).........((((((..((.....))..)))))))))))..........(((((....))))).... (-24.60 = -24.44 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:55:21 2006