Locus 344

Sequence ID 3R_DroMel_CAF1
Location 1,322,073 – 1,322,183
Length 110
Max. P 0.995769
window570 window571

overview

Window 0

Location 1,322,073 – 1,322,183
Length 110
Sequences 3
Columns 110
Reading direction forward
Mean pairwise identity 78.78
Mean single sequence MFE -29.48
Consensus MFE -18.61
Energy contribution -18.83
Covariance contribution 0.22
Combinations/Pair 1.04
Mean z-score -2.12
Structure conservation index 0.63
SVM decision value 1.01
SVM RNA-class probability 0.899711
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1322073 110 + 27905053
ACACUUGUGCACCAGGCGUUUCUGGAGAAGAUUUGAUCUUCUGAGCACCAAAUAUAGCAGCCGGCUCUUUGGUUACGAAUUGUAAAUUAGAAGUGCAAUCACAAGUGCAA
.((((((((......(((((((((((((((((...)))))))....((((((...(((.....))).)))))).............))))))))))...))))))))... ( -30.70)
>DroSec_CAF1 10738 91 + 1
GCACUUGUGCAGCCGCCGUUUCUGGAGGAGAUUUGAUCUGCUGGGCACCAAAAAUAGCAGACAGA-------------------UAUUAGAAUUGCAAUCACAAGUGCGA
(((((((((...((.(((....))).))..(((((.(((((((...........)))))))))))-------------------)..............))))))))).. ( -30.30)
>DroSim_CAF1 11792 91 + 1
GCACUUGUGCAGCCGCCGUUUCUGGAGGAGAUUUGAUCUGCUGGGCACCAAAAAUAGCAGCCAGA-------------------UAUUAGAAUUGCAAUCACAAGUGCAA
(((((((((...((.(((....))).)).(((((.((((((((..............))).))))-------------------)....))))).....))))))))).. ( -27.44)
>consensus
GCACUUGUGCAGCCGCCGUUUCUGGAGGAGAUUUGAUCUGCUGGGCACCAAAAAUAGCAGCCAGA___________________UAUUAGAAUUGCAAUCACAAGUGCAA
((((((((((((....((..(((.....)))..))..((((((...........))))))................................))))....)))))))).. (-18.61 = -18.83 +   0.22)

alignment

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secondary structure

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dotplot

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Window 1

Location 1,322,073 – 1,322,183
Length 110
Sequences 3
Columns 110
Reading direction reverse
Mean pairwise identity 78.78
Mean single sequence MFE -29.50
Consensus MFE -20.49
Energy contribution -21.27
Covariance contribution 0.78
Combinations/Pair 1.03
Mean z-score -2.69
Structure conservation index 0.69
SVM decision value 2.61
SVM RNA-class probability 0.995769
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1322073 110 - 27905053
UUGCACUUGUGAUUGCACUUCUAAUUUACAAUUCGUAACCAAAGAGCCGGCUGCUAUAUUUGGUGCUCAGAAGAUCAAAUCUUCUCCAGAAACGCCUGGUGCACAAGUGU
..(((((((((...((((.......((((.....)))).((((.(((.....)))...))))))))..(((((((...)))))))((((......))))..))))))))) ( -31.50)
>DroSec_CAF1 10738 91 - 1
UCGCACUUGUGAUUGCAAUUCUAAUA-------------------UCUGUCUGCUAUUUUUGGUGCCCAGCAGAUCAAAUCUCCUCCAGAAACGGCGGCUGCACAAGUGC
..(((((((((((((......)))).-------------------...(.((((..(((((((.....((.((((...)))).)))))))))..)))))..))))))))) ( -26.10)
>DroSim_CAF1 11792 91 - 1
UUGCACUUGUGAUUGCAAUUCUAAUA-------------------UCUGGCUGCUAUUUUUGGUGCCCAGCAGAUCAAAUCUCCUCCAGAAACGGCGGCUGCACAAGUGC
..(((((((((((((......)))).-------------------...((((((..(((((((.....((.((((...)))).)))))))))..)))))).))))))))) ( -30.90)
>consensus
UUGCACUUGUGAUUGCAAUUCUAAUA___________________UCUGGCUGCUAUUUUUGGUGCCCAGCAGAUCAAAUCUCCUCCAGAAACGGCGGCUGCACAAGUGC
..(((((((((((((......)))).........................(((((.(((((((.....((.((((...)))).))))))))).)))))...))))))))) (-20.49 = -21.27 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:52 2006