Locus 1349

Sequence ID 2L_DroMel_CAF1
Location 3,580,895 – 3,580,995
Length 100
Max. P 0.999901
window2205 window2206

overview

Window 5

Location 3,580,895 – 3,580,995
Length 100
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 95.30
Mean single sequence MFE -34.01
Consensus MFE -32.10
Energy contribution -32.10
Covariance contribution 0.00
Combinations/Pair 1.07
Mean z-score -1.31
Structure conservation index 0.94
SVM decision value 0.98
SVM RNA-class probability 0.893177
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3580895 100 + 22407834
AGAGCGAGCGGAGAGCGGGAGAAAUUCAGGUUGGCCAGGUGCAAACUCGUUUUGUCUGUGUAUUCUGAGCACCUUUACUCCCGCUCUCACCCACACAC--GC--
...(.(.(..(((((((((((.((...((((..((((((((((.((.......))...)))).)))).)))))))).)))))))))))..)).)....--..-- ( -35.30)
>DroSec_CAF1 48649 100 + 1
AGAGCGAGCGGAGAGCGGGAGAAAUUCAGGUUGGCCAGGUGCAAACUCGUUUUGUCUGUGUAUUCUGAGCACCUUUACUCCCGCUCUCACCCACACAC--AC--
...(.(.(..(((((((((((.((...((((..((((((((((.((.......))...)))).)))).)))))))).)))))))))))..)).)....--..-- ( -35.30)
>DroSim_CAF1 51373 100 + 1
AGAGCGAGCGGAGAGCGGGAGAAAUUCAGGUUGGCCAGGUGCAAACUCGUUUUGUCUGUGUAUUCUGAGCACCUUAACUCCCGCUCUCACCCACACAC--GC--
...(.(.(..(((((((((((...((.((((..((((((((((.((.......))...)))).)))).)))))).)))))))))))))..)).)....--..-- ( -35.20)
>DroEre_CAF1 50614 102 + 1
AGAGCGAGCGGAGAGCGGGAGAAAUUCAGGUUGGCCAGGUGGAAACUCGUUUUGUCUGUGUAUUUUGAGCGCCUUUACUCCCGCUCUCACCCACACACACAC--
...(.(.(..((((((((((((((((((((...((((((..(((.....)))..)))).))..))))))....))).)))))))))))..)).)........-- ( -35.50)
>DroYak_CAF1 51200 104 + 1
AGAGCGAGCGGAGAGCUGGAGAAAUUCAGGUUGGCCAGGUGCAAACUCGUUUUGUCUGUGUAUUUUGAGCACCUUUACUCCCGCUCUCACCCACACACACACGC
...(.((((((.((((((((....))))).......((((((..........................))))))...))))))))).)................ ( -28.77)
>consensus
AGAGCGAGCGGAGAGCGGGAGAAAUUCAGGUUGGCCAGGUGCAAACUCGUUUUGUCUGUGUAUUCUGAGCACCUUUACUCCCGCUCUCACCCACACAC__AC__
...(.(.(..(((((((((((......((((..((((((((((.((.......))...)))).)))).))))))...)))))))))))..)).).......... (-32.10 = -32.10 +   0.00)

alignment

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secondary structure

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dotplot

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Window 6

Location 3,580,895 – 3,580,995
Length 100
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 95.30
Mean single sequence MFE -38.55
Consensus MFE -37.12
Energy contribution -38.12
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.41
Structure conservation index 0.96
SVM decision value 4.46
SVM RNA-class probability 0.999901
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3580895 100 - 22407834
--GC--GUGUGUGGGUGAGAGCGGGAGUAAAGGUGCUCAGAAUACACAGACAAAACGAGUUUGCACCUGGCCAACCUGAAUUUCUCCCGCUCUCCGCUCGCUCU
--..--..(.(((((((((((((((((...((((((.(((......(((((.......)))))...)))))..))))......)))))))))).))))))).). ( -41.50)
>DroSec_CAF1 48649 100 - 1
--GU--GUGUGUGGGUGAGAGCGGGAGUAAAGGUGCUCAGAAUACACAGACAAAACGAGUUUGCACCUGGCCAACCUGAAUUUCUCCCGCUCUCCGCUCGCUCU
--..--..(.(((((((((((((((((...((((((.(((......(((((.......)))))...)))))..))))......)))))))))).))))))).). ( -41.50)
>DroSim_CAF1 51373 100 - 1
--GC--GUGUGUGGGUGAGAGCGGGAGUUAAGGUGCUCAGAAUACACAGACAAAACGAGUUUGCACCUGGCCAACCUGAAUUUCUCCCGCUCUCCGCUCGCUCU
--..--..(.(((((((((((((((((...((((((.(((......(((((.......)))))...)))))..))))......)))))))))).))))))).). ( -41.50)
>DroEre_CAF1 50614 102 - 1
--GUGUGUGUGUGGGUGAGAGCGGGAGUAAAGGCGCUCAAAAUACACAGACAAAACGAGUUUCCACCUGGCCAACCUGAAUUUCUCCCGCUCUCCGCUCGCUCU
--......(.(((((((((((((((((...(((.((((..................))))..((....))....)))......)))))))))).))))))).). ( -35.17)
>DroYak_CAF1 51200 104 - 1
GCGUGUGUGUGUGGGUGAGAGCGGGAGUAAAGGUGCUCAAAAUACACAGACAAAACGAGUUUGCACCUGGCCAACCUGAAUUUCUCCAGCUCUCCGCUCGCUCU
........(.((((((((((((.((((...((((((..........................))))))((....)).......)))).))))).))))))).). ( -33.07)
>consensus
__GU__GUGUGUGGGUGAGAGCGGGAGUAAAGGUGCUCAGAAUACACAGACAAAACGAGUUUGCACCUGGCCAACCUGAAUUUCUCCCGCUCUCCGCUCGCUCU
........(.(((((((((((((((((...((((((.(((......(((((.......)))))...)))))..))))......)))))))))).))))))).). (-37.12 = -38.12 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:20 2006