Locus 208

Sequence ID 2L_DroMel_CAF1
Location 610,972 – 611,077
Length 105
Max. P 0.926168
window312 window313

overview

Window 2

Location 610,972 – 611,077
Length 105
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 88.06
Mean single sequence MFE -28.47
Consensus MFE -24.40
Energy contribution -24.65
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.01
Structure conservation index 0.86
SVM decision value 1.17
SVM RNA-class probability 0.926168
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 610972 105 + 22407834
UGUCGCCAGCAAUCAAAAGCGGAAUAUCCGCGUCCCCUUGUAAUUAGGGGAGAGCAGAUACCAAAGAAUCCGAGCGGCAGCUUUAGUUUCAGAAGAAACAAAAAA---------------
(((((((.((........((((.....)))).((((((.......))))))..)).(((........))).).))))))......(((((....)))))......--------------- ( -32.60)
>DroSec_CAF1 417 105 + 1
UGUCGCCAGCAAUCAAAAGCGGAAUAUCCGCGUCCCCUUGUAAUUAGGGGAGAGCAGAUACCAAAGAAUCCGAGCGGCAGCUUUAGUUUCAGAAGAACCAAAAAA---------------
(((((((.((........((((.....)))).((((((.......))))))..)).(((........))).).)))))).((((.......))))..........--------------- ( -28.60)
>DroEre_CAF1 2012 115 + 1
UGUCGCCAGCAAUCAAAAGCGGAAUAUCCGCGUCCACUUGUAAUUAGGGGAGAGCAAAUACCAAAGAACCCAAGCGGCAGCUUUAGUUUCAGAAGAACCAAAAAGUG----GA-GAAGAA
..((.(((((........((((.....)))).(((.((((....)))))))..))..........((((..((((....))))..))))................))----).-)).... ( -24.70)
>DroYak_CAF1 2031 120 + 1
UGUCGCCAGCAAUCAAAAGCGGAAUAUCCGCGUCCCCUUGUAAUUAGGGGAGAGCAAAUACCAAAGAACCCAAGCGGCAGCUUUAGUUUCAGAACAACCAAAAAAGAACCAAAGAAAGAA
((((((..((........((((.....)))).((((((.......))))))..))..........(....)..)))))).((((.((((................)))).))))...... ( -27.99)
>consensus
UGUCGCCAGCAAUCAAAAGCGGAAUAUCCGCGUCCCCUUGUAAUUAGGGGAGAGCAAAUACCAAAGAACCCAAGCGGCAGCUUUAGUUUCAGAAGAACCAAAAAA_______________
((((((..((........((((.....)))).((((((.......))))))..))..........(....)..))))))......................................... (-24.40 = -24.65 +   0.25) 

alignment

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secondary structure

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dotplot

Postscript

Window 3

Location 610,972 – 611,077
Length 105
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 88.06
Mean single sequence MFE -31.07
Consensus MFE -27.24
Energy contribution -27.23
Covariance contribution -0.00
Combinations/Pair 1.06
Mean z-score -1.89
Structure conservation index 0.88
SVM decision value 1.06
SVM RNA-class probability 0.907819
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 610972 105 - 22407834
---------------UUUUUUGUUUCUUCUGAAACUAAAGCUGCCGCUCGGAUUCUUUGGUAUCUGCUCUCCCCUAAUUACAAGGGGACGCGGAUAUUCCGCUUUUGAUUGCUGGCGACA
---------------......(((((....)))))....(.(((((((((((..(...(((((((((..((((((.......)))))).)))))))))..)..)))))..)).)))).). ( -33.30)
>DroSec_CAF1 417 105 - 1
---------------UUUUUUGGUUCUUCUGAAACUAAAGCUGCCGCUCGGAUUCUUUGGUAUCUGCUCUCCCCUAAUUACAAGGGGACGCGGAUAUUCCGCUUUUGAUUGCUGGCGACA
---------------...((((((((....).)))))))(.(((((((((((..(...(((((((((..((((((.......)))))).)))))))))..)..)))))..)).)))).). ( -32.80)
>DroEre_CAF1 2012 115 - 1
UUCUUC-UC----CACUUUUUGGUUCUUCUGAAACUAAAGCUGCCGCUUGGGUUCUUUGGUAUUUGCUCUCCCCUAAUUACAAGUGGACGCGGAUAUUCCGCUUUUGAUUGCUGGCGACA
......-((----(((((.(((((((....)))(((((((..(((.....))).)))))))............))))....)))))))(((((.....))((........))..)))... ( -26.60)
>DroYak_CAF1 2031 120 - 1
UUCUUUCUUUGGUUCUUUUUUGGUUGUUCUGAAACUAAAGCUGCCGCUUGGGUUCUUUGGUAUUUGCUCUCCCCUAAUUACAAGGGGACGCGGAUAUUCCGCUUUUGAUUGCUGGCGACA
......................((((((.....(((((((..(((.....))).)))))))....((..((((((.......)))))).((((.....))))........)).)))))). ( -31.60)
>consensus
_______________UUUUUUGGUUCUUCUGAAACUAAAGCUGCCGCUCGGAUUCUUUGGUAUCUGCUCUCCCCUAAUUACAAGGGGACGCGGAUAUUCCGCUUUUGAUUGCUGGCGACA
..................(((((((.......)))))))(.((((....(((.......((((((((..((((((.......)))))).)))))))))))((........)).)))).). (-27.24 = -27.23 +  -0.00) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:29:23 2006