Locus 909

Sequence ID 2R_DroMel_CAF1
Location 4,054,362 – 4,054,594
Length 232
Max. P 0.930959
window1598 window1599

overview

Window 8

Location 4,054,362 – 4,054,482
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.67
Mean single sequence MFE -40.44
Consensus MFE -31.88
Energy contribution -32.28
Covariance contribution 0.40
Combinations/Pair 1.11
Mean z-score -2.12
Structure conservation index 0.79
SVM decision value 1.21
SVM RNA-class probability 0.930959
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4054362 120 + 20766785
AAGAAAUGUAAAUCGCGUUUUUGGCCCCAAGCUCUGCAAGCGCGUAGUUUCGAGAAGUGUCUGUUGAAUGGCCUUCAUGAGCUAGGUGCUUGUUAGCCGGAUUUUCAAGAAGCCAGACAU
.((((((((.....))))))))(((.((..(((..((((((((.(((((.((.((((.(((........))))))).))))))).)))))))).))).)).(((....))))))...... ( -38.50)
>DroSec_CAF1 37038 120 + 1
AAGAAAUGUAAAUCGCGUUUUUGGCCCCAAGCUCUGCAAGCGCGUAGUUCCGAGAAGUGUCUGUUGAAUGGCCUUCAUGAGCUAGGUGCUUGUUAGCCGGGUUUUCAAGAAGCCAGACAU
.....((((.....((.((((((((((...(((..((((((((.((((((...((((.(((........)))))))..)))))).)))))))).))).))))...))))))))...)))) ( -43.00)
>DroSim_CAF1 43164 120 + 1
AAGAAAUGUAAAUCGCGUUUUUGGCCCCAAGCUCUGCAAGCGCGUAGUUCCGAGAAGUGUCUGUUGAAUGGCCUUCAUGAGCUAGGUGCUUGUUAGCCGGGUUUUCAAGAAGCCAGACAU
.....((((.....((.((((((((((...(((..((((((((.((((((...((((.(((........)))))))..)))))).)))))))).))).))))...))))))))...)))) ( -43.00)
>DroEre_CAF1 36981 119 + 1
AAGCAAUGUAAAUCGCGUUUCUGGCCCAAAGCCCAGCA-GCGCGUAGUUCCGCGAAGUGUCUUUUGAAUGCGCUUUAUGAGCUAGGUGCUUGUUAGCCGGAUUUUCAAGAAGCCAGACAU
..((.((....)).))...((((((((...((..((((-((((.((((((...(((((((.........)))))))..)))))).)))).)))).)).)).(((....)))))))))... ( -33.70)
>DroYak_CAF1 40470 120 + 1
CAGAAAUGUAAAUCGCGUUUCUGGUCCAAAGCCCUGCAAGCGCGUAGUUCUGCGAAGUGUCUUUUGAAUGGGAUUUAUGAGCUAGGUGCUUGUUAGCCGGGUUUUCAAGAAUCCAGACAU
(((((((((.....)))))))))(((....((...((((((((.((((((....((((.((........)).))))..)))))).))))))))..)).((((((....)))))).))).. ( -44.00)
>consensus
AAGAAAUGUAAAUCGCGUUUUUGGCCCCAAGCUCUGCAAGCGCGUAGUUCCGAGAAGUGUCUGUUGAAUGGCCUUCAUGAGCUAGGUGCUUGUUAGCCGGGUUUUCAAGAAGCCAGACAU
.((((((((.....))))))))(((..........((((((((.((((((...((((.(((........)))))))..)))))).))))))))..)))((.(((....))).))...... (-31.88 = -32.28 +   0.40)

alignment

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secondary structure

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dotplot

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Window 9

Location 4,054,482 – 4,054,594
Length 112
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.98
Mean single sequence MFE -37.42
Consensus MFE -30.64
Energy contribution -30.60
Covariance contribution -0.04
Combinations/Pair 1.10
Mean z-score -1.61
Structure conservation index 0.82
SVM decision value 0.68
SVM RNA-class probability 0.820017
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4054482 112 + 20766785
AAACUGGCAUAUAUAACGAGCAUGAAUGGUG----CCAUUCAGCUUCCAAAUGUCGAAUGCAGUCGCUCGGGCGCUCAUGUGUGACACUUUUGUGUGCAGCGCCCUCG----CCCUUCCA
.....(((.........((((.((((((...----.))))))(((((........))).))....))))(((((((.....((.((((....)))))))))))))..)----))...... ( -38.40)
>DroSec_CAF1 37158 116 + 1
AAACUGGCGUAUAUAACGAGCAUGAAUGGUG----CCAUUCAGCUUCCAAAUGUCGAAUGCAGUCGCUCGGGCGCUCAUGUGUGACACUUUUGUGUGCAGCGCCUUCAGUGCCCCUUCCA
.....((..........((((.((((((...----.))))))(((((........))).))....))))(((((((...((((..(((......)))..))))....)))))))...)). ( -37.10)
>DroSim_CAF1 43284 116 + 1
AAACUGGCAUAUAUAACGAGCAUGAAUGGUG----CCAUUCAGCUUCCAAAUGUCGAAUGCAGUCGCUCGGGCGCUCAUGUGUGACACUUUUGUGUGCAGCGCCUUCAGUGCCCCUUCCA
.....(((((......(((((.((((((...----.))))))(((((........))).))....)))))((((((.....((.((((....))))))))))))....)))))....... ( -39.00)
>DroEre_CAF1 37100 112 + 1
AAACUGGCAUAUAUAACGAGCAUGAAUGGUG----GCAUUCAGCUUUCAAAUGUCGAUUGCAGCCGCUCGGGCGCUCAUGUGUGACACUUUUGUGUGCAGCGCUCUCG----UCCUCACA
.....(((.........((((.((((((...----.))))))((..((.......))..))....))))(((((((.....((.((((....)))))))))))))..)----))...... ( -32.20)
>DroYak_CAF1 40590 116 + 1
AAACUGGCUUAUAUAACGAGCAUGAAUGCUGCCUGCCAUUCAGCUUUCGAAUGUCGAAUGCAGUCGCUCGGGCGCUCAUGUGUGACACUUUUGUGUGCAGCGCCCCCG----CCCUUCCA
.....(((.........((((.(((((((.....).))))))((.((((.....)))).))....))))(((((((.....((.((((....)))))))))))))..)----))...... ( -40.40)
>consensus
AAACUGGCAUAUAUAACGAGCAUGAAUGGUG____CCAUUCAGCUUCCAAAUGUCGAAUGCAGUCGCUCGGGCGCUCAUGUGUGACACUUUUGUGUGCAGCGCCCUCG____CCCUUCCA
.....((..........((((.(((((((......)))))))(((((........))).))....))))(((((((.....((.((((....)))))))))))))........))..... (-30.64 = -30.60 +  -0.04)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:59 2006