Locus 3026

Sequence ID X_DroMel_CAF1
Location 8,091,414 – 8,091,614
Length 200
Max. P 0.926607
window4954 window4955 window4956 window4957

overview

Window 4

Location 8,091,414 – 8,091,534
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 98.33
Mean single sequence MFE -52.33
Consensus MFE -50.80
Energy contribution -52.30
Covariance contribution 1.50
Combinations/Pair 1.00
Mean z-score -1.93
Structure conservation index 0.97
SVM decision value 0.77
SVM RNA-class probability 0.845001
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8091414 120 + 22224390
UGUGGCCUGUCUGGAUUUCGUUAAGCCCACGCCCACUCUGGGCACCAAGUGGGGCGUUGGCGGCACCUGCGUGAACGUGGGCUGCAUUCCCAAGAAGCUGAUGCACCAGGCCUCCCUUCU
...(((((((((((..........(((.(((((((((.(((...)))))).)))))).))).(((((..((....))..)).)))....)).))).((....))..))))))........ ( -51.80)
>DroSim_CAF1 99 120 + 1
UGUGGCCUGUCUGGAUUACGUUAAGCCCACGCCCACUCUGGGCACCAAGUGGGGCGUUGGCGGCACCUGCGUGAACGUGGGCUGCAUUCCCAAGAAGCUGAUGCACCAGGCCUCGCUUCU
.(.(((((((((((..........(((.(((((((((.(((...)))))).)))))).))).(((((..((....))..)).)))....)).))).((....))..)))))).)...... ( -52.60)
>DroYak_CAF1 119 120 + 1
UGUGGCCUGUCUGGAUUACGUUAAGCCCACGCCCACUCUGGGCACCAAGUGGGGCGUUGGCGGCACCUGCGUGAACGUGGGCUGCAUUCCCAAGAAGCUGAUGCACCAGGCCUCGCUCCU
.(.(((((((((((..........(((.(((((((((.(((...)))))).)))))).))).(((((..((....))..)).)))....)).))).((....))..)))))).)...... ( -52.60)
>consensus
UGUGGCCUGUCUGGAUUACGUUAAGCCCACGCCCACUCUGGGCACCAAGUGGGGCGUUGGCGGCACCUGCGUGAACGUGGGCUGCAUUCCCAAGAAGCUGAUGCACCAGGCCUCGCUUCU
.(.(((((((((((..........(((.(((((((((.(((...)))))).)))))).))).(((((..((....))..)).)))....)).))).((....))..)))))).)...... (-50.80 = -52.30 +   1.50)

alignment

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secondary structure

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dotplot

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Window 5

Location 8,091,414 – 8,091,534
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 98.33
Mean single sequence MFE -52.03
Consensus MFE -51.30
Energy contribution -51.63
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.13
Structure conservation index 0.99
SVM decision value 1.18
SVM RNA-class probability 0.926607
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8091414 120 - 22224390
AGAAGGGAGGCCUGGUGCAUCAGCUUCUUGGGAAUGCAGCCCACGUUCACGCAGGUGCCGCCAACGCCCCACUUGGUGCCCAGAGUGGGCGUGGGCUUAACGAAAUCCAGACAGGCCACA
........((((((.(((((...((.....)).)))))((((((((((((...((.((.(((((........)))))))))...))))))))))))...............))))))... ( -50.50)
>DroSim_CAF1 99 120 - 1
AGAAGCGAGGCCUGGUGCAUCAGCUUCUUGGGAAUGCAGCCCACGUUCACGCAGGUGCCGCCAACGCCCCACUUGGUGCCCAGAGUGGGCGUGGGCUUAACGUAAUCCAGACAGGCCACA
........((((((..((....))......(((.((((((((((((((((...((.((.(((((........)))))))))...)))))))))))))....))).)))...))))))... ( -52.80)
>DroYak_CAF1 119 120 - 1
AGGAGCGAGGCCUGGUGCAUCAGCUUCUUGGGAAUGCAGCCCACGUUCACGCAGGUGCCGCCAACGCCCCACUUGGUGCCCAGAGUGGGCGUGGGCUUAACGUAAUCCAGACAGGCCACA
........((((((..((....))......(((.((((((((((((((((...((.((.(((((........)))))))))...)))))))))))))....))).)))...))))))... ( -52.80)
>consensus
AGAAGCGAGGCCUGGUGCAUCAGCUUCUUGGGAAUGCAGCCCACGUUCACGCAGGUGCCGCCAACGCCCCACUUGGUGCCCAGAGUGGGCGUGGGCUUAACGUAAUCCAGACAGGCCACA
........((((((..((....))......(((.((((((((((((((((...((.((.(((((........)))))))))...)))))))))))))....))).)))...))))))... (-51.30 = -51.63 +   0.33)

alignment

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secondary structure

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dotplot

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Window 6

Location 8,091,454 – 8,091,574
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 97.50
Mean single sequence MFE -57.83
Consensus MFE -53.53
Energy contribution -55.37
Covariance contribution 1.84
Combinations/Pair 1.05
Mean z-score -1.73
Structure conservation index 0.93
SVM decision value 0.14
SVM RNA-class probability 0.604635
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8091454 120 + 22224390
GGCACCAAGUGGGGCGUUGGCGGCACCUGCGUGAACGUGGGCUGCAUUCCCAAGAAGCUGAUGCACCAGGCCUCCCUUCUGGGCGAGGCUGUCCAUGAGGCGGCCGCCUACGGCUGGAAC
....(((.(((((((((..((.(((((..((....))..)).))).(((....)))))..))))....((((..((((.((((((....)))))).)))).)))).)))))...)))... ( -55.80)
>DroSim_CAF1 139 120 + 1
GGCACCAAGUGGGGCGUUGGCGGCACCUGCGUGAACGUGGGCUGCAUUCCCAAGAAGCUGAUGCACCAGGCCUCGCUUCUGGGCGAGGCUGUCCAUGAGGCAGCUGCCUACGGCUGGAAC
....((..(((((((((..((.(((((..((....))..)).))).(((....)))))..))))....(((((((((....))))))))).)))))..))((((((....)))))).... ( -57.10)
>DroYak_CAF1 159 120 + 1
GGCACCAAGUGGGGCGUUGGCGGCACCUGCGUGAACGUGGGCUGCAUUCCCAAGAAGCUGAUGCACCAGGCCUCGCUCCUGGGCGAGGCUGUCCAUGAGGCUGCCGCCUACGGCUGGAAC
((((((..(((((((((..((.(((((..((....))..)).))).(((....)))))..))))....(((((((((....))))))))).)))))..)).))))(((...)))...... ( -60.60)
>consensus
GGCACCAAGUGGGGCGUUGGCGGCACCUGCGUGAACGUGGGCUGCAUUCCCAAGAAGCUGAUGCACCAGGCCUCGCUUCUGGGCGAGGCUGUCCAUGAGGCAGCCGCCUACGGCUGGAAC
....((..(((((((((..((.(((((..((....))..)).))).(((....)))))..))))....(((((((((....))))))))).)))))..))((((((....)))))).... (-53.53 = -55.37 +   1.84)

alignment

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secondary structure

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dotplot

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Window 7

Location 8,091,494 – 8,091,614
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 95.83
Mean single sequence MFE -50.50
Consensus MFE -48.36
Energy contribution -49.03
Covariance contribution 0.67
Combinations/Pair 1.05
Mean z-score -2.00
Structure conservation index 0.96
SVM decision value 0.87
SVM RNA-class probability 0.869888
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8091494 120 + 22224390
GCUGCAUUCCCAAGAAGCUGAUGCACCAGGCCUCCCUUCUGGGCGAGGCUGUCCAUGAGGCGGCCGCCUACGGCUGGAACGUGGACGAAAAGAUCAAGCCAGACUGGCACAAGCUGGUGC
...((.(((....)))))....((((((((((((((.....)).)))))((((((((...((((((....))))))...))))))))..........(((.....))).....))))))) ( -50.20)
>DroSim_CAF1 179 120 + 1
GCUGCAUUCCCAAGAAGCUGAUGCACCAGGCCUCGCUUCUGGGCGAGGCUGUCCAUGAGGCAGCUGCCUACGGCUGGAACGUGGACGACAAGAUCAAGCCAGACUGGCACAAGCUGGUGC
...((.(((....)))))....(((((((((((((((....))))))))((((((((...((((((....))))))...))))))))..........(((.....))).....))))))) ( -52.60)
>DroYak_CAF1 199 120 + 1
GCUGCAUUCCCAAGAAGCUGAUGCACCAGGCCUCGCUCCUGGGCGAGGCUGUCCAUGAGGCUGCCGCCUACGGCUGGAACGUGGACGACAAGAUCAAGCCAGACUGGAACAAACUGGUGC
...((.(((....)))))....(((((((((((((((....))))))))((((((..((((....))))..((((.((.(.((.....)).).)).))))....))).)))..))))))) ( -48.70)
>consensus
GCUGCAUUCCCAAGAAGCUGAUGCACCAGGCCUCGCUUCUGGGCGAGGCUGUCCAUGAGGCAGCCGCCUACGGCUGGAACGUGGACGACAAGAUCAAGCCAGACUGGCACAAGCUGGUGC
...((.(((....)))))....(((((((((((((((....))))))))((((((((...((((((....))))))...))))))))..........(((.....))).....))))))) (-48.36 = -49.03 +   0.67)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:16 2006