Locus 6138

Sequence ID X_DroMel_CAF1
Location 15,702,856 – 15,703,216
Length 360
Max. P 0.965365
window9980 window9981 window9982 window9983 window9984

overview

Window 0

Location 15,702,856 – 15,702,976
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 97.22
Mean single sequence MFE -55.00
Consensus MFE -51.50
Energy contribution -51.83
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.32
Structure conservation index 0.94
SVM decision value 1.07
SVM RNA-class probability 0.910499
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15702856 120 - 22224390
GGAGUGGGCACACGGAAUGCCAUUCCGGUGAGCUUACCGUUGAGGGCGGGGAUAACCUUGCCCACGGCCUUGGCAGCUCCAGUGGAAGCUGGAAUGAUGUUCUGGGCAGCGCCACGUCCA
(((((((((...((((((..((((((((((((((..((((((.((((((((....)))))))).))))...)).)))))........)))))))))..))))))....)).)))).))). ( -56.70)
>DroSec_CAF1 14013 120 - 1
GCAGUGGGCACACGGAAUGCCAUUCCGGUGAGCUUACCAUUGAGGGCGGGGAUAACCUUGCCCACGGCCUUGGCAGCUCCGGUGGAAGCUGGAAUGAUGUUCUGGGCAGCGCCACGUCCA
....(((((...((((((..((((((....(((((.((((((.((((((((....))))))))...((....)).....)))))))))))))))))..))))))(((...)))..))))) ( -54.30)
>DroEre_CAF1 13762 120 - 1
GGAGUGGGCACACGGAAUGCCAUUCCGGUGAGCUUACCGUUGAGGGCGGGAAUAACCUUGCCCACGGCCUUGGCAGCUCCGGUCGAAGCUGGAAUGAUGUUCUGGGCAGCGCCACGUCCA
(((((((((...((((((..((((((((((((((..((((((.(((((((......))))))).))))...)).)))))........)))))))))..))))))....)).)))).))). ( -54.00)
>consensus
GGAGUGGGCACACGGAAUGCCAUUCCGGUGAGCUUACCGUUGAGGGCGGGGAUAACCUUGCCCACGGCCUUGGCAGCUCCGGUGGAAGCUGGAAUGAUGUUCUGGGCAGCGCCACGUCCA
(((((((((...((((((..((((((((((((((.........(((((((......)))))))...((....)))))))........)))))))))..))))))....)).)))).))). (-51.50 = -51.83 +   0.33)

alignment

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secondary structure

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Window 1

Location 15,702,896 – 15,703,016
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 97.78
Mean single sequence MFE -54.50
Consensus MFE -51.17
Energy contribution -51.50
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.82
Structure conservation index 0.94
SVM decision value 1.58
SVM RNA-class probability 0.965365
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15702896 120 - 22224390
CUUGCCCAAGCGCACGGUCAAAUCGACCACGGAAACGUUGGGAGUGGGCACACGGAAUGCCAUUCCGGUGAGCUUACCGUUGAGGGCGGGGAUAACCUUGCCCACGGCCUUGGCAGCUCC
..((((((..(.((.((((.....))))(((....))))).)..))))))...(((.(((((....((((....))))((((.((((((((....)))))))).))))..)))))..))) ( -56.00)
>DroSec_CAF1 14053 120 - 1
CUUGCCCAAGCGCACGGUCAAAUCGACCACGGAAACGUUGGCAGUGGGCACACGGAAUGCCAUUCCGGUGAGCUUACCAUUGAGGGCGGGGAUAACCUUGCCCACGGCCUUGGCAGCUCC
..((((((...((..((((.....))))(((....)))..))..))))))...(((.(((((..((((((....)))).....((((((((....))))))))..))...)))))..))) ( -54.20)
>DroEre_CAF1 13802 120 - 1
CUUGCCCAAGCGCACGGUCAGAUCGACCACGGAAACGUUGGGAGUGGGCACACGGAAUGCCAUUCCGGUGAGCUUACCGUUGAGGGCGGGAAUAACCUUGCCCACGGCCUUGGCAGCUCC
..((((((..(.((.((((.....))))(((....))))).)..))))))...(((.(((((....((((....))))((((.(((((((......))))))).))))..)))))..))) ( -53.30)
>consensus
CUUGCCCAAGCGCACGGUCAAAUCGACCACGGAAACGUUGGGAGUGGGCACACGGAAUGCCAUUCCGGUGAGCUUACCGUUGAGGGCGGGGAUAACCUUGCCCACGGCCUUGGCAGCUCC
..((((((..(.((.((((.....))))(((....))))).)..))))))...(((.(((((..((((((....)))).....(((((((......)))))))..))...)))))..))) (-51.17 = -51.50 +   0.33)

alignment

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secondary structure

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dotplot

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Window 2

Location 15,703,016 – 15,703,136
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.11
Mean single sequence MFE -46.03
Consensus MFE -44.31
Energy contribution -44.20
Covariance contribution -0.11
Combinations/Pair 1.05
Mean z-score -2.14
Structure conservation index 0.96
SVM decision value 1.11
SVM RNA-class probability 0.917352
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15703016 120 + 22224390
GGUGCGUCCUAUGAUGAAAUUAAGGCCAAGGUUCAGGAGGCCGCCAACGGACCCCUGAAGGGUAUCCUGGGAUACACCGAUGAGGAGGUCGUUUCUACCGAUUUCCUCAGCGACACCCAC
((((..(((((.(((.........(((....((((((.(((((....))).)))))))).)))))).)))))..))))(.(((((((((((.......))))))))))).)......... ( -48.10)
>DroSec_CAF1 14173 120 + 1
GGUGCGUCCUAUGAUGAAAUUAAGGCCAAGGUUGAGGAGGCCGCCAACGGACCCCUGAAGGGAAUCCUGGGAUACACCGAUGAGGAGGUCGUGUCCACCGAUUUCCUCAGCGACACCCAC
((((..(((((.(((........(((...((((.....))))))).......(((....))).))).)))))..))))(.(((((((((((.(....)))))))))))).)......... ( -44.20)
>DroEre_CAF1 13922 120 + 1
GGUGCAUCCUAUGAUGAAAUUAAGGCCAAGGUUCAGGAGGCCGCCAACGGACCCCUGAAGGGAAUUUUGGGAUACACCGAUGAGGAGGUCGUGUCCACCGAUUUCCUCAGCGACACCCAC
((((.((((((.(((..........((....((((((.(((((....))).)))))))).)).))).)))))).))))(.(((((((((((.(....)))))))))))).)......... ( -45.80)
>consensus
GGUGCGUCCUAUGAUGAAAUUAAGGCCAAGGUUCAGGAGGCCGCCAACGGACCCCUGAAGGGAAUCCUGGGAUACACCGAUGAGGAGGUCGUGUCCACCGAUUUCCUCAGCGACACCCAC
((((.((((((.(((..........((....((((((.(((((....))).)))))))).)).))).)))))).))))(.(((((((((((.......))))))))))).)......... (-44.31 = -44.20 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 3

Location 15,703,096 – 15,703,216
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 97.78
Mean single sequence MFE -44.50
Consensus MFE -41.70
Energy contribution -41.70
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.14
Structure conservation index 0.94
SVM decision value 0.82
SVM RNA-class probability 0.858785
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15703096 120 + 22224390
UGAGGAGGUCGUUUCUACCGAUUUCCUCAGCGACACCCACUCGUCGGUGUUCGAUGCCAAGGCUGGCAUUUCGCUAAACGACAAGUUCGUGAAGCUGAUCUCUUGGUACGACAACGAGUU
.((((((((((.......))))))))))(((..(((..(((.((((..((..(((((((....)))))))..))....)))).)))..)))..)))...((((((......))).))).. ( -43.00)
>DroSec_CAF1 14253 120 + 1
UGAGGAGGUCGUGUCCACCGAUUUCCUCAGCGACACCCACUCGUCGGUGUUCGAUGCCAAGGCUGGCAUUUCGCUGAACGACAAGUUCGUGAAGCUGAUCUCUUGGUACGACAACGAGUU
(((((((((((.(....)))))))))))).........((((((...(((.((.((((((((....((((((((.((((.....)))))))))).))...))))))))))))))))))). ( -45.70)
>DroEre_CAF1 14002 120 + 1
UGAGGAGGUCGUGUCCACCGAUUUCCUCAGCGACACCCACUCGUCGGUCUUCGAUGCCAAGGCUGGCAUUUCGCUGAACGACAAGUUCGUGAAGCUGAUCUCUUGGUACGACAACGAGUU
.((((((((((.(....)))))))))))(((..(((..(((.((((.((..((((((((....)))))..)))..)).)))).)))..)))..)))...((((((......))).))).. ( -44.80)
>consensus
UGAGGAGGUCGUGUCCACCGAUUUCCUCAGCGACACCCACUCGUCGGUGUUCGAUGCCAAGGCUGGCAUUUCGCUGAACGACAAGUUCGUGAAGCUGAUCUCUUGGUACGACAACGAGUU
.((((((((((.......))))))))))(((..(((..(((.((((.....((((((((....)))))..))).....)))).)))..)))..)))...((((((......))).))).. (-41.70 = -41.70 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 4

Location 15,703,096 – 15,703,216
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 97.78
Mean single sequence MFE -43.98
Consensus MFE -42.47
Energy contribution -42.59
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -2.32
Structure conservation index 0.97
SVM decision value 1.31
SVM RNA-class probability 0.940237
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15703096 120 - 22224390
AACUCGUUGUCGUACCAAGAGAUCAGCUUCACGAACUUGUCGUUUAGCGAAAUGCCAGCCUUGGCAUCGAACACCGACGAGUGGGUGUCGCUGAGGAAAUCGGUAGAAACGACCUCCUCA
..(((.(((......))))))...(((..(((..((((((((.....(((..((((......))))))).....))))))))..)))..)))(((((..(((.......)))..))))). ( -41.80)
>DroSec_CAF1 14253 120 - 1
AACUCGUUGUCGUACCAAGAGAUCAGCUUCACGAACUUGUCGUUCAGCGAAAUGCCAGCCUUGGCAUCGAACACCGACGAGUGGGUGUCGCUGAGGAAAUCGGUGGACACGACCUCCUCA
...((((.(((.((((......(((((..(((..((((((((.....(((..((((......))))))).....))))))))..)))..))))).......)))))))))))........ ( -43.92)
>DroEre_CAF1 14002 120 - 1
AACUCGUUGUCGUACCAAGAGAUCAGCUUCACGAACUUGUCGUUCAGCGAAAUGCCAGCCUUGGCAUCGAAGACCGACGAGUGGGUGUCGCUGAGGAAAUCGGUGGACACGACCUCCUCA
...((((.(((.((((......(((((..(((..((((((((.((..(((..((((......)))))))..)).))))))))..)))..))))).......)))))))))))........ ( -46.22)
>consensus
AACUCGUUGUCGUACCAAGAGAUCAGCUUCACGAACUUGUCGUUCAGCGAAAUGCCAGCCUUGGCAUCGAACACCGACGAGUGGGUGUCGCUGAGGAAAUCGGUGGACACGACCUCCUCA
...((((.(((.((((......(((((..(((..((((((((.....(((..((((......))))))).....))))))))..)))..))))).......)))))))))))........ (-42.47 = -42.59 +   0.11)

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 12:05:16 2006