Locus 6144

Sequence ID X_DroMel_CAF1
Location 15,708,820 – 15,709,060
Length 240
Max. P 0.991413
window9993 window9994 window9995 window9996 window9997 window9998

overview

Window 3

Location 15,708,820 – 15,708,940
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 97.22
Mean single sequence MFE -53.23
Consensus MFE -51.59
Energy contribution -50.93
Covariance contribution -0.66
Combinations/Pair 1.09
Mean z-score -1.74
Structure conservation index 0.97
SVM decision value 0.48
SVM RNA-class probability 0.752667
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15708820 120 + 22224390
CGCCCUUAUCACCGAGGGCGACUUUCGAUUCCCGCAUGGCAAUGGCCUGGGAUUGGACAUGGGCGCCGAGGGCGGUGCCUGCGGCCUGGACACGGCCAAUAGCCAUCUGUCCGAAAUGAU
(((((((......)))))))..((((...(((((...(((....))))))))..(((((.((((((((....))))))))..((((.......))))..........))))))))).... ( -52.40)
>DroSec_CAF1 20006 120 + 1
CGCCCUCAUCACCGAGGGCGACUUUCGGUUCCCGCAUGGCAAUGGCCUGGGAUUGGACAUGGGCGCCGAGGGCGGUGCCUGCGGCCUGGACACGGCCAAUAGCCAUCUGUCCGAAAUGAU
(((((((......)))))))..((((((....((.(((((..(((((((.....((.(..((((((((....))))))))..).))....)).)))))...))))).)).)))))).... ( -55.80)
>DroEre_CAF1 19906 120 + 1
AGCCCUCAUCACCGAGGGCGACUUUCGAUUCCCGCAUGGUAAUGGCCUGGGAUUGGACAUGGGCGCCGAGGGCGGUGCCUGCGGUCUGGACACGGCCAAUAGCCAUCUGUCCGAAAUGAU
.((((((......))))))((((((((((.((((...(((....)))))))))))))...((((((((....))))))))..))))((((((.(((.....)))...))))))....... ( -51.50)
>consensus
CGCCCUCAUCACCGAGGGCGACUUUCGAUUCCCGCAUGGCAAUGGCCUGGGAUUGGACAUGGGCGCCGAGGGCGGUGCCUGCGGCCUGGACACGGCCAAUAGCCAUCUGUCCGAAAUGAU
.((((((......))))))...((((...(((((...(((....))))))))..(((((.((((((((....))))))))..((((.......))))..........))))))))).... (-51.59 = -50.93 +  -0.66)

alignment

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secondary structure

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dotplot

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Window 4

Location 15,708,860 – 15,708,980
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 98.89
Mean single sequence MFE -57.37
Consensus MFE -56.87
Energy contribution -56.87
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.54
Structure conservation index 0.99
SVM decision value 0.27
SVM RNA-class probability 0.660543
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15708860 120 + 22224390
AAUGGCCUGGGAUUGGACAUGGGCGCCGAGGGCGGUGCCUGCGGCCUGGACACGGCCAAUAGCCAUCUGUCCGAAAUGAUGCCGGAUGUGGCGAUGGCCACCGCCUCGCUGGGCCAGCUC
..(((((..(((........((((((((....))))))))((((...(....)(((((...(((((..(((((.........))))))))))..))))).)))).)).)..))))).... ( -56.80)
>DroSec_CAF1 20046 120 + 1
AAUGGCCUGGGAUUGGACAUGGGCGCCGAGGGCGGUGCCUGCGGCCUGGACACGGCCAAUAGCCAUCUGUCCGAAAUGAUGCCGGAUGUGGCGAUGGCCACCGCCUCGCUGGGCCAGCUC
..(((((..(((........((((((((....))))))))((((...(....)(((((...(((((..(((((.........))))))))))..))))).)))).)).)..))))).... ( -56.80)
>DroEre_CAF1 19946 120 + 1
AAUGGCCUGGGAUUGGACAUGGGCGCCGAGGGCGGUGCCUGCGGUCUGGACACGGCCAAUAGCCAUCUGUCCGAAAUGAUGCCGGAUGUGGCGAUGGCCACCGCCUCGCUGGGCCAGCUU
..(((((..((((..(((..((((((((....))))))))...)))..)....(((((...(((((..(((((.........))))))))))..)))))......)).)..))))).... ( -58.50)
>consensus
AAUGGCCUGGGAUUGGACAUGGGCGCCGAGGGCGGUGCCUGCGGCCUGGACACGGCCAAUAGCCAUCUGUCCGAAAUGAUGCCGGAUGUGGCGAUGGCCACCGCCUCGCUGGGCCAGCUC
..(((((..(((........((((((((....))))))))((((...(....)(((((...(((((..(((((.........))))))))))..))))).)))).)).)..))))).... (-56.87 = -56.87 +   0.00)

alignment

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secondary structure

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dotplot

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Window 5

Location 15,708,900 – 15,709,020
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 98.89
Mean single sequence MFE -52.53
Consensus MFE -52.75
Energy contribution -52.53
Covariance contribution -0.22
Combinations/Pair 1.02
Mean z-score -2.58
Structure conservation index 1.00
SVM decision value 1.86
SVM RNA-class probability 0.980559
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15708900 120 + 22224390
GCGGCCUGGACACGGCCAAUAGCCAUCUGUCCGAAAUGAUGCCGGAUGUGGCGAUGGCCACCGCCUCGCUGGGCCAGCUCCACUUGACAAAUAAUGGAGCUGGAUGCGCCGGCAACAUUG
......((((((.(((.....)))...)))))).((((.((((((.((((((((.(((....))))))))...(((((((((.(........).)))))))))..))))))))).)))). ( -53.50)
>DroSec_CAF1 20086 120 + 1
GCGGCCUGGACACGGCCAAUAGCCAUCUGUCCGAAAUGAUGCCGGAUGUGGCGAUGGCCACCGCCUCGCUGGGCCAGCUCCACUUGACAAAUAAUGGAGCUGGAUGCGCCGGCAACAUUG
......((((((.(((.....)))...)))))).((((.((((((.((((((((.(((....))))))))...(((((((((.(........).)))))))))..))))))))).)))). ( -53.50)
>DroEre_CAF1 19986 120 + 1
GCGGUCUGGACACGGCCAAUAGCCAUCUGUCCGAAAUGAUGCCGGAUGUGGCGAUGGCCACCGCCUCGCUGGGCCAGCUUCACUUGACAAAUAAUGGAGCUGGAUGCGCCGGCAACAUUG
......((((((.(((.....)))...)))))).((((.((((((.((((((((.(((....))))))))...(((((((((.(........).)))))))))..))))))))).)))). ( -50.60)
>consensus
GCGGCCUGGACACGGCCAAUAGCCAUCUGUCCGAAAUGAUGCCGGAUGUGGCGAUGGCCACCGCCUCGCUGGGCCAGCUCCACUUGACAAAUAAUGGAGCUGGAUGCGCCGGCAACAUUG
......((((((.(((.....)))...)))))).((((.((((((.((((((((.(((....))))))))...(((((((((.(........).)))))))))..))))))))).)))). (-52.75 = -52.53 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 6

Location 15,708,900 – 15,709,020
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 98.89
Mean single sequence MFE -54.93
Consensus MFE -54.97
Energy contribution -55.30
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -3.16
Structure conservation index 1.00
SVM decision value 2.27
SVM RNA-class probability 0.991413
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15708900 120 - 22224390
CAAUGUUGCCGGCGCAUCCAGCUCCAUUAUUUGUCAAGUGGAGCUGGCCCAGCGAGGCGGUGGCCAUCGCCACAUCCGGCAUCAUUUCGGACAGAUGGCUAUUGGCCGUGUCCAGGCCGC
.((((.(((((((((..(((((((((((........)))))))))))....))).((((((....))))))....)))))).))))..(((((..((((.....)))))))))....... ( -57.20)
>DroSec_CAF1 20086 120 - 1
CAAUGUUGCCGGCGCAUCCAGCUCCAUUAUUUGUCAAGUGGAGCUGGCCCAGCGAGGCGGUGGCCAUCGCCACAUCCGGCAUCAUUUCGGACAGAUGGCUAUUGGCCGUGUCCAGGCCGC
.((((.(((((((((..(((((((((((........)))))))))))....))).((((((....))))))....)))))).))))..(((((..((((.....)))))))))....... ( -57.20)
>DroEre_CAF1 19986 120 - 1
CAAUGUUGCCGGCGCAUCCAGCUCCAUUAUUUGUCAAGUGAAGCUGGCCCAGCGAGGCGGUGGCCAUCGCCACAUCCGGCAUCAUUUCGGACAGAUGGCUAUUGGCCGUGUCCAGACCGC
.((((.(((((((((..((((((.((((........)))).))))))....))).((((((....))))))....)))))).))))..(((((..((((.....)))))))))....... ( -50.40)
>consensus
CAAUGUUGCCGGCGCAUCCAGCUCCAUUAUUUGUCAAGUGGAGCUGGCCCAGCGAGGCGGUGGCCAUCGCCACAUCCGGCAUCAUUUCGGACAGAUGGCUAUUGGCCGUGUCCAGGCCGC
.((((.(((((((((..(((((((((((........)))))))))))....))).((((((....))))))....)))))).))))..(((((..((((.....)))))))))....... (-54.97 = -55.30 +   0.33)

alignment

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secondary structure

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dotplot

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Window 7

Location 15,708,940 – 15,709,060
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 98.33
Mean single sequence MFE -54.47
Consensus MFE -52.81
Energy contribution -52.70
Covariance contribution -0.11
Combinations/Pair 1.06
Mean z-score -2.72
Structure conservation index 0.97
SVM decision value 1.75
SVM RNA-class probability 0.975313
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15708940 120 + 22224390
GCCGGAUGUGGCGAUGGCCACCGCCUCGCUGGGCCAGCUCCACUUGACAAAUAAUGGAGCUGGAUGCGCCGGCAACAUUGGCGGGCGCGCAGUGAGCAGCAAUAACGACAUGUCCGAGAG
..((((((((((....))))).(((((((((..(((((((((.(........).)))))))))..(((((.((.......)).))))).)))))))..))...........))))).... ( -56.70)
>DroSec_CAF1 20126 120 + 1
GCCGGAUGUGGCGAUGGCCACCGCCUCGCUGGGCCAGCUCCACUUGACAAAUAAUGGAGCUGGAUGCGCCGGCAACAUUGGCGGGCGCGCAGUGAGCAGCAAUAACGACAUGUCCGAGAG
..((((((((((....))))).(((((((((..(((((((((.(........).)))))))))..(((((.((.......)).))))).)))))))..))...........))))).... ( -56.70)
>DroEre_CAF1 20026 120 + 1
GCCGGAUGUGGCGAUGGCCACCGCCUCGCUGGGCCAGCUUCACUUGACAAAUAAUGGAGCUGGAUGCGCCGGCAACAUUGGCGGACGCGCAGUGAGCAGUAAUAACGACAUGUCCGAGAG
..((((((((((....))))).((.((((((..(((((((((.(........).)))))))))..((((((.((....)).))).))).))))))))..............))))).... ( -50.00)
>consensus
GCCGGAUGUGGCGAUGGCCACCGCCUCGCUGGGCCAGCUCCACUUGACAAAUAAUGGAGCUGGAUGCGCCGGCAACAUUGGCGGGCGCGCAGUGAGCAGCAAUAACGACAUGUCCGAGAG
..((((((((((....))))).(((((((((..(((((((((.(........).)))))))))..(((((.((.......)).))))).)))))))..))...........))))).... (-52.81 = -52.70 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 8

Location 15,708,940 – 15,709,060
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 98.33
Mean single sequence MFE -50.00
Consensus MFE -49.15
Energy contribution -49.60
Covariance contribution 0.45
Combinations/Pair 1.03
Mean z-score -2.25
Structure conservation index 0.98
SVM decision value 1.32
SVM RNA-class probability 0.942067
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15708940 120 - 22224390
CUCUCGGACAUGUCGUUAUUGCUGCUCACUGCGCGCCCGCCAAUGUUGCCGGCGCAUCCAGCUCCAUUAUUUGUCAAGUGGAGCUGGCCCAGCGAGGCGGUGGCCAUCGCCACAUCCGGC
...(((((.....((((.((((((........(((((.((.......)).)))))..(((((((((((........)))))))))))..))))))))))(((((....))))).))))). ( -54.00)
>DroSec_CAF1 20126 120 - 1
CUCUCGGACAUGUCGUUAUUGCUGCUCACUGCGCGCCCGCCAAUGUUGCCGGCGCAUCCAGCUCCAUUAUUUGUCAAGUGGAGCUGGCCCAGCGAGGCGGUGGCCAUCGCCACAUCCGGC
...(((((.....((((.((((((........(((((.((.......)).)))))..(((((((((((........)))))))))))..))))))))))(((((....))))).))))). ( -54.00)
>DroEre_CAF1 20026 120 - 1
CUCUCGGACAUGUCGUUAUUACUGCUCACUGCGCGUCCGCCAAUGUUGCCGGCGCAUCCAGCUCCAUUAUUUGUCAAGUGAAGCUGGCCCAGCGAGGCGGUGGCCAUCGCCACAUCCGGC
.....((((.....((....)).((.....))..))))(((.....((((..(((..((((((.((((........)))).))))))....))).))))(((((....)))))....))) ( -42.00)
>consensus
CUCUCGGACAUGUCGUUAUUGCUGCUCACUGCGCGCCCGCCAAUGUUGCCGGCGCAUCCAGCUCCAUUAUUUGUCAAGUGGAGCUGGCCCAGCGAGGCGGUGGCCAUCGCCACAUCCGGC
...(((((.....((((.((((((........(((((.((.......)).)))))..(((((((((((........)))))))))))..))))))))))(((((....))))).))))). (-49.15 = -49.60 +   0.45)

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 12:05:29 2006