Locus 6553

Sequence ID X_DroMel_CAF1
Location 16,400,804 – 16,401,044
Length 240
Max. P 0.895504
window10700 window10701 window10702

overview

Window 0

Location 16,400,804 – 16,400,924
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 97.17
Mean single sequence MFE -53.67
Consensus MFE -48.73
Energy contribution -49.57
Covariance contribution 0.83
Combinations/Pair 1.00
Mean z-score -1.31
Structure conservation index 0.91
SVM decision value 0.69
SVM RNA-class probability 0.824722
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16400804 120 + 22224390
ACGUCGAGAUAGUUGGGCGCCGAGAAGAUGGUGAUCAGCGAGGGGAAGCCGGUGGUCUGGCUUUUGCGGUACAUGCGGUAGCCGGCGUCCUGCGCCUCGUGCGCCCGGAUGAUCGACAGC
..(((((.....((((((((((((..(((....))).(((..((((.(((((....))((((.(((((.....))))).))))))).)))).))))))).))))))))....)))))... ( -56.00)
>DroGri_CAF1 20400 120 + 1
ACGUCCAGAUAAUUGGGCGCCGAGAAGAUGGUGAUCAGCGAGGGAAAACCGGUGGUCUGGCUCUUGCGGUACAUGCGGUAGCCGGCGUCCUGGGCCUCGUGCGCCCGUAUGAUCGACAGC
..(((..(((...(((((((......(((....))).((((((.....((((....((((((.(((((.....))))).))))))....)))).)))))))))))))....))))))... ( -46.30)
>DroSec_CAF1 21717 120 + 1
ACGUCGAGAUAGUUGGGCGCCGAGAAAAUGGUGAUCAGCGAGGGGAAGCCGGUGGUCUGGCUCUUGCGGUACAUGCGGUAGCCGGCGUCCUGCGCCUCGUGCGCCCGGAUGAUCGACAGC
..(((((.....((((((((((((....((.....))(((..((((.(((((....))((((.(((((.....))))).))))))).)))).))))))).))))))))....)))))... ( -53.80)
>DroYak_CAF1 18343 120 + 1
ACGUCGAGAUAGUUGGGCGCCGAGAAGAUGGUGAUCAGCGAGGGGAAGCCGGUGGUCUGGCUCUUGCGGUACAUGCGGUAGCCGGCGUCCUGCGCCUCGUGCGCCCGGAUGAUCGACAGC
..(((((.....((((((((((((..(((....))).(((..((((.(((((....))((((.(((((.....))))).))))))).)))).))))))).))))))))....)))))... ( -56.00)
>DroMoj_CAF1 20078 120 + 1
ACGUCGAGAUAGUUGGGCGCCGAGAAGAUGGUGAUCAGCGAGGGGAAACCGGUGGUCUGGCUCUUGCGGUACAUGCGGUAGCCGGCGUCCUGCGCCUCGUGCGCCCGUAUGAUCGACAGC
..(((((......(((((((((((..(((....))).(((..((....))((..(.((((((.(((((.....))))).)))))))..))..))))))).))))))).....)))))... ( -53.80)
>DroAna_CAF1 19170 120 + 1
ACGUCGAGAUAGUUGGGCGCCGAGAAGAUGGUGAUCAGCGAGGGGAAGCCGGUGGUCUGGCUCUUCCGGUACAUGCGGUAGCCGGCGUCCUGCGCCUCGUGCGCCCGGAUGAUCGACAGC
..(((((.....((((((((((((..(((....))).(((..((((.((((((.((((((.....)))).))........)))))).)))).))))))).))))))))....)))))... ( -56.10)
>consensus
ACGUCGAGAUAGUUGGGCGCCGAGAAGAUGGUGAUCAGCGAGGGGAAGCCGGUGGUCUGGCUCUUGCGGUACAUGCGGUAGCCGGCGUCCUGCGCCUCGUGCGCCCGGAUGAUCGACAGC
..(((((.....(((((((((((.........(((((.((.(......))).))))).((((.(((((.....))))).))))((((.....))))))).))))))))....)))))... (-48.73 = -49.57 +   0.83)

alignment

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secondary structure

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dotplot

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Window 1

Location 16,400,804 – 16,400,924
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 97.17
Mean single sequence MFE -42.85
Consensus MFE -41.07
Energy contribution -41.07
Covariance contribution 0.00
Combinations/Pair 1.09
Mean z-score -1.07
Structure conservation index 0.96
SVM decision value 0.99
SVM RNA-class probability 0.895504
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16400804 120 - 22224390
GCUGUCGAUCAUCCGGGCGCACGAGGCGCAGGACGCCGGCUACCGCAUGUACCGCAAAAGCCAGACCACCGGCUUCCCCUCGCUGAUCACCAUCUUCUCGGCGCCCAACUAUCUCGACGU
...(((((......((((((.(((((((..(((.(((((((...((.......))...)))).(.....)))).)))...))).(((....)))..)))))))))).......))))).. ( -43.62)
>DroGri_CAF1 20400 120 - 1
GCUGUCGAUCAUACGGGCGCACGAGGCCCAGGACGCCGGCUACCGCAUGUACCGCAAGAGCCAGACCACCGGUUUUCCCUCGCUGAUCACCAUCUUCUCGGCGCCCAAUUAUCUGGACGU
...((((((.((..((((((.((((((...(((.(((((((...((.......))...)))).(.....))))..)))...)).(((....)))..)))))))))).)).)))..))).. ( -35.40)
>DroSec_CAF1 21717 120 - 1
GCUGUCGAUCAUCCGGGCGCACGAGGCGCAGGACGCCGGCUACCGCAUGUACCGCAAGAGCCAGACCACCGGCUUCCCCUCGCUGAUCACCAUUUUCUCGGCGCCCAACUAUCUCGACGU
...(((((......((((((.(((((((..(((.(((((((...((.......))...)))).(.....)))).)))...)))((.....))....)))))))))).......))))).. ( -43.72)
>DroYak_CAF1 18343 120 - 1
GCUGUCGAUCAUCCGGGCGCACGAGGCGCAGGACGCCGGCUACCGCAUGUACCGCAAGAGCCAGACCACCGGCUUCCCCUCGCUGAUCACCAUCUUCUCGGCGCCCAACUAUCUCGACGU
...(((((......((((((.(((((((..(((.(((((((...((.......))...)))).(.....)))).)))...))).(((....)))..)))))))))).......))))).. ( -44.72)
>DroMoj_CAF1 20078 120 - 1
GCUGUCGAUCAUACGGGCGCACGAGGCGCAGGACGCCGGCUACCGCAUGUACCGCAAGAGCCAGACCACCGGUUUCCCCUCGCUGAUCACCAUCUUCUCGGCGCCCAACUAUCUCGACGU
...(((((......((((((.(((((((..(((.(((((((...((.......))...)))).(.....)))).)))...))).(((....)))..)))))))))).......))))).. ( -43.22)
>DroAna_CAF1 19170 120 - 1
GCUGUCGAUCAUCCGGGCGCACGAGGCGCAGGACGCCGGCUACCGCAUGUACCGGAAGAGCCAGACCACCGGCUUCCCCUCGCUGAUCACCAUCUUCUCGGCGCCCAACUAUCUCGACGU
...(((((......((((((.(((((((.(((...((((.(((.....)))))))..(((((........)))))..)))))).(((....)))..)))))))))).......))))).. ( -46.42)
>consensus
GCUGUCGAUCAUCCGGGCGCACGAGGCGCAGGACGCCGGCUACCGCAUGUACCGCAAGAGCCAGACCACCGGCUUCCCCUCGCUGAUCACCAUCUUCUCGGCGCCCAACUAUCUCGACGU
...(((((......((((((.(((((((..(((.(((((((...((.......))...)))).(.....)))).)))...))).(((....)))..)))))))))).......))))).. (-41.07 = -41.07 +   0.00)

alignment

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secondary structure

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dotplot

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Window 2

Location 16,400,924 – 16,401,044
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 97.17
Mean single sequence MFE -36.92
Consensus MFE -35.18
Energy contribution -35.23
Covariance contribution 0.06
Combinations/Pair 1.06
Mean z-score -0.97
Structure conservation index 0.95
SVM decision value 0.60
SVM RNA-class probability 0.794028
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16400924 120 - 22224390
UCCGCUGGAGGACUUCGGCAACGAGAAGAACUCGGACUUCUACACGCACAACUCCGUGCGCGGCUGCUCGUACUUCUACAGCUACGCCGCCUGCUGCGACUUCCUGCAGAACAACAACCU
((.((.(((((....(((((.((((.....))))...........((((......))))(((((.(((.(((....))))))...))))).)))))...))))).)).)).......... ( -38.90)
>DroGri_CAF1 20520 120 - 1
UCCGCUCGAGGACUUCGGCAACGAGAAGAACUCGGACUUCUACACGCACAACUCGGUGCGCGGCUGUUCGUAUUUCUACAGCUACGCCGCCUGCUGCGACUUCCUGCAGAACAACAACCU
...(..((((..(((((....)))..))..))))..)........((((......))))(((((.(((.(((....))))))...)))))...(((((......)))))........... ( -35.10)
>DroSec_CAF1 21837 120 - 1
UCCGCUGGAGGACUUCGGCAACGAGAAGAACUCGGACUUCUACACGCACAACUCCGUGCGCGGCUGCUCGUACUUCUACAGCUACGCCGCCUGCUGCGACUUCCUGCAGAACAACAACCU
((.((.(((((....(((((.((((.....))))...........((((......))))(((((.(((.(((....))))))...))))).)))))...))))).)).)).......... ( -38.90)
>DroYak_CAF1 18463 120 - 1
UCCGCUGGAGGACUUCGGCAACGAGAAGAACUCGGACUUCUACACGCACAACUCCGUGCGCGGCUGCUCGUACUUCUACAGCUACGCCGCCUGCUGCGACUUCCUGCAGAACAACAACCU
((.((.(((((....(((((.((((.....))))...........((((......))))(((((.(((.(((....))))))...))))).)))))...))))).)).)).......... ( -38.90)
>DroMoj_CAF1 20198 120 - 1
UCCGCUCGAGGACUUUGGCAACGAGAAGAACUCGGACUUCUACACGCACAACUCGGUGCGCGGCUGUUCGUAUUUCUACAGCUACGCCGCCUGCUGCGACUUCCUGCAGAACAACAAUCU
...(..((((..(((((....)..))))..))))..)........((((......))))(((((.(((.(((....))))))...)))))...(((((......)))))........... ( -33.00)
>DroAna_CAF1 19290 120 - 1
UCCGCUGGAGGACUUUGGCAACGAGAAGAACUCGGACUUCUACACGCACAACUCGGUGCGCGGGUGCUCGUACUUCUACAGCUACGCCGCCUGCUGCGACUUCCUGCAGAACAACAACCU
....(((.((((...(.(((.((((.....))))...........((((......))))(((((((..((((((.....)).)))).)))))))))).)..)))).)))........... ( -36.70)
>consensus
UCCGCUGGAGGACUUCGGCAACGAGAAGAACUCGGACUUCUACACGCACAACUCCGUGCGCGGCUGCUCGUACUUCUACAGCUACGCCGCCUGCUGCGACUUCCUGCAGAACAACAACCU
((.((.(((((....(((((.((((.....))))...........((((......))))(((((.(((.(((....))))))...))))).)))))...))))).)).)).......... (-35.18 = -35.23 +   0.06)

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 12:16:43 2006