Locus 5986

Sequence ID 3R_DroMel_CAF1
Location 15,773,151 – 15,773,311
Length 160
Max. P 0.865927
window9775 window9776 window9777

overview

Window 5

Location 15,773,151 – 15,773,271
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.11
Mean single sequence MFE -47.00
Consensus MFE -44.93
Energy contribution -45.93
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.00
Structure conservation index 0.96
SVM decision value 0.85
SVM RNA-class probability 0.865927
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15773151 120 + 27905053
AAUGAAGCGAGUCGUGCAGCAAGCCGUGCAACGAGGCGUAUGAGUGUUGACUGCCGCCCAAGCAGGAUAAAUUGUGGGCGACGGGGUGGAGCUGAGCUGUUCGCUUGGCUUAUUAUGCUA
....(((((((..((.((((..(((......(((.((......)).))).(((.(((((..((((......))))))))).))))))...)))).))..)))))))(((.......))). ( -42.40)
>DroSim_CAF1 30374 120 + 1
AAUGAAGCGAGUCGUGCAGCAAGCCGUGCAACGAGGCGUAUGAGUGUUGACUGCCGCCCAAGCAGGAUAAGUUGUGGGCGGCGGGGUGGAGCUGAGCUGUUCGCUUGGCUUAUUAUGCUA
....(((((((..((.((((..(((......(((.((......)).))).(((((((((((((.......))).)))))))))))))...)))).))..)))))))(((.......))). ( -50.00)
>DroEre_CAF1 32808 119 + 1
AAUGAAGCGAGUCGUGCAGCAAGCCGUGCAACGAGGCGUAUGAGUGUUGACUGCCGCCCGAGCAGGAUGAAUUG-GGGCGGCGGGGUGGAGCUGGGCUGUGCGCUUGGCUUAUUAUGCUA
....(((((((.((..((((.(((..(((..(((.((......)).))).(((((((((.((.........)).-))))))))).)))..)))..))))..))))).))))......... ( -48.60)
>consensus
AAUGAAGCGAGUCGUGCAGCAAGCCGUGCAACGAGGCGUAUGAGUGUUGACUGCCGCCCAAGCAGGAUAAAUUGUGGGCGGCGGGGUGGAGCUGAGCUGUUCGCUUGGCUUAUUAUGCUA
....(((((((..((.((((..(((......(((.((......)).))).(((((((((..((((......))))))))))))))))...)))).))..)))))))(((.......))). (-44.93 = -45.93 +   1.00)

alignment

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secondary structure

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dotplot

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Window 6

Location 15,773,151 – 15,773,271
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.11
Mean single sequence MFE -32.51
Consensus MFE -31.91
Energy contribution -32.02
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -1.51
Structure conservation index 0.98
SVM decision value 0.21
SVM RNA-class probability 0.636989
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15773151 120 - 27905053
UAGCAUAAUAAGCCAAGCGAACAGCUCAGCUCCACCCCGUCGCCCACAAUUUAUCCUGCUUGGGCGGCAGUCAACACUCAUACGCCUCGUUGCACGGCUUGCUGCACGACUCGCUUCAUU
..............((((((...(..((((.((.....((((((((((........))..)))))))).((((((.............)))).))))...))))..)...)))))).... ( -31.62)
>DroSim_CAF1 30374 120 - 1
UAGCAUAAUAAGCCAAGCGAACAGCUCAGCUCCACCCCGCCGCCCACAACUUAUCCUGCUUGGGCGGCAGUCAACACUCAUACGCCUCGUUGCACGGCUUGCUGCACGACUCGCUUCAUU
..............((((((...(..((((.((.....((((((((((........))..)))))))).((((((.............)))).))))...))))..)...)))))).... ( -34.32)
>DroEre_CAF1 32808 119 - 1
UAGCAUAAUAAGCCAAGCGCACAGCCCAGCUCCACCCCGCCGCCC-CAAUUCAUCCUGCUCGGGCGGCAGUCAACACUCAUACGCCUCGUUGCACGGCUUGCUGCACGACUCGCUUCAUU
.........((((....((..((((..((((.......(((((((-...............))))))).((((((.............)))).)))))).))))..))....)))).... ( -31.58)
>consensus
UAGCAUAAUAAGCCAAGCGAACAGCUCAGCUCCACCCCGCCGCCCACAAUUUAUCCUGCUUGGGCGGCAGUCAACACUCAUACGCCUCGUUGCACGGCUUGCUGCACGACUCGCUUCAUU
.........((((....((..((((..((((.......((((((((((........))..)))))))).((((((.............)))).)))))).))))..))....)))).... (-31.91 = -32.02 +   0.11)

alignment

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secondary structure

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dotplot

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Window 7

Location 15,773,191 – 15,773,311
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 94.44
Mean single sequence MFE -45.27
Consensus MFE -43.09
Energy contribution -43.53
Covariance contribution 0.45
Combinations/Pair 1.03
Mean z-score -1.76
Structure conservation index 0.95
SVM decision value 0.49
SVM RNA-class probability 0.757762
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15773191 120 + 27905053
UGAGUGUUGACUGCCGCCCAAGCAGGAUAAAUUGUGGGCGACGGGGUGGAGCUGAGCUGUUCGCUUGGCUUAUUAUGCUAUUGCAUGCAAGGCCGCACCAAAUCAUGACGAAUGACAAUC
((.((((...(((.(((((..((((......))))))))).)))(((.((((..(((.....)))..))))..(((((....)))))....)))))))))..((((.....))))..... ( -40.30)
>DroSim_CAF1 30414 120 + 1
UGAGUGUUGACUGCCGCCCAAGCAGGAUAAGUUGUGGGCGGCGGGGUGGAGCUGAGCUGUUCGCUUGGCUUAUUAUGCUAUUGCAUGCAAGGCCGCACCAAAUCAUGACGAAUGACAAUC
((.((((...(((((((((((((.......))).))))))))))(((.((((..(((.....)))..))))..(((((....)))))....)))))))))..((((.....))))..... ( -47.90)
>DroEre_CAF1 32848 119 + 1
UGAGUGUUGACUGCCGCCCGAGCAGGAUGAAUUG-GGGCGGCGGGGUGGAGCUGGGCUGUGCGCUUGGCUUAUUAUGCUACUGCAUGCAAGGCCGCACCGAAUCAGGACGAAUGACAAUC
...((.(((((((((((((.((.........)).-)))))))))((((((((..(((.....)))..))))..(((((....)))))........))))...)))).))........... ( -47.60)
>consensus
UGAGUGUUGACUGCCGCCCAAGCAGGAUAAAUUGUGGGCGGCGGGGUGGAGCUGAGCUGUUCGCUUGGCUUAUUAUGCUAUUGCAUGCAAGGCCGCACCAAAUCAUGACGAAUGACAAUC
...((..((((((((((((..((((......)))))))))))))((((((((..(((.....)))..))))..(((((....)))))........))))...)))..))........... (-43.09 = -43.53 +   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 12:09:52 2006