Locus 7649

Sequence ID X_DroMel_CAF1
Location 19,061,504 – 19,061,714
Length 210
Max. P 0.941393
window12553 window12554 window12555

overview

Window 3

Location 19,061,504 – 19,061,599
Length 95
Sequences 4
Columns 98
Reading direction forward
Mean pairwise identity 82.05
Mean single sequence MFE -21.27
Consensus MFE -14.51
Energy contribution -14.82
Covariance contribution 0.31
Combinations/Pair 1.05
Mean z-score -2.30
Structure conservation index 0.68
SVM decision value 1.32
SVM RNA-class probability 0.941393
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19061504 95 + 22224390
ACAAUACAUAUAUAUAACUUCGCAUUAUUCGCCGGCCAUCUGAGAUAGCA---UUCGUCUAAUAUUCGACAGACACCUGUCGACCAAUGAAAUUGCAG
.....................(((...((((..((.......((((....---...)))).....(((((((....)))))))))..))))..))).. ( -17.30)
>DroSec_CAF1 13398 84 + 1
-----------AUAUAACUUCGCAUUAUUCGCCGGCCAUCGGAGAUAGCA---UUCGUAUAAUAUUCGACAGACACCUGUCGGCCAAUGAAAUUGCGC
-----------.........((((...((((..((((..((((.......---))))..........(((((....)))))))))..))))..)))). ( -23.20)
>DroSim_CAF1 14844 87 + 1
-----------AUAUAACUUCGCAUUAUUCGCCGGCCAUCGGAGAUAAUAUAUUUCAUAUAAUAUUCGACAGACACCUGUCGACCAAUGAAAUUGCGC
-----------.........(((((((((..(((.....))).))))))..(((((((.......(((((((....)))))))...))))))).))). ( -20.40)
>DroEre_CAF1 13740 77 + 1
------------------UUCGCAUUAUUCGCUGGCUAUCUGAGAUAGCA---UUCGUAUAAUAUUCGACAGACACCUGUCGACCAAUGAAAUCGCGG
------------------..((((((((.((...((((((...)))))).---..)).)))))..(((((((....)))))))...........))). ( -24.20)
>consensus
___________AUAUAACUUCGCAUUAUUCGCCGGCCAUCGGAGAUAGCA___UUCGUAUAAUAUUCGACAGACACCUGUCGACCAAUGAAAUUGCGC
....................((((...((((..((........((.........)).........(((((((....)))))))))..))))..)))). (-14.51 = -14.82 +   0.31)

alignment

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secondary structure

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dotplot

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Window 4

Location 19,061,504 – 19,061,599
Length 95
Sequences 4
Columns 98
Reading direction reverse
Mean pairwise identity 82.05
Mean single sequence MFE -23.43
Consensus MFE -19.96
Energy contribution -19.27
Covariance contribution -0.69
Combinations/Pair 1.22
Mean z-score -1.70
Structure conservation index 0.85
SVM decision value 0.65
SVM RNA-class probability 0.810489
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19061504 95 - 22224390
CUGCAAUUUCAUUGGUCGACAGGUGUCUGUCGAAUAUUAGACGAA---UGCUAUCUCAGAUGGCCGGCGAAUAAUGCGAAGUUAUAUAUAUGUAUUGU
....((((((.....(((((((....))))))).(((((..((..---.((((((...))))))...))..))))).))))))............... ( -23.30)
>DroSec_CAF1 13398 84 - 1
GCGCAAUUUCAUUGGCCGACAGGUGUCUGUCGAAUAUUAUACGAA---UGCUAUCUCCGAUGGCCGGCGAAUAAUGCGAAGUUAUAU-----------
.((((..(((.(((((((((((....)))))..........((..---.........))..)))))).)))...)))).........----------- ( -22.70)
>DroSim_CAF1 14844 87 - 1
GCGCAAUUUCAUUGGUCGACAGGUGUCUGUCGAAUAUUAUAUGAAAUAUAUUAUCUCCGAUGGCCGGCGAAUAAUGCGAAGUUAUAU-----------
.(((((((((((...(((((((....))))))).......)))))))......((.(((.....))).))....)))).........----------- ( -23.90)
>DroEre_CAF1 13740 77 - 1
CCGCGAUUUCAUUGGUCGACAGGUGUCUGUCGAAUAUUAUACGAA---UGCUAUCUCAGAUAGCCAGCGAAUAAUGCGAA------------------
.(((...........(((((((....)))))))..(((((.((..---.((((((...))))))...)).))))))))..------------------ ( -23.80)
>consensus
CCGCAAUUUCAUUGGUCGACAGGUGUCUGUCGAAUAUUAUACGAA___UGCUAUCUCAGAUGGCCGGCGAAUAAUGCGAAGUUAUAU___________
.((((..(((.(((((((((((....))))))).................(((((...))))))))).)))...)))).................... (-19.96 = -19.27 +  -0.69)

alignment

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secondary structure

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dotplot

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Window 5

Location 19,061,599 – 19,061,714
Length 115
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 93.13
Mean single sequence MFE -28.08
Consensus MFE -23.58
Energy contribution -23.66
Covariance contribution 0.08
Combinations/Pair 1.13
Mean z-score -1.57
Structure conservation index 0.84
SVM decision value 0.83
SVM RNA-class probability 0.860294
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19061599 115 + 22224390
ACAGACUAAAGGCGAGAUAAGUCGAUCAUCGAUAAAAGUCACUUCGAAAGUAUUCGUAAUUAUAAUUUGAGUUGUAAGUGGCCCACGGUGGAAGACCAUAAAGGCCUGAGGUCGA
...((((..((((.......(((..((((((......(((((..((((....))))...(((((((....))))))))))))...))))))..))).......))))..)))).. ( -30.14)
>DroSec_CAF1 13482 115 + 1
ACAGACUAAAGGCGAGAUAAAUCGAUCAUCGAUAAAAGUCACUUCGAAAGUAUGCGUAAAUAUAAUUUGAGUUGUAAGUGGCCCACGGUGGAAGACCAUAAAGGCCUGAGGUCGA
...((((..((((..(((..((((.....))))....))).((((.(..((..((.((..((((((....))))))..))))..))..).)))).........))))..)))).. ( -27.00)
>DroSim_CAF1 14931 115 + 1
ACAGACUGAAGGCGAGAUAAAUCGAUCAUCGAUAAAAGUCACUUCGAAAGUAUGCGUAAAUAUAAUUUGAGUUGUAAGUGGCCCACGGUGGAAGACUAUAAAGGCCUGAGGUCGA
...((((..((((..(((..((((.....))))....))).((((.(..((..((.((..((((((....))))))..))))..))..).)))).........))))..)))).. ( -28.00)
>DroEre_CAF1 13817 115 + 1
ACAGACUGAAGGCGAGAUAAGUCGAUCAUCGAUAAAAGUCACUUUGAAAGUAUUCGUAAUUAUAAUUUGAGUUGUAAAUGCCACACGGUGGAAGACCAUAAAAGCCUAAGGUCGA
...((((..((((.......(((..((((((.......((.....))..(((((..(((((........)))))..)))))....))))))..))).......))))..)))).. ( -28.04)
>DroYak_CAF1 14945 115 + 1
ACAGACUGAAGGCGAGAUAAGGCGAUCAUCGAUAAAAGUCACUUCGAAAGUAUUCGUAAUUAUAAUUUGAGUUAUAAGAGGCGCAUGAUGGAAGACCAUAAAGGCCUGAGGUCGU
...((((..((((........(((.((.((((...........))))............(((((((....)))))))))..)))...((((....))))....))))..)))).. ( -27.20)
>consensus
ACAGACUGAAGGCGAGAUAAGUCGAUCAUCGAUAAAAGUCACUUCGAAAGUAUUCGUAAUUAUAAUUUGAGUUGUAAGUGGCCCACGGUGGAAGACCAUAAAGGCCUGAGGUCGA
...((((..((((..(((..((((.....))))....))).((((.(..((....((..(((((((....)))))))...))..))..).)))).........))))..)))).. (-23.58 = -23.66 +   0.08)

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 12:44:16 2006