Locus 8563

Sequence ID X_DroMel_CAF1
Location 21,204,106 – 21,204,358
Length 252
Max. P 0.999443
window14085 window14086 window14087 window14088

overview

Window 5

Location 21,204,106 – 21,204,209
Length 103
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 76.90
Mean single sequence MFE -26.23
Consensus MFE -18.08
Energy contribution -18.87
Covariance contribution 0.78
Combinations/Pair 1.14
Mean z-score -1.44
Structure conservation index 0.69
SVM decision value 0.22
SVM RNA-class probability 0.640976
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21204106 103 - 22224390
CAUAACUGCACCAGAGAACCCACCGACACUGUCCCAGAUCUUGGUGUCUUAUUCGAUCAUAGGAUCUGGAUCAAUGUAGAGCGAUCCAUAAGUAAUCCACCAA-----------------
.....(((((..............(((...)))((((((((((..(((......)))..)))))))))).....)))))........................----------------- ( -21.10)
>DroSec_CAF1 7790 116 - 1
----UCUGCACUAGAAUCCCCCCGGAUAAAGUCCCAGAUCUUGGUGUCCUAUUCGACCAUAGGAUCUGGAUCAAUGUAGAGCGAUCCAUAAGUAAACCUUCAAUCUUAUACGUUGCCUUA
----((((((.....((((....))))...(..((((((((((..(((......)))..))))))))))..)..))))))(((((..(((((............)))))..))))).... ( -31.70)
>DroSim_CAF1 4459 115 - 1
----UCUGCACUAGAAUCCCUCCGGAUAAUGUCCCAGAUCUUUGUGUCUUAUUCCACCAUAGGAUCUGGAUCAAGGUGGAGCGAUCCAUAAGUAAACCUUCAAUC-UAUACGUUGCCUUA
----...((((((((((((....))))..((..(((((((((.(((........)))...)))))))))..))..(((((....)))))..............))-))...).))).... ( -25.90)
>consensus
____UCUGCACUAGAAUCCCCCCGGAUAAUGUCCCAGAUCUUGGUGUCUUAUUCGACCAUAGGAUCUGGAUCAAUGUAGAGCGAUCCAUAAGUAAACCUUCAAUC_UAUACGUUGCCUUA
.....((((......((((....))))...(..((((((((((..(((......)))..))))))))))..)...))))......................................... (-18.08 = -18.87 +   0.78)

alignment

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secondary structure

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dotplot

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Window 6

Location 21,204,209 – 21,204,318
Length 109
Sequences 3
Columns 110
Reading direction forward
Mean pairwise identity 79.08
Mean single sequence MFE -31.83
Consensus MFE -26.39
Energy contribution -26.83
Covariance contribution 0.45
Combinations/Pair 1.04
Mean z-score -3.52
Structure conservation index 0.83
SVM decision value 3.61
SVM RNA-class probability 0.999443
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21204209 109 + 22224390
UGCUAAUACGUCGCGAGCCUGAUCUAAUCAGUAUUAAGCAGUAGCUUCUUGGCUU-GGCAUCAGGAACGAUGGUUAUUGAAGUCGAGCUGGAGCUGCUUGUAGAAAUUAA
((((((((((.(....).)((((...))))))))).))))((((((((..(((((-(((.((((.(((....))).)))).))))))))))))))))............. ( -35.90)
>DroSec_CAF1 7906 86 + 1
------------------------UAAUCAGUAUUAAGCAGUAGCUUCUUGGCUUUGCCAUCAGUAUCGAUGGUUAUUGAAGUCAAGCUGGGGCUGCUUGUAGAAAUUAU
------------------------..........((((((((..(..(((((((((((((((......))))))....)))))))))..)..)))))))).......... ( -29.70)
>DroSim_CAF1 4574 86 + 1
------------------------UAAUCAGUAUUAAGCAGUAGCUUCUUGGCUUUGCCAUCAGUAUCGAUGGUUAUUGAAGUCAAGCUGGGGCUGCUUGCAGAAAUUAU
------------------------.............(((((((((((((((((((((((((......))))))....)))))))))...))))))).)))......... ( -29.90)
>consensus
________________________UAAUCAGUAUUAAGCAGUAGCUUCUUGGCUUUGCCAUCAGUAUCGAUGGUUAUUGAAGUCAAGCUGGGGCUGCUUGUAGAAAUUAU
..................................((((((((..(..(((((((((((((((......))))))....)))))))))..)..)))))))).......... (-26.39 = -26.83 +   0.45)

alignment

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secondary structure

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dotplot

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Window 7

Location 21,204,209 – 21,204,318
Length 109
Sequences 3
Columns 110
Reading direction reverse
Mean pairwise identity 79.08
Mean single sequence MFE -17.70
Consensus MFE -14.83
Energy contribution -15.50
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.15
Structure conservation index 0.84
SVM decision value 0.28
SVM RNA-class probability 0.664542
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21204209 109 - 22224390
UUAAUUUCUACAAGCAGCUCCAGCUCGACUUCAAUAACCAUCGUUCCUGAUGCC-AAGCCAAGAAGCUACUGCUUAAUACUGAUUAGAUCAGGCUCGCGACGUAUUAGCA
.............(((((....))).......((((....((((.((((((...-.((.....((((....))))....))......))))))...))))..)))).)). ( -18.10)
>DroSec_CAF1 7906 86 - 1
AUAAUUUCUACAAGCAGCCCCAGCUUGACUUCAAUAACCAUCGAUACUGAUGGCAAAGCCAAGAAGCUACUGCUUAAUACUGAUUA------------------------
.(((((.....((((((......((((.(((......((((((....))))))..))).))))......))))))......)))))------------------------ ( -17.50)
>DroSim_CAF1 4574 86 - 1
AUAAUUUCUGCAAGCAGCCCCAGCUUGACUUCAAUAACCAUCGAUACUGAUGGCAAAGCCAAGAAGCUACUGCUUAAUACUGAUUA------------------------
.(((((.....((((((......((((.(((......((((((....))))))..))).))))......))))))......)))))------------------------ ( -17.50)
>consensus
AUAAUUUCUACAAGCAGCCCCAGCUUGACUUCAAUAACCAUCGAUACUGAUGGCAAAGCCAAGAAGCUACUGCUUAAUACUGAUUA________________________
.(((((.....((((((......((((.(((......((((((....))))))..))).))))......))))))......)))))........................ (-14.83 = -15.50 +   0.67)

alignment

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secondary structure

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dotplot

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Window 8

Location 21,204,239 – 21,204,358
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 92.18
Mean single sequence MFE -37.83
Consensus MFE -32.62
Energy contribution -33.40
Covariance contribution 0.78
Combinations/Pair 1.03
Mean z-score -2.80
Structure conservation index 0.86
SVM decision value 1.17
SVM RNA-class probability 0.925386
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21204239 119 + 22224390
GUAUUAAGCAGUAGCUUCUUGGCUU-GGCAUCAGGAACGAUGGUUAUUGAAGUCGAGCUGGAGCUGCUUGUAGAAAUUAAGCGAGUCUAAGUGCAUACACAACUUAACUCACUCACUUGA
.......(((((((((((..(((((-(((.((((.(((....))).)))).)))))))))))))))).))).....(((((.((((.(((((.........)))))....)))).))))) ( -38.70)
>DroSec_CAF1 7912 118 + 1
GUAUUAAGCAGUAGCUUCUUGGCUUUGCCAUCAGUAUCGAUGGUUAUUGAAGUCAAGCUGGGGCUGCUUGUAGAAAUUAUGCGAGUCUAAGUGCAA--GUAACUUAACUCACUCACUUGA
((((((((((((..(..(((((((((((((((......))))))....)))))))))..)..))))))))........))))((((.(((((....--...))))))))).......... ( -37.80)
>DroSim_CAF1 4580 118 + 1
GUAUUAAGCAGUAGCUUCUUGGCUUUGCCAUCAGUAUCGAUGGUUAUUGAAGUCAAGCUGGGGCUGCUUGCAGAAAUUAUGCGAGUCAAAGUGCAA--GUAACUUAACUCACUCACUUGA
.....(((((((..(..(((((((((((((((......))))))....)))))))))..)..)))))))(((.......)))((((..((((....--...)))).)))).......... ( -37.00)
>consensus
GUAUUAAGCAGUAGCUUCUUGGCUUUGCCAUCAGUAUCGAUGGUUAUUGAAGUCAAGCUGGGGCUGCUUGUAGAAAUUAUGCGAGUCUAAGUGCAA__GUAACUUAACUCACUCACUUGA
....((((((((..(..(((((((((((((((......))))))....)))))))))..)..))))))))............((((.(((((.........))))))))).......... (-32.62 = -33.40 +   0.78)

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 13:07:21 2006