Locus 8120

Sequence ID X_DroMel_CAF1
Location 20,190,849 – 20,191,009
Length 160
Max. P 0.997509
window13338 window13339 window13340 window13341

overview

Window 8

Location 20,190,849 – 20,190,969
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 96.17
Mean single sequence MFE -32.47
Consensus MFE -28.88
Energy contribution -29.88
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.62
Structure conservation index 0.89
SVM decision value 2.87
SVM RNA-class probability 0.997509
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20190849 120 + 22224390
UUUGGCGGCUUUGUCGGCCUGUCGACGCACGCGGCACUAUUAAUUAUCAUGUUAAAAUGUAAUUAAUUAAAGAUGUCGUCAACGUGCGUUUGCACAUAACUUUCAAUGAAAAGUUAAUAA
......((((.....))))(((.(((((((((((((((((((((((.(((......)))))))))))...)).)))))....)))))))).)))..(((((((......))))))).... ( -33.80)
>DroSec_CAF1 12471 120 + 1
UUUGGCGGCUUUGUCGGCCUGUCGACGCACGCGGCACUAUUAAUUAUCAUGUUAAAAUGUAAUUAAUUAAAGAUGUCGUCAACGUGCGUUUGCACAUAACUUUCAAUGAAAAGUUAAUAA
......((((.....))))(((.(((((((((((((((((((((((.(((......)))))))))))...)).)))))....)))))))).)))..(((((((......))))))).... ( -33.80)
>DroSim_CAF1 10590 120 + 1
UUUGGCGGCUUUGUCGGCCUGUCGACGCACGCGGCACUAUUAAUUAUCAUGUUAAAAUGUAAUUAAUUAAAGAUGUCGUCAACGUGCGUUUGCACAUAACUUUCAAUGAAAAGUUAAUAA
......((((.....))))(((.(((((((((((((((((((((((.(((......)))))))))))...)).)))))....)))))))).)))..(((((((......))))))).... ( -33.80)
>DroEre_CAF1 10343 120 + 1
UUUGGCGGCUUUGUCGGCCUGUCGAAGCACGCGGCACUAUUAAUUAUCAUGUUAAAAUGUAAUUAAUUAAAGAUGUCGUCAACGUGCGUUUGCACAUAACUUUCAAUGAAAAGUUAAUAA
((((((((((.....)))).))))))((((((((((((((((((((.(((......)))))))))))...)).)))))....))))).........(((((((......))))))).... ( -31.80)
>DroYak_CAF1 10030 120 + 1
UAUGGCGGCUUUGUCGGCCUGUCGACGCACGCGGCACUAUUAAUUAUCAUGUUAAAAUGUAAUUAAUUAAAGAUGUCGUCAACGUGCGUUUGCACAUAACUUUCAAUGAAAAGUUAAUAA
......((((.....))))(((.(((((((((((((((((((((((.(((......)))))))))))...)).)))))....)))))))).)))..(((((((......))))))).... ( -33.80)
>DroAna_CAF1 53971 112 + 1
G--------UUUGUCGGCCUGUCGACGCACGCGGAACUAUUAAUUAUCAUGUUAAAAUGUAAUUAAUUAAAGAUGUCGUCAACGUGCGCUGGCACAUAACUUUCAAUGAAAAGUUAAUAA
.--------..(((((((((((.((((.((((......((((((((.(((......)))))))))))....).))))))).))).).)))))))..(((((((......))))))).... ( -27.80)
>consensus
UUUGGCGGCUUUGUCGGCCUGUCGACGCACGCGGCACUAUUAAUUAUCAUGUUAAAAUGUAAUUAAUUAAAGAUGUCGUCAACGUGCGUUUGCACAUAACUUUCAAUGAAAAGUUAAUAA
......((((.....))))(((.(((((((((((((((((((((((.(((......)))))))))))...)).)))))....)))))))).)))..(((((((......))))))).... (-28.88 = -29.88 +   1.00)

alignment

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secondary structure

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dotplot

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Window 9

Location 20,190,849 – 20,190,969
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 96.17
Mean single sequence MFE -27.41
Consensus MFE -25.20
Energy contribution -25.87
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.91
Structure conservation index 0.92
SVM decision value 2.35
SVM RNA-class probability 0.992764
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20190849 120 - 22224390
UUAUUAACUUUUCAUUGAAAGUUAUGUGCAAACGCACGUUGACGACAUCUUUAAUUAAUUACAUUUUAACAUGAUAAUUAAUAGUGCCGCGUGCGUCGACAGGCCGACAAAGCCGCCAAA
....((((((((....)))))))).((((....))))(((((((.(((.....(((((((((((......))).))))))))........)))))))))).(((.(......).)))... ( -28.82)
>DroSec_CAF1 12471 120 - 1
UUAUUAACUUUUCAUUGAAAGUUAUGUGCAAACGCACGUUGACGACAUCUUUAAUUAAUUACAUUUUAACAUGAUAAUUAAUAGUGCCGCGUGCGUCGACAGGCCGACAAAGCCGCCAAA
....((((((((....)))))))).((((....))))(((((((.(((.....(((((((((((......))).))))))))........)))))))))).(((.(......).)))... ( -28.82)
>DroSim_CAF1 10590 120 - 1
UUAUUAACUUUUCAUUGAAAGUUAUGUGCAAACGCACGUUGACGACAUCUUUAAUUAAUUACAUUUUAACAUGAUAAUUAAUAGUGCCGCGUGCGUCGACAGGCCGACAAAGCCGCCAAA
....((((((((....)))))))).((((....))))(((((((.(((.....(((((((((((......))).))))))))........)))))))))).(((.(......).)))... ( -28.82)
>DroEre_CAF1 10343 120 - 1
UUAUUAACUUUUCAUUGAAAGUUAUGUGCAAACGCACGUUGACGACAUCUUUAAUUAAUUACAUUUUAACAUGAUAAUUAAUAGUGCCGCGUGCUUCGACAGGCCGACAAAGCCGCCAAA
....((((((((....))))))))((.((....((((((.((((....)....(((((((((((......))).)))))))).)).).)))))).......(((.......))))))).. ( -24.40)
>DroYak_CAF1 10030 120 - 1
UUAUUAACUUUUCAUUGAAAGUUAUGUGCAAACGCACGUUGACGACAUCUUUAAUUAAUUACAUUUUAACAUGAUAAUUAAUAGUGCCGCGUGCGUCGACAGGCCGACAAAGCCGCCAUA
....((((((((....)))))))).((((....))))(((((((.(((.....(((((((((((......))).))))))))........)))))))))).(((.(......).)))... ( -28.82)
>DroAna_CAF1 53971 112 - 1
UUAUUAACUUUUCAUUGAAAGUUAUGUGCCAGCGCACGUUGACGACAUCUUUAAUUAAUUACAUUUUAACAUGAUAAUUAAUAGUUCCGCGUGCGUCGACAGGCCGACAAA--------C
....((((((((....))))))))((((((.((((((((.((((....)....(((((((((((......))).)))))))).)))..)))))))).....)))..)))..--------. ( -24.80)
>consensus
UUAUUAACUUUUCAUUGAAAGUUAUGUGCAAACGCACGUUGACGACAUCUUUAAUUAAUUACAUUUUAACAUGAUAAUUAAUAGUGCCGCGUGCGUCGACAGGCCGACAAAGCCGCCAAA
....((((((((....)))))))).((((....))))(((((((.(((.....(((((((((((......))).))))))))........)))))))))).(((.......)))...... (-25.20 = -25.87 +   0.67)

alignment

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secondary structure

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dotplot

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Window 0

Location 20,190,889 – 20,191,009
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 98.39
Mean single sequence MFE -20.60
Consensus MFE -19.81
Energy contribution -19.67
Covariance contribution -0.14
Combinations/Pair 1.03
Mean z-score -1.63
Structure conservation index 0.96
SVM decision value 2.49
SVM RNA-class probability 0.994590
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20190889 120 + 22224390
UAAUUAUCAUGUUAAAAUGUAAUUAAUUAAAGAUGUCGUCAACGUGCGUUUGCACAUAACUUUCAAUGAAAAGUUAAUAAAUUACGUAGUGCCGAAAACGAAAUUACAAACGCCAUCAUC
((((((.(((......)))))))))......((((.(((....((((....)))).(((((((......))))))).........(((((..((....))..)))))..))).))))... ( -23.50)
>DroSec_CAF1 12511 120 + 1
UAAUUAUCAUGUUAAAAUGUAAUUAAUUAAAGAUGUCGUCAACGUGCGUUUGCACAUAACUUUCAAUGAAAAGUUAAUAAAUUACAUAGUGCCGAAAACGAAAUUACAAACGCCAUCAUC
((((((.(((......)))))))))......((((.((....)).(((((((....(((((((......)))))))..........((((..((....))..)))))))))))))))... ( -20.00)
>DroSim_CAF1 10630 120 + 1
UAAUUAUCAUGUUAAAAUGUAAUUAAUUAAAGAUGUCGUCAACGUGCGUUUGCACAUAACUUUCAAUGAAAAGUUAAUAAAUUACAUAGUGCCGAAAACGAAAUUACAAACGCCAUCAUC
((((((.(((......)))))))))......((((.((....)).(((((((....(((((((......)))))))..........((((..((....))..)))))))))))))))... ( -20.00)
>DroEre_CAF1 10383 120 + 1
UAAUUAUCAUGUUAAAAUGUAAUUAAUUAAAGAUGUCGUCAACGUGCGUUUGCACAUAACUUUCAAUGAAAAGUUAAUAAAUUACAUAGUGCCGAAAACGAAAUUACAAACGCCAUCAAC
((((((.(((......)))))))))......((((.((....)).(((((((....(((((((......)))))))..........((((..((....))..)))))))))))))))... ( -20.00)
>DroYak_CAF1 10070 120 + 1
UAAUUAUCAUGUUAAAAUGUAAUUAAUUAAAGAUGUCGUCAACGUGCGUUUGCACAUAACUUUCAAUGAAAAGUUAAUAAAUUACAUAGUGCCGAAAACGAAAUUACAAACGCCAUCAAC
((((((.(((......)))))))))......((((.((....)).(((((((....(((((((......)))))))..........((((..((....))..)))))))))))))))... ( -20.00)
>DroAna_CAF1 54003 120 + 1
UAAUUAUCAUGUUAAAAUGUAAUUAAUUAAAGAUGUCGUCAACGUGCGCUGGCACAUAACUUUCAAUGAAAAGUUAAUAAAUUACAUAAUGCCGAAAACGAAAUUACAAACGCCAUCAAC
((((((.(((......)))))))))......((((.(((....((((....)))).(((((((......)))))))..........((((..((....))..))))...))).))))... ( -20.10)
>consensus
UAAUUAUCAUGUUAAAAUGUAAUUAAUUAAAGAUGUCGUCAACGUGCGUUUGCACAUAACUUUCAAUGAAAAGUUAAUAAAUUACAUAGUGCCGAAAACGAAAUUACAAACGCCAUCAAC
((((((.(((......)))))))))......((((.(((....((((....)))).(((((((......)))))))..........((((..((....))..))))...))).))))... (-19.81 = -19.67 +  -0.14)

alignment

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secondary structure

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dotplot

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Window 1

Location 20,190,889 – 20,191,009
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 98.39
Mean single sequence MFE -24.15
Consensus MFE -22.57
Energy contribution -22.60
Covariance contribution 0.03
Combinations/Pair 1.03
Mean z-score -1.32
Structure conservation index 0.93
SVM decision value 1.19
SVM RNA-class probability 0.928723
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20190889 120 - 22224390
GAUGAUGGCGUUUGUAAUUUCGUUUUCGGCACUACGUAAUUUAUUAACUUUUCAUUGAAAGUUAUGUGCAAACGCACGUUGACGACAUCUUUAAUUAAUUACAUUUUAACAUGAUAAUUA
...(((((((((((((..........((......))........((((((((....))))))))..))))))))).((....)).))))......(((((((((......))).)))))) ( -23.20)
>DroSec_CAF1 12511 120 - 1
GAUGAUGGCGUUUGUAAUUUCGUUUUCGGCACUAUGUAAUUUAUUAACUUUUCAUUGAAAGUUAUGUGCAAACGCACGUUGACGACAUCUUUAAUUAAUUACAUUUUAACAUGAUAAUUA
...(((((((((((((...(((....)))...............((((((((....))))))))..))))))))).((....)).))))......(((((((((......))).)))))) ( -23.10)
>DroSim_CAF1 10630 120 - 1
GAUGAUGGCGUUUGUAAUUUCGUUUUCGGCACUAUGUAAUUUAUUAACUUUUCAUUGAAAGUUAUGUGCAAACGCACGUUGACGACAUCUUUAAUUAAUUACAUUUUAACAUGAUAAUUA
...(((((((((((((...(((....)))...............((((((((....))))))))..))))))))).((....)).))))......(((((((((......))).)))))) ( -23.10)
>DroEre_CAF1 10383 120 - 1
GUUGAUGGCGUUUGUAAUUUCGUUUUCGGCACUAUGUAAUUUAUUAACUUUUCAUUGAAAGUUAUGUGCAAACGCACGUUGACGACAUCUUUAAUUAAUUACAUUUUAACAUGAUAAUUA
((..((((((((((((...(((....)))...............((((((((....))))))))..))))))))).)))..))............(((((((((......))).)))))) ( -26.20)
>DroYak_CAF1 10070 120 - 1
GUUGAUGGCGUUUGUAAUUUCGUUUUCGGCACUAUGUAAUUUAUUAACUUUUCAUUGAAAGUUAUGUGCAAACGCACGUUGACGACAUCUUUAAUUAAUUACAUUUUAACAUGAUAAUUA
((..((((((((((((...(((....)))...............((((((((....))))))))..))))))))).)))..))............(((((((((......))).)))))) ( -26.20)
>DroAna_CAF1 54003 120 - 1
GUUGAUGGCGUUUGUAAUUUCGUUUUCGGCAUUAUGUAAUUUAUUAACUUUUCAUUGAAAGUUAUGUGCCAGCGCACGUUGACGACAUCUUUAAUUAAUUACAUUUUAACAUGAUAAUUA
((..((((((((.........(....)(((((............((((((((....)))))))).)))))))))).)))..))............(((((((((......))).)))))) ( -23.12)
>consensus
GAUGAUGGCGUUUGUAAUUUCGUUUUCGGCACUAUGUAAUUUAUUAACUUUUCAUUGAAAGUUAUGUGCAAACGCACGUUGACGACAUCUUUAAUUAAUUACAUUUUAACAUGAUAAUUA
...(((((((((((((...(((....)))...............((((((((....))))))))..))))))))).((....)).))))......(((((((((......))).)))))) (-22.57 = -22.60 +   0.03)

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 12:56:07 2006