Locus 990

Sequence ID 3L_DroMel_CAF1
Location 2,958,755 – 2,958,906
Length 151
Max. P 0.985270
window1528 window1529

overview

Window 8

Location 2,958,755 – 2,958,866
Length 111
Sequences 5
Columns 112
Reading direction reverse
Mean pairwise identity 86.80
Mean single sequence MFE -29.30
Consensus MFE -21.98
Energy contribution -22.26
Covariance contribution 0.28
Combinations/Pair 1.20
Mean z-score -2.66
Structure conservation index 0.75
SVM decision value 1.69
SVM RNA-class probability 0.972206
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2958755 111 - 23771897
GCAGCCUUCAUUUUGAGGCAACAUGAAAAUGCUUUUUGGCAUCAAAGUGGCAGCGAAGGUCACUU-UUUGCUAGCAUUCUAGUGUUAUUCAACUAAAACAUUCUAUAUUAAA
...(((((......)))))(((((...((((((....((((..((((((((.......)))))))-).))))))))))...))))).......................... ( -28.50)
>DroSec_CAF1 187343 104 - 1
GCAGCCUUCAUUUUGAGGCAACAUGAAAAUGCUUUUUGGCAUCAAAGUGACAGAGAAGGUCACUU-UUUGCUAGCAUUAGAGUGCUAUUCAACUAAAACAUUGUA-------
((((((((......)))))........((((((....((((..((((((((.......)))))))-).))))))))))....)))....................------- ( -27.40)
>DroSim_CAF1 173485 111 - 1
GCAGCCUUCAUUUUGAGGCAACAUGAAAAUGCUUUUUGGCAUCAAAGUGACAGCGAAGGUCACUU-UUUGCUAGCAUUCAAGUGCUAUUCAACUAAAACAUUGUAUAUUAAA
((.(((((......))))).((.(((..(((((....((((..((((((((.......)))))))-).)))))))))))).))))........................... ( -27.40)
>DroEre_CAF1 195395 104 - 1
GCAGCCUUCAUUUUGAGGCUACAUGCAAAUGCUUUUUGGCUUCAAAGUGGCUGCGAAGGUCA--------CUGGUAAUCUAGUGCUAUUCAACUAAAACAUUGUAUAUUAAA
((((((...((((((((((((...((....))....))))))))))))))))))(((((.((--------((((....)))))))).)))...................... ( -35.90)
>DroYak_CAF1 197094 112 - 1
GCAGCCUUCACUUUGAGGCAACAUGAAAAUGCUUUUUGGCAUUUAAGUGGCUGCGAAGGUCAUUUUUUUGCUAGUAUUCUGGUGCUAUUCAACUAAAACACUGUAUAUGAAA
...(((((......)))))..((((.(((((((....))))))).((((((((((((((.....))))))).)))....((((........))))...))))...))))... ( -27.30)
>consensus
GCAGCCUUCAUUUUGAGGCAACAUGAAAAUGCUUUUUGGCAUCAAAGUGGCAGCGAAGGUCACUU_UUUGCUAGCAUUCUAGUGCUAUUCAACUAAAACAUUGUAUAUUAAA
((((((((......)))))........((((((....((((...(((((((.......)))))))...))))))))))....)))........................... (-21.98 = -22.26 +   0.28)

alignment

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secondary structure

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dotplot

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Window 9

Location 2,958,787 – 2,958,906
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.94
Mean single sequence MFE -34.54
Consensus MFE -25.28
Energy contribution -26.00
Covariance contribution 0.72
Combinations/Pair 1.11
Mean z-score -3.24
Structure conservation index 0.73
SVM decision value 2.00
SVM RNA-class probability 0.985270
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2958787 119 - 23771897
AGAAUAGCAACCGCUACUUAAAGGCAACUUUUUGGCCAUUGCAGCCUUCAUUUUGAGGCAACAUGAAAAUGCUUUUUGGCAUCAAAGUGGCAGCGAAGGUCACUU-UUUGCUAGCAUUCU
(((((.((....(((((((((((....))))...((((..((.(((((......)))))...((....))))....))))....)))))))((((((((....))-)))))).))))))) ( -37.20)
>DroSec_CAF1 187368 119 - 1
AAAAUAGCAACCGCAACUUAAAAGCAACUUUUUGGCCAUUGCAGCCUUCAUUUUGAGGCAACAUGAAAAUGCUUUUUGGCAUCAAAGUGACAGAGAAGGUCACUU-UUUGCUAGCAUUAG
....((((((..((.....(((((((..(((.((((....)).(((((......)))))..)).)))..)))))))..))...((((((((.......)))))))-)))))))....... ( -31.40)
>DroSim_CAF1 173517 119 - 1
AAAAUAGCAACCGCAACUUAAAAGCAACUUUUUGGCUAUUGCAGCCUUCAUUUUGAGGCAACAUGAAAAUGCUUUUUGGCAUCAAAGUGACAGCGAAGGUCACUU-UUUGCUAGCAUUCA
....((((((..((.....(((((((..(((.((((....)).(((((......)))))..)).)))..)))))))..))...((((((((.......)))))))-)))))))....... ( -32.60)
>DroEre_CAF1 195427 111 - 1
AAAAUAACAACCGCUACUUAAAAGGAUUUUUUUGG-CAUUGCAGCCUUCAUUUUGAGGCUACAUGCAAAUGCUUUUUGGCUUCAAAGUGGCUGCGAAGGUCA--------CUGGUAAUCU
.......................(((((((..(((-(.((((((((...((((((((((((...((....))....))))))))))))))))))))..))))--------..)).))))) ( -34.10)
>DroYak_CAF1 197126 120 - 1
AAAAUAACAACCGCAACUUAAAAGCAACUUUUUGGCCAUCGCAGCCUUCACUUUGAGGCAACAUGAAAAUGCUUUUUGGCAUUUAAGUGGCUGCGAAGGUCAUUUUUUUGCUAGUAUUCU
......................(((((.....(((((.(((((((((((.....))))...(((..(((((((....)))))))..)))))))))).))))).....)))))........ ( -37.40)
>consensus
AAAAUAGCAACCGCAACUUAAAAGCAACUUUUUGGCCAUUGCAGCCUUCAUUUUGAGGCAACAUGAAAAUGCUUUUUGGCAUCAAAGUGGCAGCGAAGGUCACUU_UUUGCUAGCAUUCU
......................(((((.....(((((.((((.(((((......)))))..(((....(((((....)))))....)))...)))).))))).....)))))........ (-25.28 = -26.00 +   0.72)

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 09:56:15 2006