Locus 6117

Sequence ID X_DroMel_CAF1
Location 15,677,761 – 15,677,890
Length 129
Max. P 0.820181
window9940 window9941

overview

Window 0

Location 15,677,761 – 15,677,862
Length 101
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 80.33
Mean single sequence MFE -22.50
Consensus MFE -15.49
Energy contribution -15.39
Covariance contribution -0.11
Combinations/Pair 1.37
Mean z-score -1.39
Structure conservation index 0.69
SVM decision value 0.22
SVM RNA-class probability 0.641005
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15677761 101 + 22224390
UUAAACAC--AUUGGG--GGUCAUAAACUCACCUUCUUUAGGAUAAACAGGCGGUUCUUCAGCUUCUUAUUUUCAAUUUGAAGCUGAACAAGAUCGACGUCCAAC
........--.(((((--.(((.........(((.....)))..........((((.(((((((((..((.....))..)))))))))...))))))).))))). ( -27.20)
>DroSec_CAF1 5363 101 + 1
UGAAACAC--AUUGGG--GGCCAUAAACUCACCUUCUUUAGGAUGAACAGGCGGUUCUUCAGCUUCUUAUUUUCAAUUUGAAGCUGAACAAGAUCGACGUCCAAC
........--.....(--(((.......((((((.....))).)))...(.(((((.(((((((((..((.....))..)))))))))...))))).)))))... ( -25.20)
>DroSim_CAF1 2110 101 + 1
UGAAACAC--AUUGGG--GGCCAUAAACUCACCUUCUUUAGGAUGAACAGGCGGUUCUUCAGCUUCUUAUUUUCAAUUUGAAGCUGAACAAGAUCGACGUCCAAC
........--.....(--(((.......((((((.....))).)))...(.(((((.(((((((((..((.....))..)))))))))...))))).)))))... ( -25.20)
>DroEre_CAF1 4349 100 + 1
UUAAACAC--AUU-GG--GGUCAUAAACUUACCUUCUUCAGGAUAAAAAGGCGGUUCUUAAGCUUCUUAUUUUCAAUUUGAAGCUGAACAAGAUCGACGUCCAAC
........--.((-((--((((.........(((.....)))...........((((...((((((..((.....))..))))))))))......))).))))). ( -19.80)
>DroYak_CAF1 2110 101 + 1
UUAAACAC--GUCAAG--GGUCAUAAACUCACCUUCUUCAGGAUGAACAAGCGGUUCUUCAACUUCUUAUUUUCAAUUUGAAGUUGAACAAGAUCGACGUCCAAC
......((--(((..(--(((.....))))...........(((((((.....))))(((((((((..((.....))..)))))))))....))))))))..... ( -22.00)
>DroPer_CAF1 192373 105 + 1
CUAAAUAGUAAUUAUUAAUUUAAGUUACUUACCUGCCUAAUUAUGGAUAAACGAUGUUUGAGCUUGGUAUUUUUAAGUUGGAGUUUGAUCAGAUCAUCGUCAGUU
......(((((((.........)))))))...(((((.......))....(((((((((((((((((.....))))))..........))))).))))))))).. ( -15.60)
>consensus
UUAAACAC__AUUGGG__GGUCAUAAACUCACCUUCUUUAGGAUGAACAGGCGGUUCUUCAGCUUCUUAUUUUCAAUUUGAAGCUGAACAAGAUCGACGUCCAAC
........................................(((((......(((((.(((((((((.............)))))))))...))))).)))))... (-15.49 = -15.39 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,677,794 – 15,677,890
Length 96
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 78.79
Mean single sequence MFE -23.52
Consensus MFE -15.49
Energy contribution -15.39
Covariance contribution -0.11
Combinations/Pair 1.37
Mean z-score -1.67
Structure conservation index 0.66
SVM decision value 0.68
SVM RNA-class probability 0.820181
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15677794 96 + 22224390
UUAGGAUAAACAGGCGGUUCUUCAGCUUCUUAUUUUCAAUUUGAAGCUGAACAAGAUCGACGUCCAAC---------UGUUCACCGCUUUUGGCAGUUUGUAUUC
.....((((((.(.(((((.(((((((((..((.....))..)))))))))...))))).)(.((((.---------.((.....))..))))).)))))).... ( -24.10)
>DroSec_CAF1 5396 96 + 1
UUAGGAUGAACAGGCGGUUCUUCAGCUUCUUAUUUUCAAUUUGAAGCUGAACAAGAUCGACGUCCAAC---------UGUUCACCAUUUUUGGCAGUUUGUAUUC
...((.(((((((.(((((.(((((((((..((.....))..)))))))))...)))))........)---------)))))))).................... ( -26.50)
>DroSim_CAF1 2143 96 + 1
UUAGGAUGAACAGGCGGUUCUUCAGCUUCUUAUUUUCAAUUUGAAGCUGAACAAGAUCGACGUCCAAC---------UGUUCACCACUUUUGGCAGUUUGUAUUC
...((.(((((((.(((((.(((((((((..((.....))..)))))))))...)))))........)---------)))))))).................... ( -26.50)
>DroEre_CAF1 4381 96 + 1
UCAGGAUAAAAAGGCGGUUCUUAAGCUUCUUAUUUUCAAUUUGAAGCUGAACAAGAUCGACGUCCAAC---------UGCUCACAAUGUUCGGCAGUUUGUAUUC
...(((((....((((..((((.((((((..((.....))..))))))....))))....)))).(((---------((((..........)))))))..))))) ( -21.30)
>DroYak_CAF1 2143 96 + 1
UCAGGAUGAACAAGCGGUUCUUCAACUUCUUAUUUUCAAUUUGAAGUUGAACAAGAUCGACGUCCAAC---------UGCUCACCAUUUUUGGCAGUUUGUAUUC
...(((((......(((((.(((((((((..((.....))..)))))))))...))))).)))))(((---------(((.((.......))))))))....... ( -25.20)
>DroPer_CAF1 192410 105 + 1
UAAUUAUGGAUAAACGAUGUUUGAGCUUGGUAUUUUUAAGUUGGAGUUUGAUCAGAUCAUCGUCAGUUUCAGCAUAGUGAUCUUUUCCUGUUACAGACUUUACUU
..................((((((((((((.....)))))))((((...((((((((....))).((....))....)))))..)))).....)))))....... ( -17.50)
>consensus
UUAGGAUGAACAGGCGGUUCUUCAGCUUCUUAUUUUCAAUUUGAAGCUGAACAAGAUCGACGUCCAAC_________UGUUCACCACUUUUGGCAGUUUGUAUUC
...(((((......(((((.(((((((((.............)))))))))...))))).)))))........................................ (-15.49 = -15.39 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:36 2006