Locus 5916

Sequence ID X_DroMel_CAF1
Location 15,246,559 – 15,246,680
Length 121
Max. P 0.981710
window9604 window9605

overview

Window 4

Location 15,246,559 – 15,246,655
Length 96
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 84.26
Mean single sequence MFE -30.30
Consensus MFE -22.08
Energy contribution -23.44
Covariance contribution 1.36
Combinations/Pair 1.10
Mean z-score -2.79
Structure conservation index 0.73
SVM decision value 1.89
SVM RNA-class probability 0.981710
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15246559 96 - 22224390
AGCUCACUUUAAGUUGGUUUUUGGCCA---UUGGUGUUAAAUUAAUAAUGGCU-UUGGCUAACAAGUGG-----UUUCUGACACAGAUCCCAUCGAAGUGGCUGA--
(((.((((((..(((((((...(((((---(((.((......)).))))))))-..)))))))..((((-----..((((...))))..)))).)))))))))..-- ( -35.20)
>DroSec_CAF1 67665 91 - 1
AGCUCACUUUAAGUUGGUUUUUGGCCA---UUGGUGUUAAAUUAAUAAUGGCU-UUGGCUAACAAGUGG-----UUUCUGACACAGAUCCCAUC-----GGCUGC--
((((........(((((((...(((((---(((.((......)).))))))))-..)))))))..((((-----..((((...))))..)))).-----))))..-- ( -28.60)
>DroEre_CAF1 67622 96 - 1
AGCUCACUUUAAGUUGGUUUUUGGCCA---UUGGUGCUAAAUUAAUAAUGGCU-UUGGCUAACAAGUGG-----UUUCUGACACUGAUCCAAUCGAAGUGGCUGG--
(((.((((((..(((((((...(((((---(((............))))))))-..))))))).((((.-----.......)))).........)))))))))..-- ( -30.30)
>DroYak_CAF1 66918 98 - 1
AGCUCACUUUAAGUUGGUUUUUGGCCA---UUGGUGUUAAAUUAAUAAUGGCU-UUGGCUAACAAGUGG-----UUUCUGACAUUGAUCCAAUCGAAGUGGCUGGAU
(((.((((((..(((((((...(((((---(((.((......)).))))))))-..)))))))...(((-----..((.......)).)))...))))))))).... ( -29.80)
>DroAna_CAF1 66070 99 - 1
GGCGCACUUUAAGUUGGUUU-UGGCCAGCGUUGGCAUUACAUUAAUAAUGGUUUUUGGCUAACAAGUGGCCUGUUCUCUGCCACUGAUCCUGACAAAGUG-------
....((((((..((((((..-..))))))((((((....(((.....))).......)))))).((((((..(....).)))))).........))))))------- ( -27.60)
>consensus
AGCUCACUUUAAGUUGGUUUUUGGCCA___UUGGUGUUAAAUUAAUAAUGGCU_UUGGCUAACAAGUGG_____UUUCUGACACUGAUCCAAUCGAAGUGGCUGG__
(((.((((((..(((((((...(((((...(((((.....)))))...)))))...)))))))..(((.............)))..........))))))))).... (-22.08 = -23.44 +   1.36)

alignment

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secondary structure

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dotplot

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Window 5

Location 15,246,585 – 15,246,680
Length 95
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 83.56
Mean single sequence MFE -28.76
Consensus MFE -19.56
Energy contribution -19.60
Covariance contribution 0.04
Combinations/Pair 1.05
Mean z-score -2.67
Structure conservation index 0.68
SVM decision value 1.53
SVM RNA-class probability 0.961987
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15246585 95 - 22224390
UUACGCCCCCAA---------CUUGGCCCAAUGAAGCUCACUUUAAGUUGGUUUUUGGCCA---UUGGUGUUAAAUUAAUAAUGGCU-UUGGCUAACAAGUGG-----UUUCU
....(((.....---------...))).....(((((.(((((...(((((((...(((((---(((.((......)).))))))))-..)))))))))))))-----)))). ( -29.50)
>DroSec_CAF1 67686 95 - 1
UUACGCCCCCAA---------CUUGGCCCAAUGAAGCUCACUUUAAGUUGGUUUUUGGCCA---UUGGUGUUAAAUUAAUAAUGGCU-UUGGCUAACAAGUGG-----UUUCU
....(((.....---------...))).....(((((.(((((...(((((((...(((((---(((.((......)).))))))))-..)))))))))))))-----)))). ( -29.50)
>DroEre_CAF1 67648 95 - 1
UUACGCCCCCAA---------CUUGCCCCAAUGAAGCUCACUUUAAGUUGGUUUUUGGCCA---UUGGUGCUAAAUUAAUAAUGGCU-UUGGCUAACAAGUGG-----UUUCU
............---------...........(((((.(((((...(((((((...(((((---(((............))))))))-..)))))))))))))-----)))). ( -25.70)
>DroYak_CAF1 66946 95 - 1
UUACGCCCUCAA---------CUUGCCCCAAUGAAGCUCACUUUAAGUUGGUUUUUGGCCA---UUGGUGUUAAAUUAAUAAUGGCU-UUGGCUAACAAGUGG-----UUUCU
............---------...........(((((.(((((...(((((((...(((((---(((.((......)).))))))))-..)))))))))))))-----)))). ( -26.50)
>DroAna_CAF1 66091 111 - 1
UUUGGGUUUCGGGUUUUGGCUUUUGGCUCACUU-GGCGCACUUUAAGUUGGUUU-UGGCCAGCGUUGGCAUUACAUUAAUAAUGGUUUUUGGCUAACAAGUGGCCUGUUCUCU
..((((((..((((....))))..))))))...-(((.(((((...((((((..-..))))))((((((....(((.....))).......))))))))))))))........ ( -32.60)
>consensus
UUACGCCCCCAA_________CUUGGCCCAAUGAAGCUCACUUUAAGUUGGUUUUUGGCCA___UUGGUGUUAAAUUAAUAAUGGCU_UUGGCUAACAAGUGG_____UUUCU
......................................(((((...(((((((...(((((...(((((.....)))))...)))))...))))))))))))........... (-19.56 = -19.60 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:34 2006