Locus 6048

Sequence ID 3R_DroMel_CAF1
Location 15,918,005 – 15,918,188
Length 183
Max. P 0.832467
window9865 window9866

overview

Window 5

Location 15,918,005 – 15,918,125
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 92.59
Mean single sequence MFE -29.65
Consensus MFE -25.35
Energy contribution -26.10
Covariance contribution 0.75
Combinations/Pair 1.09
Mean z-score -1.89
Structure conservation index 0.85
SVM decision value 0.72
SVM RNA-class probability 0.832467
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15918005 120 - 27905053
CUCCGGCAAACUUGUUGAGCUGCAAGUUUGCUCUCUUCUAAUAUAUUUGGUCGAAAACUUGCUGCUAAUGAGUAAAUGUGGGAAAAGUUUAAAUUAAUUUUUGAAAUGUGUUCCACUCUA
.........(((..((.(((.((((((((....((..((((.....))))..)))))))))).)))))..)))....((((((....((((((......)))))).....)))))).... ( -30.40)
>DroSec_CAF1 35692 120 - 1
CUGCGUCAAACUUGUUGAGCUGCAAGUUUGCGCUCUUCUAAUAUAUUUGGUCGAAAACUUGCUGCUAAUGAGUAAAUGUGGGAAAAGUUUAAAUUAAUUUUUGAAAUGUGUUCCACUCUA
.........(((..((.(((.((((((((.((.....((((.....)))).)).)))))))).)))))..)))....((((((....((((((......)))))).....)))))).... ( -31.00)
>DroSim_CAF1 25491 120 - 1
CUGCGGCAAACUUGUUGAGCUGCAAGUUUGCGCUCUUCUAAUAUAUUUGGUCGAAAACUUGCUGCUAAUGAGUAAAUGUGGGAAAAGUUUAAAUUAAUUUUUGAAAUGUGUUCCACUCUA
.........(((..((.(((.((((((((.((.....((((.....)))).)).)))))))).)))))..)))....((((((....((((((......)))))).....)))))).... ( -31.00)
>DroEre_CAF1 24982 118 - 1
C--GGGCAAACUUGUUGAGCUACAAGUUUGCGCUCUUCUAAUACAUUUGGUCGAGAACUUGCUGCUAAUGAGUAAAUGUGGGAAAAGUUUAAAUUAAUUUUUGAAAUGUGUUCCACUCUA
.--..((((((((((......)))))))))).(((..((((.....))))..)))...(((((.(....))))))..((((((....((((((......)))))).....)))))).... ( -30.90)
>DroYak_CAF1 28335 118 - 1
U--GGGCAAACUUGUUGAUCUACAAGUUUGCGCUCUUCUAAAAUAUUUGGUCGAAAACUUUCUGCUAAUGAGUAAAUGUGGGAAAAGUUUAAAUUAAUUUUUGAAAUGUGUUCCACUCUA
.--..((((((((((......))))))))))((((...........(((((.(((....))).))))).))))....((((((....((((((......)))))).....)))))).... ( -30.00)
>DroAna_CAF1 18374 117 - 1
---UGGCGAACUUGUUGAGCUGCAAGUUUGCGUUCUUCUAAUAUAUAUGACCAAAAACUUGCUGCUAAUGAGUAAAUGUGGGCAAAGUUUAAAUUAAUUUUUGAAAUGGGUUUCACUCUG
---......(((..((.(((.((((((((..(.((.............)).)..)))))))).)))))..)))....((((((....((((((......))))))....).))))).... ( -24.62)
>consensus
C__CGGCAAACUUGUUGAGCUGCAAGUUUGCGCUCUUCUAAUAUAUUUGGUCGAAAACUUGCUGCUAAUGAGUAAAUGUGGGAAAAGUUUAAAUUAAUUUUUGAAAUGUGUUCCACUCUA
.........(((..((.(((.((((((((.((.((.............)).)).)))))))).)))))..)))....((((((....((((((......)))))).....)))))).... (-25.35 = -26.10 +   0.75)

alignment

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secondary structure

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dotplot

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Window 6

Location 15,918,085 – 15,918,188
Length 103
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.43
Mean single sequence MFE -22.67
Consensus MFE -16.55
Energy contribution -16.22
Covariance contribution -0.33
Combinations/Pair 1.20
Mean z-score -1.49
Structure conservation index 0.73
SVM decision value 0.27
SVM RNA-class probability 0.662513
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15918085 103 - 27905053
--UCCCACACAAAUCACAGGCAAAUUAGUUGCUA---UCGCCCCUCU------------UAGUGCUAUCCCUCUCGCUCUCUCCGGCAAACUUGUUGAGCUGCAAGUUUGCUCUCUUCUA
--................((((....((..((..---..))....))------------...))))..................(((((((((((......)))))))))))........ ( -19.30)
>DroSec_CAF1 35772 115 - 1
--UCCCACACAAAUCACAGGCAAAUUAGUUGCUA---UCGCCCCUCUAGCUCCCACUCCUAGUGCUGUCCCUCUUGCUCUCUGCGUCAAACUUGUUGAGCUGCAAGUUUGCGCUCUUCUA
--................(((((.......((((---.........))))...(((.....))).........)))))....(((.(((((((((......))))))))))))....... ( -22.90)
>DroSim_CAF1 25571 115 - 1
--UCCCACACAAAUCACAGGCAAAUUAGUUGCUA---UCGCCCCUCUAGCUCCCACUCCUUAUGCUGUCCCUCUCGCUCUCUGCGGCAAACUUGUUGAGCUGCAAGUUUGCGCUCUUCUA
--................(((((.....))))).---..((.....((((.............)))).......(((.....)))((((((((((......))))))))))))....... ( -24.42)
>DroEre_CAF1 25062 113 - 1
--UCCCACACAAAUCACAGGCAAAUUAGUUGCUA---UCGCCCCUCUCGCUCCCACUGCUAGUGCUCUCCCCCUCGCUCUC--GGGCAAACUUGUUGAGCUACAAGUUUGCGCUCUUCUA
--................(((((.....))))).---...........((.....(((..((((..........))))..)--))((((((((((......))))))))))))....... ( -23.10)
>DroYak_CAF1 28415 113 - 1
--UCCCACACAAAUCACAGGCAAAUUAGUUGCUA---UCACCCCUCUCGCUCCCACUCCUAGUGAUGUCCCUCUCGCUCUU--GGGCAAACUUGUUGAUCUACAAGUUUGCGCUCUUCUA
--................(((((.....))))).---...........((.......((.(((((........)))))...--))((((((((((......))))))))))))....... ( -24.50)
>DroAna_CAF1 18454 100 - 1
GAACCCACACAAAUCACAGGCAAAUUAGUUGUUCGUUCCACCUCUUUCGCUCCC----------------CGAUCGCAC----UGGCGAACUUGUUGAGCUGCAAGUUUGCGUUCUUCUA
((((............(((((......((.(......).)).....(((.....----------------)))..)).)----))((((((((((......))))))))))))))..... ( -21.80)
>consensus
__UCCCACACAAAUCACAGGCAAAUUAGUUGCUA___UCGCCCCUCUCGCUCCCACUCCUAGUGCUGUCCCUCUCGCUCUC__CGGCAAACUUGUUGAGCUGCAAGUUUGCGCUCUUCUA
..................(((((.....)))))....................................................((((((((((......))))))))))......... (-16.55 = -16.22 +  -0.33)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:19 2006