Locus 5816

Sequence ID X_DroMel_CAF1
Location 15,061,958 – 15,062,100
Length 142
Max. P 0.935130
window9437 window9438

overview

Window 7

Location 15,061,958 – 15,062,071
Length 113
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.31
Mean single sequence MFE -30.42
Consensus MFE -19.45
Energy contribution -19.98
Covariance contribution 0.53
Combinations/Pair 1.05
Mean z-score -1.65
Structure conservation index 0.64
SVM decision value 0.30
SVM RNA-class probability 0.679155
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15061958 113 + 22224390
AACAAUGUAAGGAGCUAGCCAGCUGGAACCGGAGCUCGGCGCCAUAGCAGAUUUACUUUUAUUGCAAAUUGCAAUUCUGCAUUCUCGUCUGGCCCG----CCCCCGCUCCCUCC---CCU
..........(((((.((....))((...(((.(((.((((.....(((((.........(((((.....)))))))))).....)))).))))))----...)))))))....---... ( -32.80)
>DroSec_CAF1 23227 118 + 1
AACAAUGUAAGGAGCUAGCCAGCUGGAACCGGAGCUCGGCGCCAUAGCAGAUUUUCUUUUAUUGCAAAUUGCAAUUCUGCAUUCUCGUCUGGCCCCCCAACCCCCGCUGCCACC--ACCA
..........((.(...((.(((.((....((.(((.((((.....(((((.........(((((.....)))))))))).....)))).))).))......)).)))))...)--.)). ( -28.60)
>DroAna_CAF1 15897 95 + 1
AACAGUGCCAGGACCCUCCCAUCUGGAGCCG--GCUUGGCGCCACAGCAGAUUUACUUUUAUUGCAAAUUGCAAUUCUGCAUCCUCGGUUAC-----C------------------AACU
(((.((((((((.((((((.....))))..)--)))))))))....(((((.........(((((.....)))))))))).......)))..-----.------------------.... ( -29.70)
>DroSim_CAF1 9636 118 + 1
AACAAUGUAAGGAGCUAGCCAGCUGGAACCGGAGCUCGGCGCCAUAGCAGAUUUACUUUUAUUGCAAAUUGCAAUUCUGCAUUCUCGUCUGGCCCCCCAACCCCCGCUGCCUCC--ACCA
..........((((...((.(((.((....((.(((.((((.....(((((.........(((((.....)))))))))).....)))).))).))......)).)))))))))--.... ( -32.30)
>DroEre_CAF1 14437 103 + 1
AACAAUGUAAGGAGCUAGCCAGCUGGAACCGGAGCUCGGCGCCAAAGCAGAUUUACUUUUAUUGCAAAUUGCAAUUCUGCAUUCUCGUCUG-----------------GCAAAUGCACCA
..........((.((..(((((((((..(((.....)))..)))..(((((.........(((((.....))))))))))......).)))-----------------))....)).)). ( -30.30)
>DroYak_CAF1 16407 116 + 1
AACAAUGUAAGGAGCUAGCCAACUGGAACCGGAGCUCGGCGCCAUAGCAGAUUUACUUUUAUUGCAAAUUGCAAUUCUGCAUUCUCGUCUGACCCUCCA----CCGAUGCAUAUGCAACA
....(((((.((..((((....))))..))((((.((((((.....(((((.........(((((.....)))))))))).....)).))))..)))).----....)))))........ ( -28.80)
>consensus
AACAAUGUAAGGAGCUAGCCAGCUGGAACCGGAGCUCGGCGCCAUAGCAGAUUUACUUUUAUUGCAAAUUGCAAUUCUGCAUUCUCGUCUGGCCC__C_____CCGCUGCCUCC__ACCA
..........((.((((((...(((....))).))).))).))...(((((.........(((((.....))))))))))........................................ (-19.45 = -19.98 +   0.53)

alignment

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secondary structure

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dotplot

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Window 8

Location 15,061,998 – 15,062,100
Length 102
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 75.09
Mean single sequence MFE -19.01
Consensus MFE -11.72
Energy contribution -12.00
Covariance contribution 0.28
Combinations/Pair 1.06
Mean z-score -1.94
Structure conservation index 0.62
SVM decision value 1.24
SVM RNA-class probability 0.935130
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15061998 102 + 22224390
GCCAUAGCAGAUUUACUUUUAUUGCAAAUUGCAAUUCUGCAUUCUCGUCUGGCCCG----CCCCCGCUCCCUCC---CCUCCUC-------CGCCUACCAACUGCUGGCCACACG----A
......(((((.........(((((.....))))))))))....((((.(((((.(----(.............---.......-------............)).))))).)))----) ( -22.85)
>DroSec_CAF1 23267 103 + 1
GCCAUAGCAGAUUUUCUUUUAUUGCAAAUUGCAAUUCUGCAUUCUCGUCUGGCCCCCCAACCCCCGCUGCCACC--ACCACCUC-------C----ACCAACUGCUGGCCACACG----A
......(((((.........(((((.....))))))))))....((((.(((((....................--........-------.----..........))))).)))----) ( -19.63)
>DroSim_CAF1 9676 103 + 1
GCCAUAGCAGAUUUACUUUUAUUGCAAAUUGCAAUUCUGCAUUCUCGUCUGGCCCCCCAACCCCCGCUGCCUCC--ACCACCUC-------C----ACCAACUGCUGGCCACACG----A
......(((((.........(((((.....))))))))))....((((.(((((....................--........-------.----..........))))).)))----) ( -19.63)
>DroEre_CAF1 14477 94 + 1
GCCAAAGCAGAUUUACUUUUAUUGCAAAUUGCAAUUCUGCAUUCUCGUCUG-----------------GCAAAUGCACCACCCCCCAACUCCC-----CCUCCGCUGGCCACAGG----A
.((...(((((.........(((((.....)))))))))).........((-----------------((....((.................-----.....))..))))..))----. ( -16.95)
>DroYak_CAF1 16447 102 + 1
GCCAUAGCAGAUUUACUUUUAUUGCAAAUUGCAAUUCUGCAUUCUCGUCUGACCCUCCA----CCGAUGCAUAUGCAACACCCC--------------CCCCCGCUAGCCAUACCAUAUA
((..((((............(((((.....)))))..(((((...((((.(........----).))))...))))).......--------------.....))))))........... ( -16.00)
>consensus
GCCAUAGCAGAUUUACUUUUAUUGCAAAUUGCAAUUCUGCAUUCUCGUCUGGCCCCCCA_CCCCCGCUGCCUCC__ACCACCUC_______C____ACCAACUGCUGGCCACACG____A
((((..(((((.........(((((.....))))))))))..((......)).....................................................))))........... (-11.72 = -12.00 +   0.28)

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 11:57:04 2006