Locus 738

Sequence ID 2R_DroMel_CAF1
Location 3,609,224 – 3,609,371
Length 147
Max. P 0.647033
window1292 window1293

overview

Window 2

Location 3,609,224 – 3,609,338
Length 114
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 85.91
Mean single sequence MFE -34.65
Consensus MFE -27.50
Energy contribution -28.78
Covariance contribution 1.28
Combinations/Pair 1.26
Mean z-score -1.81
Structure conservation index 0.79
SVM decision value 0.01
SVM RNA-class probability 0.537923
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3609224 114 + 20766785
GACAGCUAGCGUCUUUUUGGUGUCAACUAUCAGUUUGCGAUUACGCACUUCCACCUUCAUGGUGGGAGACGGCACCUUGGUGGAUGAUACCCACGAGCUCUUUUUCUUCUUCUG
...((((..(((......(((((((.(((((((..((((....))))((((((((.....))))))))........))))))).))))))).)))))))............... ( -36.40)
>DroVir_CAF1 8151 114 + 1
CGCAGCUAGCGACUUUUUUUGAUCCACAAUCAGCUUUCGAUGACGCACCUCUAGUUUCAUGCUGGGACUCGGCGGUUUUGUUGAUGAUACUUUAGCCAGCUUUUUCUUCUUCUG
...((((.((........(((((.....)))))...((((..(...(((.(((((..(.....)..))).)).))).)..))))..........)).))))............. ( -20.70)
>DroSec_CAF1 14328 114 + 1
GACAGCUAGCGUCUUCUUGGUGUCAACUAUCAGUUUGCGCUUACGCACUUCCACCUUCAUGGUGGGAGACGGCACCUUGGUGGAUGAUACCGACGAGUUCUUUUUCUUCUUUUG
(((.......)))((((((((((((.(((((((..(((((....)).((((((((.....))))))))...)))..))))))).))))))))).)))................. ( -41.00)
>DroSim_CAF1 15927 114 + 1
GACAGCUAGCGUCUUCUUGGUGUCAACUAUCAGUUUGCGCUUACGCACUUCCACCUUCAUGGUGGGAGACGGCACCUUGGUGGAUGAUACCGACGAGUUCUUUUUUUUCUUUUG
(((.......)))((((((((((((.(((((((..(((((....)).((((((((.....))))))))...)))..))))))).))))))))).)))................. ( -41.00)
>DroEre_CAF1 14580 114 + 1
GGCAGCUAGCGUUUUCUUGGUGUCAACUAUCAAUUUUCGAUAACGCACUUCCAUCUUCAUGGUGGGAGACGGCACCUUGGUGGAUGAUACCGACGAGUUCUUUUUCUUCUUCUG
.((.....))(..((((((((((((.(((((((.....(....)((.((((((((.....))))))))...))...))))))).))))))))).)))..).............. ( -33.30)
>DroYak_CAF1 14560 114 + 1
GGCAGCUAGCGUCUUCUUGGUGUCAACUAACAAUUUGCGAUUACGCACUUCCACCUUCAUGGUUGGAGACGGCACCUUGGUGGAUGAUACCGACGAGUUCUUUUUCCUCUUUUG
((.((..((...(((.(((((((((..........((((....))))..((((((......((((....)))).....))))))))))))))).)))..))..))))....... ( -35.50)
>consensus
GACAGCUAGCGUCUUCUUGGUGUCAACUAUCAGUUUGCGAUUACGCACUUCCACCUUCAUGGUGGGAGACGGCACCUUGGUGGAUGAUACCGACGAGUUCUUUUUCUUCUUCUG
............(((.(((((((((.(((((((..((((....))))((((((((.....))))))))........))))))).))))))))).)))................. (-27.50 = -28.78 +   1.28) 

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 3

Location 3,609,263 – 3,609,371
Length 108
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 84.88
Mean single sequence MFE -36.70
Consensus MFE -28.84
Energy contribution -28.73
Covariance contribution -0.10
Combinations/Pair 1.30
Mean z-score -1.96
Structure conservation index 0.79
SVM decision value 0.24
SVM RNA-class probability 0.647033
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3609263 108 + 20766785
AUUACGCACUUCCACCUUCAUGGUGGGAGACGGCACCUUGGUGGAUGAUACCCACGAGCUCUUUUUCUUCUUCUGAAGAGGAGACCACACUGGUGUGGCCUUUGCUUU
.....(((((((((((.....)))))))).(.(((((.((((((.......))))(..(((((((((.......)))))))))..).))..))))).)....)))... ( -41.20)
>DroVir_CAF1 8190 108 + 1
AUGACGCACCUCUAGUUUCAUGCUGGGACUCGGCGGUUUUGUUGAUGAUACUUUAGCCAGCUUUUUCUUCUUCUGCAGCGGUGACCACGAUAUUGGACCCUUUGGCUG
..((((.(((.(((((..(.....)..))).)).)))..))))..........((((((((.............))((.(((..(((......)))))))).)))))) ( -22.32)
>DroSec_CAF1 14367 108 + 1
CUUACGCACUUCCACCUUCAUGGUGGGAGACGGCACCUUGGUGGAUGAUACCGACGAGUUCUUUUUCUUCUUUUGAAGAGGAGACCACACGGGUGUGGGCUUUGCUUU
.....(((((((((((.....)))))))).(.((((((..((((........((.....))(((((((((....))))))))).))))..)))))).)....)))... ( -40.10)
>DroSim_CAF1 15966 108 + 1
CUUACGCACUUCCACCUUCAUGGUGGGAGACGGCACCUUGGUGGAUGAUACCGACGAGUUCUUUUUUUUCUUUUGAAGAGGAGACCACACGGGUGUGGGCUUUGCUUU
.....(((((((((((.....)))))))).(.(((((((((((.....))))))((.((((((((((((.....))))))))))..)).))))))).)....)))... ( -38.10)
>DroEre_CAF1 14619 108 + 1
AUAACGCACUUCCAUCUUCAUGGUGGGAGACGGCACCUUGGUGGAUGAUACCGACGAGUUCUUUUUCUUCUUCUGAAGAGGAGACCACACGGGUGUCGGUUUUGCUUU
.....(((((((((((.....)))))))).((((((((..((((........((.....))(((((((((....))))))))).))))..))))))))....)))... ( -40.40)
>DroYak_CAF1 14599 108 + 1
AUUACGCACUUCCACCUUCAUGGUUGGAGACGGCACCUUGGUGGAUGAUACCGACGAGUUCUUUUUCCUCUUUUGAAGAGGAGACCACACGGGUGUCGGCUUUGCUUU
.....((((.((((((......((((....)))).....)))))).)...((((((.((....((((((((.....))))))))....))...))))))...)))... ( -38.10)
>consensus
AUUACGCACUUCCACCUUCAUGGUGGGAGACGGCACCUUGGUGGAUGAUACCGACGAGUUCUUUUUCUUCUUCUGAAGAGGAGACCACACGGGUGUGGGCUUUGCUUU
.....(((((((((((.....)))))))).(.(((((...((((...........(....)..((((((((.....))))))))))))...))))).)....)))... (-28.84 = -28.73 +  -0.10) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:57 2006