Locus 5903

Sequence ID 3R_DroMel_CAF1
Location 15,538,812 – 15,538,915
Length 103
Max. P 0.721450
window9644 window9645

overview

Window 4

Location 15,538,812 – 15,538,915
Length 103
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 84.30
Mean single sequence MFE -30.55
Consensus MFE -22.66
Energy contribution -22.60
Covariance contribution -0.06
Combinations/Pair 1.17
Mean z-score -1.54
Structure conservation index 0.74
SVM decision value 0.13
SVM RNA-class probability 0.597838
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15538812 103 + 27905053
GUUGAAUGUGUAAUAAAGCACAUGACUUUGGUCUUUUAUGGUUUGGCCGUGGAGAAUUUGGCCGC---------AGCUCACCUUGAACCCGAGUAACAAUGACCAAAGUAAA--------
.....((((((......)))))).(((((((((((((((((.....)))))))).((((((...(---------((......)))...))))))......)))))))))...-------- ( -30.50)
>DroSec_CAF1 64321 103 + 1
GUUGAAUGUGUAAUAAAGCACAUGACUUUGGUCUUUUAUGGUUUGGCCGUGGAGAAUUUGGCCGC---------AGCUCACCUUGAACCCGAGCAACAAUGACCAAAGUAAA--------
.....((((((......)))))).(((((((((...........(((((.........)))))..---------.((((...........))))......)))))))))...-------- ( -31.40)
>DroYak_CAF1 61344 103 + 1
GUUGAAUGUGUAAUAAAGCACAUGACUUCGGUCUUUUAUGGUUUGGUCGUGGAGAAUUUGGCCGC---------AGCUCACCUUGAACCCGAGUAACAAUGACCAAAGUAAA--------
.....((((((......))))))(((....))).....((.(((((((((.....((((((...(---------((......)))...))))))....))))))))).))..-------- ( -28.60)
>DroAna_CAF1 55240 120 + 1
GUUGAAUGUGUAAUAAAGCACAUGACUUUGGUCUUUUAUGGCUUGGUCGCGGUAUUUUUGGUCGCUCCACCGCCGGCUCACCUUGAACCUACGGAACAAUGACCAACGUUAGCGAAAUCC
.....((((((......))))))((((..((((......)))).)))).((.((...(((((((.....(((..((.((.....)).))..))).....)))))))...)).))...... ( -31.70)
>consensus
GUUGAAUGUGUAAUAAAGCACAUGACUUUGGUCUUUUAUGGUUUGGCCGUGGAGAAUUUGGCCGC_________AGCUCACCUUGAACCCGAGUAACAAUGACCAAAGUAAA________
.....((((((......)))))).(((((((((...........(((((.........)))))..................((((....)))).......)))))))))........... (-22.66 = -22.60 +  -0.06)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 5

Location 15,538,812 – 15,538,915
Length 103
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 84.30
Mean single sequence MFE -28.00
Consensus MFE -21.90
Energy contribution -22.52
Covariance contribution 0.63
Combinations/Pair 1.09
Mean z-score -1.69
Structure conservation index 0.78
SVM decision value 0.40
SVM RNA-class probability 0.721450
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15538812 103 - 27905053
--------UUUACUUUGGUCAUUGUUACUCGGGUUCAAGGUGAGCU---------GCGGCCAAAUUCUCCACGGCCAAACCAUAAAAGACCAAAGUCAUGUGCUUUAUUACACAUUCAAC
--------...(((((((((...........(((((.....)))))---------..((((...........))))...........))))))))).(((((........)))))..... ( -27.40)
>DroSec_CAF1 64321 103 - 1
--------UUUACUUUGGUCAUUGUUGCUCGGGUUCAAGGUGAGCU---------GCGGCCAAAUUCUCCACGGCCAAACCAUAAAAGACCAAAGUCAUGUGCUUUAUUACACAUUCAAC
--------...(((((((((...((.(((((.........))))).---------))((((...........))))...........))))))))).(((((........)))))..... ( -29.30)
>DroYak_CAF1 61344 103 - 1
--------UUUACUUUGGUCAUUGUUACUCGGGUUCAAGGUGAGCU---------GCGGCCAAAUUCUCCACGACCAAACCAUAAAAGACCGAAGUCAUGUGCUUUAUUACACAUUCAAC
--------...(((((((((.((........((((...((.((((.---------...)).....)).))..))))........)).))))))))).(((((........)))))..... ( -21.69)
>DroAna_CAF1 55240 120 - 1
GGAUUUCGCUAACGUUGGUCAUUGUUCCGUAGGUUCAAGGUGAGCCGGCGGUGGAGCGACCAAAAAUACCGCGACCAAGCCAUAAAAGACCAAAGUCAUGUGCUUUAUUACACAUUCAAC
((...((((.....((((((.((.(.((((.(((((.....))))).)))).).)).)))))).......)))).....))......(((....)))(((((........)))))..... ( -33.60)
>consensus
________UUUACUUUGGUCAUUGUUACUCGGGUUCAAGGUGAGCU_________GCGGCCAAAUUCUCCACGACCAAACCAUAAAAGACCAAAGUCAUGUGCUUUAUUACACAUUCAAC
...........(((((((((...........(((((.....)))))...........((((...........))))...........))))))))).(((((........)))))..... (-21.90 = -22.52 +   0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:25 2006