Locus 7148

Sequence ID 3L_DroMel_CAF1
Location 19,195,209 – 19,195,362
Length 153
Max. P 0.892018
window11605 window11606

overview

Window 5

Location 19,195,209 – 19,195,323
Length 114
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 93.22
Mean single sequence MFE -29.82
Consensus MFE -25.32
Energy contribution -25.82
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.88
Structure conservation index 0.85
SVM decision value 0.60
SVM RNA-class probability 0.794348
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19195209 114 + 23771897
CAGCAAAAGCAACCCCCAAUUUUGAACGCGGGGGGCUU------UCGCCGGAAAAACCCAACGCAAGCCGGAACCCCUCAAACGACAACUCGAUUUUUCUUCUGGCACAAGAAAAAUUGC
..((((((((..(((((............)))))))))------..(((((((....((..(....)..))...........(((....))).......)))))))..........)))) ( -29.20)
>DroSec_CAF1 23485 114 + 1
CAGCAAAAGCAACCCCCAAUUUUGAACGCGGGGGGCUU------UCGCCGGAAAAACCCAACGCAAGCCGGAACCCCUCAAACGACAACUCGAUUUUUCUUCUGGCACAAGAAAAAUUGC
..((((((((..(((((............)))))))))------..(((((((....((..(....)..))...........(((....))).......)))))))..........)))) ( -29.20)
>DroSim_CAF1 27794 114 + 1
NNNNNNNNNNAACCCCCAAUUUAGAACGCGGGGGGCUU------UCGCCGGAAAAACCCAACGCAAGCCGGAACCCCUCAAACGACAACUCGAUUUUUCUUCUGGCACAAGAAAAAUUGC
................((((((.....(((..(((.((------((....))))..)))..)))..(((((((.........(((....))).......))))))).......)))))). ( -25.69)
>DroEre_CAF1 26514 114 + 1
CAGCAAAAGCAACCCCCAAUUUUGAACGCGGGGGGCUU------UCGCCGGAAAAACCCAACGCAAGCCGGAACCCCUCAAACGACAACUCGAUUUUUCUUCUGGCACAAGAAAAAUUGC
..((((((((..(((((............)))))))))------..(((((((....((..(....)..))...........(((....))).......)))))))..........)))) ( -29.20)
>DroYak_CAF1 51515 114 + 1
CGGCAAAAGCAACCCCCAAUUUUGAACGCGGGGGGCUU------UCGCCGGAAAAACCCAACGCAAGCCGGAACCCCUCAAACGACAACUCGAUUUUUCUUCUGGCACAAGAAAAAUUGC
((((.(((((..(((((............)))))))))------).)))).......((..(....)..))...................(((((((((((.......))))))))))). ( -32.10)
>DroAna_CAF1 16573 119 + 1
CAGGAAAAGCAACCCCCAAUUUUCAAUGCGGGGGGUUUUUUUUUUGGCCGGA-AAACCCAACGCAAGCCGGAACCCCUCAAACGACAACUCGAUUUUUCUUCUGGCACAAGAAAAAUUGC
........(((((((((............)))))...(((((((((((((((-(...((..(....)..))...........(((....))).......))))))).))))))))))))) ( -33.50)
>consensus
CAGCAAAAGCAACCCCCAAUUUUGAACGCGGGGGGCUU______UCGCCGGAAAAACCCAACGCAAGCCGGAACCCCUCAAACGACAACUCGAUUUUUCUUCUGGCACAAGAAAAAUUGC
........(((((((((............)))))............(((((((....((..(....)..))...........(((....))).......)))))))..........)))) (-25.32 = -25.82 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 19,195,247 – 19,195,362
Length 115
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 96.46
Mean single sequence MFE -20.60
Consensus MFE -17.88
Energy contribution -18.05
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -1.84
Structure conservation index 0.87
SVM decision value 0.97
SVM RNA-class probability 0.892018
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19195247 115 + 23771897
----UCGCCGGAAAAACCCAACGCAAGCCGGAACCCCUCAAACGACAACUCGAUUUUUCUUCUGGCACAAGAAAAAUUGCCGAAAUUAAAGCAAA-AAGAAAAACAAUUUUCUCUGCUCU
----..(((((((....((..(....)..))...........(((....))).......))))))).......................((((..-.((((((....)))))).)))).. ( -20.40)
>DroSec_CAF1 23523 115 + 1
----UCGCCGGAAAAACCCAACGCAAGCCGGAACCCCUCAAACGACAACUCGAUUUUUCUUCUGGCACAAGAAAAAUUGCCGAAAUUAAAGCAAA-AAGAAAAACAAUUUUCUCUUCUCU
----..(((((((....((..(....)..))...........(((....))).......)))))))...((((...((((..........)))).-.((((((....)))))).)))).. ( -19.50)
>DroSim_CAF1 27832 115 + 1
----UCGCCGGAAAAACCCAACGCAAGCCGGAACCCCUCAAACGACAACUCGAUUUUUCUUCUGGCACAAGAAAAAUUGCCGAAAUUAAAGCAAA-AAGAAAAAAAAUUUUCUCUGCUCU
----..(((((((....((..(....)..))...........(((....))).......))))))).......................((((..-.((((((....)))))).)))).. ( -20.40)
>DroEre_CAF1 26552 115 + 1
----UCGCCGGAAAAACCCAACGCAAGCCGGAACCCCUCAAACGACAACUCGAUUUUUCUUCUGGCACAAGAAAAAUUGCCGAAAUUAAAGCAAA-AAGAAAAACAAUUUUCUCUUCUUU
----..(((((((....((..(....)..))...........(((....))).......)))))))..(((((...((((..........)))).-.((((((....)))))).))))). ( -20.40)
>DroYak_CAF1 51553 115 + 1
----UCGCCGGAAAAACCCAACGCAAGCCGGAACCCCUCAAACGACAACUCGAUUUUUCUUCUGGCACAAGAAAAAUUGCCGAAAUUAAAGCAAA-AAGAAAAACAAUUUUCUCUUCUUU
----..(((((((....((..(....)..))...........(((....))).......)))))))..(((((...((((..........)))).-.((((((....)))))).))))). ( -20.40)
>DroAna_CAF1 16613 119 + 1
UUUUUGGCCGGA-AAACCCAACGCAAGCCGGAACCCCUCAAACGACAACUCGAUUUUUCUUCUGGCACAAGAAAAAUUGCCGAAAUUAAAGCAAAAAAGAAAAACAAUUUUCUCUUUUUU
.(((((((.((.-....)).......(((((((.........(((....))).......)))))))............))))))).......((((((((.(((....))).)))))))) ( -22.49)
>consensus
____UCGCCGGAAAAACCCAACGCAAGCCGGAACCCCUCAAACGACAACUCGAUUUUUCUUCUGGCACAAGAAAAAUUGCCGAAAUUAAAGCAAA_AAGAAAAACAAUUUUCUCUUCUCU
......(((((((....((..(....)..))...........(((....))).......)))))))..........((((..........))))...((((((....))))))....... (-17.88 = -18.05 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:16 2006