Locus 5349

Sequence ID X_DroMel_CAF1
Location 13,934,553 – 13,934,654
Length 101
Max. P 0.975451
window8679 window8680

overview

Window 9

Location 13,934,553 – 13,934,654
Length 101
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 82.20
Mean single sequence MFE -43.62
Consensus MFE -39.12
Energy contribution -39.50
Covariance contribution 0.38
Combinations/Pair 1.08
Mean z-score -1.79
Structure conservation index 0.90
SVM decision value 1.04
SVM RNA-class probability 0.905101
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13934553 101 + 22224390
AGUGAGGGGGGGUGGGGGAGGGCGUUGGAGCCUGGGUUUGGGGGUUC----GCGAAUGCGGACUUUGCUUUUCGACCCCAUUGCCCAGACCAUCCUGCGCCGGUU
..........((((.((((((((......))((((((.(((((((((----((....)))))).(((.....))))))))..)))))).)).)))).)))).... ( -44.00)
>DroSec_CAF1 14403 94 + 1
AGUGAGGGG-----------GGCGUUGGAGCCUGGGUUUGGGGGUUCGAACGCGAAUGCGGACUUUGCUUUUCGACCCCAUUGCCCAGACCAUCCAGCGCCGGCU
.........-----------(((((((((..((((((...(((((.((((.(((((.......)))))..)))))))))...))))))....))))))))).... ( -46.30)
>DroSim_CAF1 20178 90 + 1
AGUGAGGGG-----------GGCGUUGGAGCCUGGGUUUGGGGGUUC----GCGAAUGCGGACUUUGCUUUUCGACCCCAUUGCCCAGACCAUCCAGCGCCGGCU
.........-----------(((((((((..((((((.(((((((((----((....)))))).(((.....))))))))..))))))....))))))))).... ( -44.20)
>DroEre_CAF1 15766 94 + 1
AGGGGG------CGGCAUGGGGCGCUGGAGAUUGUGUUU-GGGGUUC----GCGAAUGCGGACUUUGCUCUGCGACCCCGUUGCCCAGUCCAUCCUGCGCCGGCU
((((((------(((((((((((((.((((........(-..(((((----((....)))))))..)))))))).))))).))))..))))..)))((....)). ( -40.00)
>consensus
AGUGAGGGG___________GGCGUUGGAGCCUGGGUUUGGGGGUUC____GCGAAUGCGGACUUUGCUUUUCGACCCCAUUGCCCAGACCAUCCAGCGCCGGCU
....................(((((((((..((((((...((((((.....(((((.......))))).....))))))...))))))....))))))))).... (-39.12 = -39.50 +   0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 13,934,553 – 13,934,654
Length 101
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 82.20
Mean single sequence MFE -35.75
Consensus MFE -29.24
Energy contribution -30.11
Covariance contribution 0.87
Combinations/Pair 1.04
Mean z-score -2.31
Structure conservation index 0.82
SVM decision value 1.75
SVM RNA-class probability 0.975451
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13934553 101 - 22224390
AACCGGCGCAGGAUGGUCUGGGCAAUGGGGUCGAAAAGCAAAGUCCGCAUUCGC----GAACCCCCAAACCCAGGCUCCAACGCCCUCCCCCACCCCCCCUCACU
....((((..(((..(((((((....(((((((..((((.......)).))..)----).)))))....))))))))))..)))).................... ( -35.00)
>DroSec_CAF1 14403 94 - 1
AGCCGGCGCUGGAUGGUCUGGGCAAUGGGGUCGAAAAGCAAAGUCCGCAUUCGCGUUCGAACCCCCAAACCCAGGCUCCAACGCC-----------CCCCUCACU
....((((.((((..(((((((....(((((((((..........(((....))))))).)))))....))))))))))).))))-----------......... ( -38.80)
>DroSim_CAF1 20178 90 - 1
AGCCGGCGCUGGAUGGUCUGGGCAAUGGGGUCGAAAAGCAAAGUCCGCAUUCGC----GAACCCCCAAACCCAGGCUCCAACGCC-----------CCCCUCACU
....((((.((((..(((((((....(((((((..((((.......)).))..)----).)))))....))))))))))).))))-----------......... ( -37.10)
>DroEre_CAF1 15766 94 - 1
AGCCGGCGCAGGAUGGACUGGGCAACGGGGUCGCAGAGCAAAGUCCGCAUUCGC----GAACCCC-AAACACAAUCUCCAGCGCCCCAUGCCG------CCCCCU
....(((((.(((..((.(((....)((((((((..(((.......)).)..))----).)))))-.....)).))))).)))))........------...... ( -32.10)
>consensus
AGCCGGCGCAGGAUGGUCUGGGCAAUGGGGUCGAAAAGCAAAGUCCGCAUUCGC____GAACCCCCAAACCCAGGCUCCAACGCC___________CCCCUCACU
....((((.((((..(((((((....(((((((((..((.......)).)))).......)))))....))))))))))).)))).................... (-29.24 = -30.11 +   0.87)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:49 2006