Locus 1699

Sequence ID X_DroMel_CAF1
Location 4,732,850 – 4,732,940
Length 90
Max. P 0.784150
window2791 window2792

overview

Window 1

Location 4,732,850 – 4,732,940
Length 90
Sequences 4
Columns 90
Reading direction forward
Mean pairwise identity 83.33
Mean single sequence MFE -27.55
Consensus MFE -18.38
Energy contribution -20.50
Covariance contribution 2.12
Combinations/Pair 1.05
Mean z-score -1.67
Structure conservation index 0.67
SVM decision value 0.15
SVM RNA-class probability 0.605661
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4732850 90 + 22224390
AAAGAGCGAGCAUUAAAACGGAAAUAAUUGUGGUCUGGCCGGAGACCGUCGGACCGGAUAUGGCCAGAUCCAGGGGCGUCUGCUCCGAGA
............................((.((((((((((....(((......)))...))))))))))))(((((....))))).... ( -29.70)
>DroSec_CAF1 25842 90 + 1
AAAGAGCGAGCAUUAAAACGGAAAUAAUUGUGGUCUGGCCCGAGACCGUCGGACCGGAUAUGGCCAGAUCCAGGGGCGUCUGCUCGGAGA
......((((((........((.....(((.(((((((((.....(((......)))....)))))))))))).....)))))))).... ( -29.50)
>DroEre_CAF1 29289 90 + 1
AAAGAGAGAGCAUUAAAACGGAAAUAAUUGUGGUCUGGCCGGAGACCGUCGGACCGGAUAUGGCCAGAUCCAGGGGCGGUAGCCCCGACA
............................((.((((((((((....(((......)))...))))))))))))(((((....))))).... ( -33.80)
>DroAna_CAF1 28802 77 + 1
AAAGUUCCAACAUUAAAACGGAAAUAAUUGUGGUCUGGCCGGAGACUGUCCGACCGGAUAUGGACAAA----AGGGUG--------G-AA
....(((((.(.......((.((....)).))((((((.((((.....)))).)))))).........----.)..))--------)-)) ( -17.20)
>consensus
AAAGAGCGAGCAUUAAAACGGAAAUAAUUGUGGUCUGGCCGGAGACCGUCGGACCGGAUAUGGCCAGAUCCAGGGGCGUCUGCUCCGAGA
...................((..(((..(.(((((((((.(....).))))))))).))))..)).......(((((....))))).... (-18.38 = -20.50 +   2.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 4,732,850 – 4,732,940
Length 90
Sequences 4
Columns 90
Reading direction reverse
Mean pairwise identity 83.33
Mean single sequence MFE -26.26
Consensus MFE -15.26
Energy contribution -17.20
Covariance contribution 1.94
Combinations/Pair 1.10
Mean z-score -2.44
Structure conservation index 0.58
SVM decision value 0.57
SVM RNA-class probability 0.784150
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4732850 90 - 22224390
UCUCGGAGCAGACGCCCCUGGAUCUGGCCAUAUCCGGUCCGACGGUCUCCGGCCAGACCACAAUUAUUUCCGUUUUAAUGCUCGCUCUUU
....(((((.((.((...(((.(((((((....(((......))).....))))))))))..((((.........))))))))))))).. ( -28.30)
>DroSec_CAF1 25842 90 - 1
UCUCCGAGCAGACGCCCCUGGAUCUGGCCAUAUCCGGUCCGACGGUCUCGGGCCAGACCACAAUUAUUUCCGUUUUAAUGCUCGCUCUUU
....((((((((((....(((.(((((((....(((......))).....))))))))))..........))))....))))))...... ( -29.84)
>DroEre_CAF1 29289 90 - 1
UGUCGGGGCUACCGCCCCUGGAUCUGGCCAUAUCCGGUCCGACGGUCUCCGGCCAGACCACAAUUAUUUCCGUUUUAAUGCUCUCUCUUU
....(((((....)))))(((.(((((((....(((......))).....)))))))))).............................. ( -31.60)
>DroAna_CAF1 28802 77 - 1
UU-C--------CACCCU----UUUGUCCAUAUCCGGUCGGACAGUCUCCGGCCAGACCACAAUUAUUUCCGUUUUAAUGUUGGAACUUU
..-.--------......----.((((.....((.(((((((.....))))))).))..))))....(((((.........))))).... ( -15.30)
>consensus
UCUCGGAGCAGACGCCCCUGGAUCUGGCCAUAUCCGGUCCGACGGUCUCCGGCCAGACCACAAUUAUUUCCGUUUUAAUGCUCGCUCUUU
.....((((.........(((.(((((((....(((......))).....))))))))))..((((.........))))))))....... (-15.26 = -17.20 +   1.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:56 2006