Locus 3468

Sequence ID X_DroMel_CAF1
Location 9,300,123 – 9,300,227
Length 104
Max. P 0.725319
window5673 window5674

overview

Window 3

Location 9,300,123 – 9,300,227
Length 104
Sequences 3
Columns 104
Reading direction forward
Mean pairwise identity 93.42
Mean single sequence MFE -22.17
Consensus MFE -22.07
Energy contribution -22.07
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.45
Structure conservation index 1.00
SVM decision value 0.41
SVM RNA-class probability 0.725319
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9300123 104 + 22224390
AAUCCGCCGACAUCCAUAAACCCGUCUUGCCAUUGUUACUCAAUCAAAUUUCCAUUAGGAAAGCCAGGCUAAUAGAGUUUCGUCUGUCUGGCGCUCUGUCUUUC
....((((((((..(..((((.(.....(((((((.....))))....(((((....)))))....))).....).)))).)..)))).))))........... ( -22.40)
>DroSec_CAF1 81715 96 + 1
AAUCCGCCGACAUCCAUAAACCCGUCUUGCCAUUGUUACUCAAUCAAAUUUCCAUUAGGAAAGCCAGGCUAAUAGAGUUUCGUCUGUCUGGCGCUC--------
....((((((((..(..((((.(.....(((((((.....))))....(((((....)))))....))).....).)))).)..)))).))))...-------- ( -22.40)
>DroYak_CAF1 81954 95 + 1
AAUCCGCCGACAUCCAUAAACCCGUCUUGCCAUUGUUACUCAAUCAAAUUUCCAUUAGGAAAGCCAGGCUAAUAGAGUUUCGCCUGUCUGGCGCU---------
....((((((((.....((((.(.....(((((((.....))))....(((((....)))))....))).....).))))....)))).))))..--------- ( -21.70)
>consensus
AAUCCGCCGACAUCCAUAAACCCGUCUUGCCAUUGUUACUCAAUCAAAUUUCCAUUAGGAAAGCCAGGCUAAUAGAGUUUCGUCUGUCUGGCGCUC________
....((((((((..(..((((.(.....(((((((.....))))....(((((....)))))....))).....).)))).)..)))).))))........... (-22.07 = -22.07 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 9,300,123 – 9,300,227
Length 104
Sequences 3
Columns 104
Reading direction reverse
Mean pairwise identity 93.42
Mean single sequence MFE -28.07
Consensus MFE -28.07
Energy contribution -28.07
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.38
Structure conservation index 1.00
SVM decision value 0.31
SVM RNA-class probability 0.681713
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9300123 104 - 22224390
GAAAGACAGAGCGCCAGACAGACGAAACUCUAUUAGCCUGGCUUUCCUAAUGGAAAUUUGAUUGAGUAACAAUGGCAAGACGGGUUUAUGGAUGUCGGCGGAUU
...........((((.((((..((((((((.....(((....(((((....)))))....((((.....))))))).....)))))).))..)))))))).... ( -28.60)
>DroSec_CAF1 81715 96 - 1
--------GAGCGCCAGACAGACGAAACUCUAUUAGCCUGGCUUUCCUAAUGGAAAUUUGAUUGAGUAACAAUGGCAAGACGGGUUUAUGGAUGUCGGCGGAUU
--------...((((.((((..((((((((.....(((....(((((....)))))....((((.....))))))).....)))))).))..)))))))).... ( -28.60)
>DroYak_CAF1 81954 95 - 1
---------AGCGCCAGACAGGCGAAACUCUAUUAGCCUGGCUUUCCUAAUGGAAAUUUGAUUGAGUAACAAUGGCAAGACGGGUUUAUGGAUGUCGGCGGAUU
---------..((((.((((..((((((((.....(((....(((((....)))))....((((.....))))))).....)))))).))..)))))))).... ( -27.00)
>consensus
________GAGCGCCAGACAGACGAAACUCUAUUAGCCUGGCUUUCCUAAUGGAAAUUUGAUUGAGUAACAAUGGCAAGACGGGUUUAUGGAUGUCGGCGGAUU
...........((((.((((..((((((((.....(((....(((((....)))))....((((.....))))))).....)))))).))..)))))))).... (-28.07 = -28.07 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:07 2006