Locus 1352

Sequence ID X_DroMel_CAF1
Location 4,046,086 – 4,046,194
Length 108
Max. P 0.710831
window2154 window2155

overview

Window 4

Location 4,046,086 – 4,046,194
Length 108
Sequences 3
Columns 110
Reading direction forward
Mean pairwise identity 97.58
Mean single sequence MFE -30.93
Consensus MFE -28.72
Energy contribution -28.83
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -1.87
Structure conservation index 0.93
SVM decision value 0.38
SVM RNA-class probability 0.710831
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4046086 108 + 22224390
AGGGUGCAGGGGGCGUGGAUG--CUGGGCGUGAGAGACUGACUAAGAAGUCAAAGAGCUAUGAGUCAGAGUAUUCUGAGAAUGUCCUCAGUUCGAGGAAGAGGUAUUAAG
..(((((.(((((((((((((--((...(....)...((((((....(((......)))...))))))))))))).....))))))))..(((......))))))))... ( -29.80)
>DroSec_CAF1 59518 110 + 1
AGGGUGCAGGGGGCGUGGAUGCGCUGUGCGUGAGAGACUGACUAAGAAGUCAAAGAGCCAUGAGUCAGAGUAUUCUGAGAAUGUCCUCAGUUCGAGGAAGAGGUAUUAAG
..(((((.((((((((((((((.(((..((((.(....(((((....))))).....)))))...))).)))))).....))))))))..(((......))))))))... ( -31.30)
>DroSim_CAF1 56543 110 + 1
AGGGUGCAGGGGGCGUGGAUGCGCUGGGCGUGAGAGACUGACUAAGAAGUCAAAGAGCCAUGAGUCAGAGUAUUCUGAGAAUGUCCUCAGUUCGAGGAAGAGGUAUUAAG
..(((((.((((((((((((((.((((.((((.(....(((((....))))).....)))))..)))).)))))).....))))))))..(((......))))))))... ( -31.70)
>consensus
AGGGUGCAGGGGGCGUGGAUGCGCUGGGCGUGAGAGACUGACUAAGAAGUCAAAGAGCCAUGAGUCAGAGUAUUCUGAGAAUGUCCUCAGUUCGAGGAAGAGGUAUUAAG
..(((((.((((((((((((((.(((..((((.(....(((((....))))).....)))))...))).)))))).....))))))))..(((......))))))))... (-28.72 = -28.83 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 4,046,086 – 4,046,194
Length 108
Sequences 3
Columns 110
Reading direction reverse
Mean pairwise identity 97.58
Mean single sequence MFE -20.10
Consensus MFE -17.33
Energy contribution -17.67
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.14
Structure conservation index 0.86
SVM decision value 0.20
SVM RNA-class probability 0.629802
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4046086 108 - 22224390
CUUAAUACCUCUUCCUCGAACUGAGGACAUUCUCAGAAUACUCUGACUCAUAGCUCUUUGACUUCUUAGUCAGUCUCUCACGCCCAG--CAUCCACGCCCCCUGCACCCU
.....................(((((((....(((((....)))))............(((((....)))))))).)))).((...(--(......)).....))..... ( -18.20)
>DroSec_CAF1 59518 110 - 1
CUUAAUACCUCUUCCUCGAACUGAGGACAUUCUCAGAAUACUCUGACUCAUGGCUCUUUGACUUCUUAGUCAGUCUCUCACGCACAGCGCAUCCACGCCCCCUGCACCCU
.....................(((((((....(((((....)))))............(((((....)))))))).)))).(((..(((......)))....)))..... ( -21.90)
>DroSim_CAF1 56543 110 - 1
CUUAAUACCUCUUCCUCGAACUGAGGACAUUCUCAGAAUACUCUGACUCAUGGCUCUUUGACUUCUUAGUCAGUCUCUCACGCCCAGCGCAUCCACGCCCCCUGCACCCU
............(((((.....))))).....(((((....))))).....(((...((((((....)))))).......(((...))).......)))........... ( -20.20)
>consensus
CUUAAUACCUCUUCCUCGAACUGAGGACAUUCUCAGAAUACUCUGACUCAUGGCUCUUUGACUUCUUAGUCAGUCUCUCACGCCCAGCGCAUCCACGCCCCCUGCACCCU
.....................(((((((....(((((....)))))............(((((....)))))))).)))).((...(.((......)).)...))..... (-17.33 = -17.67 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:11 2006