Locus 6682

Sequence ID 3R_DroMel_CAF1
Location 17,572,985 – 17,573,081
Length 96
Max. P 0.728749
window10864 window10865

overview

Window 4

Location 17,572,985 – 17,573,081
Length 96
Sequences 3
Columns 96
Reading direction forward
Mean pairwise identity 76.56
Mean single sequence MFE -13.60
Consensus MFE -10.59
Energy contribution -10.70
Covariance contribution 0.11
Combinations/Pair 1.07
Mean z-score -1.28
Structure conservation index 0.78
SVM decision value 0.42
SVM RNA-class probability 0.728749
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17572985 96 + 27905053
AAAGAUCUAAAAUAUUUCAAGAACUUAAAAAGCUAACUUUAUGAUAUACUCGUAUAUACUGGGCUUAAGAGCCCUCAUUUUAAUUUGAACAGUAAU
...............((((((...((((((.........(((((.....)))))......(((((....)))))...))))))))))))....... ( -13.50)
>DroSec_CAF1 8156 76 + 1
AAAGUUCUGAAAUAUUUUAAGAAUU---------------AUGAUAUACUCGUACAUACUGGGCUUAGAAGCCCUCAUUUUAAUUUGAACA-----
...((((((((((...........(---------------((((.....)))))......(((((....)))))..))))))....)))).----- ( -13.80)
>DroSim_CAF1 7438 78 + 1
AAAGUUCUGAAAUAUUUUAAGAACU---------------A---UAUACUCUUAUAUACUGGGCUUAGAAGCCCUCAUUUUAAUUUGAACAGCUAU
...((((((((((....(((((...---------------.---.....)))))......(((((....)))))..))))))....))))...... ( -13.50)
>consensus
AAAGUUCUGAAAUAUUUUAAGAACU_______________AUGAUAUACUCGUAUAUACUGGGCUUAGAAGCCCUCAUUUUAAUUUGAACAG__AU
..((((((...........))))))...................................(((((....)))))(((........)))........ (-10.59 = -10.70 +   0.11)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 5

Location 17,572,985 – 17,573,081
Length 96
Sequences 3
Columns 96
Reading direction reverse
Mean pairwise identity 76.56
Mean single sequence MFE -15.02
Consensus MFE -11.10
Energy contribution -11.43
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.38
Structure conservation index 0.74
SVM decision value 0.41
SVM RNA-class probability 0.726600
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17572985 96 - 27905053
AUUACUGUUCAAAUUAAAAUGAGGGCUCUUAAGCCCAGUAUAUACGAGUAUAUCAUAAAGUUAGCUUUUUAAGUUCUUGAAAUAUUUUAGAUCUUU
.............((((((((.(((((....)))))........((((........((((....)))).......))))...))))))))...... ( -16.06)
>DroSec_CAF1 8156 76 - 1
-----UGUUCAAAUUAAAAUGAGGGCUUCUAAGCCCAGUAUGUACGAGUAUAUCAU---------------AAUUCUUAAAAUAUUUCAGAACUUU
-----.((((............(((((....))))).(.(((((....))))))..---------------..................))))... ( -13.90)
>DroSim_CAF1 7438 78 - 1
AUAGCUGUUCAAAUUAAAAUGAGGGCUUCUAAGCCCAGUAUAUAAGAGUAUA---U---------------AGUUCUUAAAAUAUUUCAGAACUUU
......((((............(((((....)))))......((((((....---.---------------..))))))..........))))... ( -15.10)
>consensus
AU__CUGUUCAAAUUAAAAUGAGGGCUUCUAAGCCCAGUAUAUACGAGUAUAUCAU_______________AGUUCUUAAAAUAUUUCAGAACUUU
......((((............(((((....))))).((((......))))......................................))))... (-11.10 = -11.43 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:28 2006