Locus 6838

Sequence ID X_DroMel_CAF1
Location 17,019,285 – 17,019,401
Length 116
Max. P 0.976858
window11198

overview

Window 8

Location 17,019,285 – 17,019,401
Length 116
Sequences 4
Columns 119
Reading direction reverse
Mean pairwise identity 70.15
Mean single sequence MFE -25.30
Consensus MFE -15.93
Energy contribution -15.93
Covariance contribution -0.00
Combinations/Pair 1.20
Mean z-score -1.84
Structure conservation index 0.63
SVM decision value 1.78
SVM RNA-class probability 0.976858
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17019285 116 - 22224390
AGAAGUAAAACAAACUCGCUCAAUUCACUGGUUUGUUCUACACUGAGCGAAAAGUGAAGGUGUGUUGUAAGAUUCAAUUUCAUUUUAAAUAAGGUGGGGUUUA---UUUAUAGCAUUGC
....((((........((((...((((((..(((((((......))))))).))))))))))(((((((((....(((..((((((....))))))..)))..---))))))))))))) ( -29.10)
>DroSec_CAF1 24109 91 - 1
AGAAGUAAAACAAACUCGCUCAAUUCACUGGUUUGUUCUACACUGAGCAAAAACUGGGUGUGUGUUU---------AUUUGAUU----------------UCA---UAUAUAGCAUUGC
.(((((.(((.((((.(((...(((((....(((((((......)))))))...)))))))).))))---------.))).)))----------------)).---............. ( -18.60)
>DroSim_CAF1 18078 91 - 1
AGAAGUAAAACAAACUCGCUCAAUUCACUGGUUUGUUCUGCACUGAGCAAAAAGUGGGUGUGUGUUU---------AUUUGAUU----------------UUA---UUUAUAGCAUUGC
..((((((((((((..(((...(((((((..(((((((......))))))).)))))))..)))...---------.)))).))----------------)))---))).......... ( -23.40)
>DroEre_CAF1 24580 113 - 1
AGAAAUAAAAGAAGCUCGCUCAACUCACUGCUUUGUUCUACACUGAGCGAAAAGUGGAUGUGUGUUGUGCUUAGCCAUUUCAUUUUGCAUGAGUAGAGCCUAACAUCAUUUAA------
.....((((.((.(...((((.(((((.(((.((((((......))))))((((((((.(((.((((....))))))))))))))))))))))).))))....).)).)))).------ ( -30.10)
>consensus
AGAAGUAAAACAAACUCGCUCAAUUCACUGGUUUGUUCUACACUGAGCAAAAAGUGGAUGUGUGUUG_________AUUUCAUU________________UUA___UAUAUAGCAUUGC
............(((.(((...(((((((..(((((((......))))))).)))))))))).)))..................................................... (-15.93 = -15.93 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:10 2006