Locus 5088

Sequence ID X_DroMel_CAF1
Location 13,297,337 – 13,297,439
Length 102
Max. P 0.946503
window8276

overview

Window 6

Location 13,297,337 – 13,297,439
Length 102
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 92.78
Mean single sequence MFE -19.06
Consensus MFE -17.22
Energy contribution -17.10
Covariance contribution -0.12
Combinations/Pair 1.08
Mean z-score -1.52
Structure conservation index 0.90
SVM decision value 1.36
SVM RNA-class probability 0.946503
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13297337 102 - 22224390
----GAGCGAGAAGUGCUCAGGACACAACAUUUUCAGCGCUUAGUCACGCACAAAACUUUUUCGAAUAAUAUUAUCUGAAGAGG--GGAAAAAUAAAAUAAAAUAAAA
----..(((.((((((((.((((.......)))).))))))...)).)))......((((((((.(((....))).))))))))--...................... ( -18.40)
>DroSec_CAF1 12556 104 - 1
UAGAGAGCGAGAAGUGCUCAGAA--CAACAUUUUCAGCGCUUAGUCACGCACAAAACUUUUUCGAAUAAUAUUAUCUGAAGAGG--GGAAAAAUAAAAUAAAAUAAAA
......(((.((((((((.((((--.....)))).))))))...)).)))......((((((((.(((....))).))))))))--...................... ( -19.10)
>DroSim_CAF1 6469 104 - 1
UAGAGAGCGAGAAGUGCUCAGGA--CAACAUUUUCAGCGCUUAGUCACGCACAAAACUUUUUCGAAUAAUAUUAUCUGAAGAGG--GGAAAAAUAAAAUAAAAUAAAA
......(((.((((((((.((((--.....)))).))))))...)).)))......((((((((.(((....))).))))))))--...................... ( -18.70)
>DroEre_CAF1 7487 100 - 1
----AAGCGAGAAGUGCUCAGGC--CAACAUUUUCAGCGCUUAGUCACGCACAAAACUUUUUCGAAUAAUAUUAUCUGAAGAGG--GGAAAAAUAAAAUAAAAUAAAA
----..(((.((((((((.(((.--......))).))))))...)).)))......((((((((.(((....))).))))))))--...................... ( -17.20)
>DroYak_CAF1 6770 106 - 1
UUCAGAGCGAGAAGUGCUCAGGA--AAACAUUUUCGGCGCUUAGUCACGCACCGAACUUUUUCGAAUAAUAUUAUCUGAAGAGGGAGGAAAACUAAAAUAAAAUAAAA
......(((.((((((((.((((--.....)))).))))))...)).))).((...((((((((.(((....))).))))))))..)).................... ( -21.90)
>consensus
U__AGAGCGAGAAGUGCUCAGGA__CAACAUUUUCAGCGCUUAGUCACGCACAAAACUUUUUCGAAUAAUAUUAUCUGAAGAGG__GGAAAAAUAAAAUAAAAUAAAA
......(((.((((((((.((((.......)))).))))))...)).)))......((((((((.(((....))).))))))))........................ (-17.22 = -17.10 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:51 2006