Locus 7487

Sequence ID X_DroMel_CAF1
Location 18,670,908 – 18,671,011
Length 103
Max. P 0.947867
window12281

overview

Window 1

Location 18,670,908 – 18,671,011
Length 103
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.61
Mean single sequence MFE -33.46
Consensus MFE -21.22
Energy contribution -22.42
Covariance contribution 1.20
Combinations/Pair 1.07
Mean z-score -2.78
Structure conservation index 0.63
SVM decision value 1.38
SVM RNA-class probability 0.947867
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18670908 103 + 22224390
GCCACAAGUGUAGCUGAUUUAUGAGUCAGGGCAUGGCCAUAAUAAAAGAAACG-----------------GUCGAACAAACGCGGCUCAUUCAUAGCCAAAAGUGGUAGUGGUAGUGGCA
(((((..((((..((((((....)))))).)))).(((((.......(((..(-----------------((((........)))))..)))...((((....)))).))))).))))). ( -33.30)
>DroSec_CAF1 15839 103 + 1
GCCACAAGUGUAGCUGAUUUAUGAGUCAGGGCAUGGCCAUAAUAAAAGAAACG-----------------GUCGAACAAACGCGGCUCAUUCAUAGCCAAAAGUGGUAGUGGUAGUGGCA
(((((..((((..((((((....)))))).)))).(((((.......(((..(-----------------((((........)))))..)))...((((....)))).))))).))))). ( -33.30)
>DroSim_CAF1 13995 103 + 1
GCCACAAGUGUAGCUGAUUUAUGAGUCAGGGCAUGGCCAUAAUAAAAGAAACG-----------------GUCGAACAAACGCGGCUCAUUCAUAGCCAAAAGUGGUAGUGGUAGUGGCA
(((((..((((..((((((....)))))).)))).(((((.......(((..(-----------------((((........)))))..)))...((((....)))).))))).))))). ( -33.30)
>DroEre_CAF1 16048 120 + 1
GCCACAACUGUAGCUGAUUUACGAGUCAGGGCAUGUUCAUAUCGAAUGAAACAUAGCCGUUUCGACAGCCGUCGAACAAACGCGACUCAUUCAUGGCCAGAAGUGGUAGUGGUAGUGGCA
(((((.((.((((.....))))(((((..(((((((((((.....))).))))).)))(((.((((....)))))))......)))))...(((.((((....)))).))))).))))). ( -40.90)
>DroYak_CAF1 16075 90 + 1
GCCACAAGUGUAGCUGAUUUAUGAGUCAGGGCAUGGCCAUAAUAAAAGAAACA-----------------GGCGAACAAACGCGGCUCAUUCACGGCCAAAAGUGGU-------------
(((((...((..((((....(((((((..(((...)))...............-----------------.(((......))))))))))...))))))...)))))------------- ( -26.50)
>consensus
GCCACAAGUGUAGCUGAUUUAUGAGUCAGGGCAUGGCCAUAAUAAAAGAAACG_________________GUCGAACAAACGCGGCUCAUUCAUAGCCAAAAGUGGUAGUGGUAGUGGCA
(((((..((((..((((((....)))))).)))).(((((..............................(.((......)))((((.......))))....))))).......))))). (-21.22 = -22.42 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:08 2006