Locus 1376

Sequence ID X_DroMel_CAF1
Location 4,116,979 – 4,117,099
Length 120
Max. P 0.612367
window2195

overview

Window 5

Location 4,116,979 – 4,117,099
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 87.68
Mean single sequence MFE -41.35
Consensus MFE -33.28
Energy contribution -35.65
Covariance contribution 2.37
Combinations/Pair 1.05
Mean z-score -1.50
Structure conservation index 0.80
SVM decision value 0.16
SVM RNA-class probability 0.612367
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4116979 120 - 22224390
AUUCUUUCGGUUGCUUUUUGCUAUCUAUGGUUGGCAGCACAGAGCCGCUUCUCUUCUCGAGAAGGAGGCAGUUCAGGACUCAAAGGAGCAGUGCGUCGCCAUGCUGAUUACCAGGCCAUA
........(((.((.....)).)))((((((((((.((((.((((.(((((.((((....))))))))).))))..(.(((....)))).))))...))))..(((.....))))))))) ( -40.60)
>DroSec_CAF1 8103 118 - 1
GUACUUUCGGUUGCUUUUUGCGAUCUAUGGUUGGCAGCACAGAGCCGCUUCGCUU--CGAGAAGGAGGCAGUUCAGGGCUCAAAGGAGCAGUGCGUCGCCAUGCUGAUUACCAGGCCAUA
........((((((.....))))))((((((((((.((((.((((.(((((.(((--....)))))))).))))...((((....)))).))))...))))..(((.....))))))))) ( -45.30)
>DroSim_CAF1 3503 118 - 1
GUACUCUCGGUUGCUUUUUGCGAUCUAUGGUUGGCAGCACAGAGCCGCUUCGCUU--CAAGAAGGAGGCAGUUCAGGGCUCAAAGGAGCAGUGCGUCGCCAUGCUGAUUACCAGGCCAUA
........((((((.....))))))((((((((((.((((.((((.(((((.(((--....)))))))).))))...((((....)))).))))...))))..(((.....))))))))) ( -45.30)
>DroYak_CAF1 3646 104 - 1
--------------CUUUUGCGAUCUUUAGUUGCCAGCACAGAACCGCUUCUCUU--GGAGAAGGAGGCAGUUCAGGGCUCAAAGGAGCAGUGCGUCGCCAUGCUGAUUACCAGGCCGUA
--------------....((((..(((((((.((..((((.((((.(((((.(((--....)))))))).))))...((((....)))).))))...))...))))).....))..)))) ( -34.20)
>consensus
GUACUUUCGGUUGCUUUUUGCGAUCUAUGGUUGGCAGCACAGAGCCGCUUCGCUU__CGAGAAGGAGGCAGUUCAGGGCUCAAAGGAGCAGUGCGUCGCCAUGCUGAUUACCAGGCCAUA
........((((((.....))))))((((((((((.((((.((((.(((((.(((......)))))))).))))...((((....)))).))))...))))..(((.....))))))))) (-33.28 = -35.65 +   2.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:47 2006