Locus 1800

Sequence ID 3L_DroMel_CAF1
Location 5,077,404 – 5,077,515
Length 111
Max. P 0.623755
window2797

overview

Window 7

Location 5,077,404 – 5,077,515
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.96
Mean single sequence MFE -21.77
Consensus MFE -19.27
Energy contribution -18.91
Covariance contribution -0.36
Combinations/Pair 1.11
Mean z-score -1.25
Structure conservation index 0.89
SVM decision value 0.18
SVM RNA-class probability 0.623755
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5077404 111 + 23771897
UCUCUAUUGAUACAAUUUGUUGAUUUCAAAAUGUAAAAUCAGCAAUCAUUUUUGUGCAAUACUUUCGCUCCAGUGGCAUCCGUUUCGGUUACUGCUUUUUGG---------CUCACAAAA
....(((((.(((((.((((((((((.........))))))))))......)))))))))).....(..((((.((((.(((...)))....))))..))))---------..)...... ( -21.50)
>DroSec_CAF1 283796 111 + 1
UCUCUAUUGAUACAAUUUGUUGAUUUCAAAAUGUAAAAUCAGCAAUCAUUUUUGUGCAAUACUUUCGCUCCAGUGGCAUCCGUUUCGGUUACUGCUUUUUGG---------CUCACAAAA
....(((((.(((((.((((((((((.........))))))))))......)))))))))).....(..((((.((((.(((...)))....))))..))))---------..)...... ( -21.50)
>DroSim_CAF1 305067 111 + 1
UCUCUAUUGAUACAAUUUGUUGAUUUAAAAAUGUAAAAUCAGCAAUCAUUUUUGUGCAAUACUUUCGCUUCAGUGGCAUCCGUUUCGGUUACUGCUUUUUGG---------CUCACAAAA
....(((((.(((((.((((((((((.........))))))))))......)))))))))).....(((..((..(...(((...)))...)..))....))---------)........ ( -21.80)
>DroEre_CAF1 290849 120 + 1
CCACUAUUUAUACAAUUUGUUGAUAUCAAAAUGUAAAAUCAGCAAUCAUUUUUGUGCAAUACUCUCGCUUCAGUGGCAUCCGUUUCGGUUACUGCCUUUUGGCCACAUAUGCUCACAAAA
................((((((((.............))))))))....(((((((..(((.....(((.....((((.(((...)))....))))....)))....)))...))))))) ( -20.22)
>DroYak_CAF1 295067 120 + 1
CCUCUAUUGAUACAAUUUGUUGAUUUAAAAAUGUGAAAUCAGCAAUCAUUUUUGUGAAAUACUUUCGCUCCAAUGGCAUCCGUUUCGGUUACUGCUUUUUGGACACACAUGCUCACAAAA
................((((((((((.........))))))))))....((((((((...........(((((.((((.(((...)))....))))..))))).........)))))))) ( -23.85)
>consensus
UCUCUAUUGAUACAAUUUGUUGAUUUCAAAAUGUAAAAUCAGCAAUCAUUUUUGUGCAAUACUUUCGCUCCAGUGGCAUCCGUUUCGGUUACUGCUUUUUGG_________CUCACAAAA
................((((((((((.........))))))))))....(((((((.............((((.((((.(((...)))....))))..))))...........))))))) (-19.27 = -18.91 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:52 2006