Locus 4231

Sequence ID 3R_DroMel_CAF1
Location 11,372,443 – 11,372,563
Length 120
Max. P 0.649855
window6854

overview

Window 4

Location 11,372,443 – 11,372,563
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.17
Mean single sequence MFE -42.26
Consensus MFE -40.76
Energy contribution -40.68
Covariance contribution -0.08
Combinations/Pair 1.06
Mean z-score -1.11
Structure conservation index 0.96
SVM decision value 0.24
SVM RNA-class probability 0.649855
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11372443 120 + 27905053
CUCCAACCGAAUUGACAGCCCAGCUGCGCUUUCCAUCGCGCACCACGCAGAUGCAGGCGCCACAUCCUCCCUCCUGGCACAUGAAUUUGGUGGCCGUGAGUUGGGCAUGCUCGCGGAUAA
......(((....(.((((((((((((((........)))).((((.(((((.((.(.((((............)))).).)).))))))))).....)))))))).)))...))).... ( -42.10)
>DroSec_CAF1 120083 120 + 1
CUCCAACCGAAUUGACUGCCCAGCUGCGCUUUCCAUCGCGCACCACGCAGAUGCAGGCGCCACAUCCUCCCUCCUGGCACAUGAAUUUAGUGGCCGUGAGUUGGGCAUGCUCGCGGAUAA
......(((....(..((((((((.((((((..(((((((.....))).)))).))))))...........((.((((.(((.......))))))).))))))))))..)...))).... ( -42.30)
>DroSim_CAF1 111118 120 + 1
CUCCAACCGAAUUGACUGCCCAGCUGCGCUUUCCAUCGCGCACCACGCAGAUGCAGGCGCCACAUCCUCCCUCCUGGCACAUGAAUUUGGUGGCCGUGAGUUGGGCAUGCUCGCGGAUAA
......(((....(..(((((((((((((........)))).((((.(((((.((.(.((((............)))).).)).))))))))).....)))))))))..)...))).... ( -42.80)
>DroEre_CAF1 107869 120 + 1
CUCCAACCGAAUUGACUGCCCAGCUGCGCUUUCCGUCGCGCACCACGCAAAUGCAGGCGCCACAUCCUCCCUCCUGGCACAUGAACUUGGUGGCCGUGAGCUGGGCGUGCUCCCGGAUGA
...((.(((....(..(((((((((((((........))))..(((((....)).(((((((............)))).(((.......))))))))))))))))))..)...))).)). ( -42.90)
>DroYak_CAF1 110189 120 + 1
CUCCAACCGAAUUGACUGCCCAGCUGCGCUUCCCAUCGCGCACCACGCAGAUGCAGGCGCCACAUCCUCCCUCCUGGCACAUGAACUUGGUGGCCGUGAGUUGGGCAUGCUCCCGGAUGA
...((.(((....(..(((((((((((((........))))..(((((....)).(((((((............)))).(((.......))))))))))))))))))..)...))).)). ( -41.20)
>consensus
CUCCAACCGAAUUGACUGCCCAGCUGCGCUUUCCAUCGCGCACCACGCAGAUGCAGGCGCCACAUCCUCCCUCCUGGCACAUGAAUUUGGUGGCCGUGAGUUGGGCAUGCUCGCGGAUAA
......(((....(..(((((((((((((........))))..(((((....)).(((((((............)))).(((.......))))))))))))))))))..)...))).... (-40.76 = -40.68 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:47 2006