Locus 4515

Sequence ID 3R_DroMel_CAF1
Location 11,988,529 – 11,988,625
Length 96
Max. P 0.519331
window7375

overview

Window 5

Location 11,988,529 – 11,988,625
Length 96
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 80.64
Mean single sequence MFE -18.60
Consensus MFE -12.44
Energy contribution -12.80
Covariance contribution 0.36
Combinations/Pair 1.06
Mean z-score -1.29
Structure conservation index 0.67
SVM decision value -0.03
SVM RNA-class probability 0.519331
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11988529 96 + 27905053
CCCAGCCCCUCGGCACUCUCAAUUCUCUUUUC------UAUCAUGGCAUGAAAGUGAAUGCACUUUUAUAUGCAUGACGGCUAAUUACAGCGGCAAUUUGUC
....(((.........................------..(((((..(((((((((....)))))))))...)))))..(((......))))))........ ( -19.50)
>DroPse_CAF1 101390 87 + 1
----GCCUC-----UCUCUCUGUUUCGCUCUC------UAUCAUUUCAUGAAAGUGAAUGCACUUUUAUAUGCAUGACUGCUAAUUACAGCGACAAUUUGUC
----.....-----..((.((((...((..((------...(((...(((((((((....))))))))))))...))..)).....)))).))......... ( -15.50)
>DroSec_CAF1 94027 92 + 1
----GCCCCUCGGCACUCUCAAUUCUCUUUUC------UAUCAUGGCAUGAAAGUGAAUGCACUUUUAUAUGCAUGACGGCUAAUUACAGCGGCAAUUUGUC
----(((.........................------..(((((..(((((((((....)))))))))...)))))..(((......))))))........ ( -19.30)
>DroEre_CAF1 94054 92 + 1
----GCCCCUUCGCACUCUCAAUUCUCUUUUC------UAUCAUGGCAUGAAAGUGAAUGCACUUUUAUAUGCAUGACGGCUAAUUACAGCGGCAAUUUGUC
----(((.........................------..(((((..(((((((((....)))))))))...)))))..(((......))))))........ ( -19.30)
>DroAna_CAF1 116109 85 + 1
-----------------UUCAUUUCUCUCCUCUGUCGCUACCGUGGCAUGAAAGUGAAUGCACUUUUAUAUGCAUGACGGCUAAUUACAGCGACAAUUUGCG
-----------------...............(((((((.((((.(((((((((((....)))))))..))))...))))........)))))))....... ( -22.50)
>DroPer_CAF1 100593 87 + 1
----GCCUC-----UCUCUCUGUUUCGCUCUC------UAUCAUUUCAUGAAAGUGAAUGCACUUUUAUAUGCAUGACUGCUAAUUACAGCGACAAUUUGUC
----.....-----..((.((((...((..((------...(((...(((((((((....))))))))))))...))..)).....)))).))......... ( -15.50)
>consensus
____GCCCC_____ACUCUCAAUUCUCUUCUC______UAUCAUGGCAUGAAAGUGAAUGCACUUUUAUAUGCAUGACGGCUAAUUACAGCGACAAUUUGUC
........................................(((((..(((((((((....)))))))))...)))))..(((......)))........... (-12.44 = -12.80 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:12 2006