Locus 3725

Sequence ID 3L_DroMel_CAF1
Location 10,792,196 – 10,792,312
Length 116
Max. P 0.959695
window5819

overview

Window 9

Location 10,792,196 – 10,792,312
Length 116
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 95.86
Mean single sequence MFE -30.42
Consensus MFE -29.38
Energy contribution -29.58
Covariance contribution 0.20
Combinations/Pair 1.07
Mean z-score -1.42
Structure conservation index 0.97
SVM decision value 1.50
SVM RNA-class probability 0.959695
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10792196 116 + 23771897
AUCCAACCCCACUUGUUUGGACUGCCGGCGAAUGUUCGUUCGUGGUUUGCUCUGUGUGCGUUCAUUGAAUUAUUUCAAGCAUGCCGAGCAUUUAUUAGCACUGAAACAAAAAAUCC
............((((((.(..((((.((((((....)))))).)..(((((.((((((.....(((((....))))))))))).))))).......))).).))))))....... ( -29.40)
>DroSec_CAF1 1497 115 + 1
-UCCAACCCUACUUGUUUGGACUGCCGGCGAAUGUUCGUUCGUGGUUCGCUCUGUGUGCGUUCAUUGAAUUAUUUCAAGCAUGCCGAGCAUUUAUUAGCACUGAAACAAAAAAUCC
-...........((((((((((..(..((((....))))..)..))))((((.((((((.....(((((....))))))))))).))))..............))))))....... ( -32.00)
>DroSim_CAF1 3150 116 + 1
AUCCAACCCCACUUGUUUGGACUGCCGGCGAAUGUUCGUUCGUGGUUCGCUCUGUGUGCGUUCAUUGAAUUAUUUCAAGCAUGCCGAGCAUUUAUUAGCACUGAAACAAAAAAUCC
............((((((((((..(..((((....))))..)..))))((((.((((((.....(((((....))))))))))).))))..............))))))....... ( -32.00)
>DroEre_CAF1 3146 114 + 1
AUCCAACCCCACUUGUUUGGACUGCCGGCGAAUGUUCGUUCGUGGUUCGCUCUGU--GUGUUCAUUGAAUUAUUUCAAGCAUGCCGAGCACUUAUUAGCACUGAAACAAAAAAUAU
............((((((((((..(..((((....))))..)..))))((((.((--((((...(((((....))))))))))).))))..............))))))....... ( -31.40)
>DroYak_CAF1 1604 116 + 1
AUCCAACCCCACUUGUUUGGCCUGCCGGCGAAUGUUCGUUCGUGGUUCGCUCUGUGUGUGUUCAUUGAAUUAUUUCAAGCAUGCCGAGCACUUAUUAGCACUGAAACAAAAAAUAU
............((((((.(..((((.((((((....)))))).)...((((.((((((.....(((((....))))))))))).))))........))).).))))))....... ( -27.30)
>consensus
AUCCAACCCCACUUGUUUGGACUGCCGGCGAAUGUUCGUUCGUGGUUCGCUCUGUGUGCGUUCAUUGAAUUAUUUCAAGCAUGCCGAGCAUUUAUUAGCACUGAAACAAAAAAUCC
............((((((((((..(..((((....))))..)..))))((((.((((((.....(((((....))))))))))).))))..............))))))....... (-29.38 = -29.58 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:15 2006