Locus 4062

Sequence ID 2R_DroMel_CAF1
Location 13,408,870 – 13,408,990
Length 120
Max. P 0.621768
window6544

overview

Window 4

Location 13,408,870 – 13,408,990
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.39
Mean single sequence MFE -40.27
Consensus MFE -23.20
Energy contribution -23.18
Covariance contribution -0.02
Combinations/Pair 1.52
Mean z-score -2.08
Structure conservation index 0.58
SVM decision value 0.18
SVM RNA-class probability 0.621768
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13408870 120 + 20766785
UCCUGCGCGGCAGGACGAUUUUUAUGAAGAAAUCAUGUUCGGCAACAGGUUGUUCGAGUACGAAUUCCAUGUGCCAAGUGCGGCGUUUGGUACUUUUGCUUAUGCCACAAGUGAACUCCU
((((((...)))))).(((((((....)))))))..((((((((.((((..(((((....))))).)).))))))...((.(((((..((((....)))).))))).))...)))).... ( -39.00)
>DroVir_CAF1 18550 120 + 1
UGCGACGGGGUAUUACAAUGAGCAUGUGAAACUCAUGCUCGUUAAGCGGUUCCAGUAGCGCGAAUUCCAUGUGCAUAGUGCGCCGUUUGGGAUUCUUGCUGAGACCGCAAUGGAAACUCU
......(((((.....((((((((((.......))))))))))..(((((..((((((...((((((((.((((.....))))....))))))))))))))..))))).......))))) ( -48.20)
>DroSec_CAF1 6368 120 + 1
UCCUGCGCGGCAGGAUGAUUUUCAUAAUGAAAUCAUGUUCGGCAACAGGUUGUUCGAGUACGAAUUCCAUGUGCCAAGUGCGGCGUUUGGCACUUUUGCUUAUGCCACAAGUGAACUCCU
((((((...))))))(((((((......))))))).((((((((.((((..(((((....))))).)).))))))...((.(((((..((((....)))).))))).))...)))).... ( -40.70)
>DroSim_CAF1 6999 120 + 1
UCCUGCGCGGCAGGAUGAUUUUCAUAAAGAAAUCAUGUUCGGCAACAGGUUGUUCGAGUACGAAUUCCAUGUGCCAAGUGCGGCGUUUGGCACUUUUGCUUAUGCCACAAGUGAACUCCU
((((((...))))))(((((((......))))))).((((((((.((((..(((((....))))).)).))))))...((.(((((..((((....)))).))))).))...)))).... ( -40.90)
>DroEre_CAF1 6329 120 + 1
GCCUGCGCGGCAGGACGAUUUUCAUAAAGAAAUCAUGUUCGGCAACUGGUUGUUUGAGUACGAACUCCAUGUGCCAAGUGCGGCGCUUGACACUUUUGCUCACGCCACAAUUAAACUCCU
(((.((((....((((((((((......))))))..))))((((..(((..(((((....))))).)))..))))..)))))))((.(((((....)).))).))............... ( -34.20)
>DroYak_CAF1 6416 120 + 1
GUCGGCGUGGCAGGAUGAUUUUCAUAAAGAAAUCAUGUUCGGCAACAGGUUGUUUGAGCUUAAACUCCAUGUGCCAGGUGCGGCGUUUGGCACUUUUGCUAACGCCACAAUUGAAGUCCU
((.(((((((((((((((((((......))))))).(((((((((....))).))))))......)))..((((((..((...))..))))))...)))).)))))))............ ( -38.60)
>consensus
UCCUGCGCGGCAGGACGAUUUUCAUAAAGAAAUCAUGUUCGGCAACAGGUUGUUCGAGUACGAAUUCCAUGUGCCAAGUGCGGCGUUUGGCACUUUUGCUUAUGCCACAAGUGAACUCCU
....((((.((((((((..((((.....))))...)))))((((...((..(((((....))))).))...))))...))).)))).((((............))))............. (-23.20 = -23.18 +  -0.02)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:51 2006