Locus 547

Sequence ID 3R_DroMel_CAF1
Location 2,044,538 – 2,044,643
Length 105
Max. P 0.833881
window872

overview

Window 2

Location 2,044,538 – 2,044,643
Length 105
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 74.68
Mean single sequence MFE -14.24
Consensus MFE -5.36
Energy contribution -8.44
Covariance contribution 3.08
Combinations/Pair 1.04
Mean z-score -1.95
Structure conservation index 0.38
SVM decision value 0.72
SVM RNA-class probability 0.833881
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2044538 105 + 27905053
CUCCACUCUAAUUGAAUUUCUCAGCACUCUCAUUCUUCAUUUAUAAAAUAUCCUAUUUUUAUUUUUGAAGGAUAACGCUUGAAAUUGCUAUCC-----CACCUUCAGACU
..............((((((..(((......((((((((...((((((........))))))...))))))))...))).)))))).......-----............ ( -15.20)
>DroSec_CAF1 187740 109 + 1
CUCUGCUCUAAUUGAAUUUCUCAGCAGUAUCAUUCUUCACUUAUAAAAUAUCCUCUUUUUAUUUUUGAAGGAUAACGCUUGAAAUUUGUAUCCCAUCCCACCUUUAAAC-
.............(((((((..(((.((...((((((((...((((((........))))))...)))))))).))))).)))))))......................- ( -16.90)
>DroSim_CAF1 192640 109 + 1
CUCUGCUCUAAUUGAAUUUCUCAGCAGUAUCAUUCUUCACUUAUAAAAUAUCCUCUUUUUAUUUUUGAAGGAUAACGCUUGAAAUUUGUAUCCCACCCCACCUUUAAAC-
.............(((((((..(((.((...((((((((...((((((........))))))...)))))))).))))).)))))))......................- ( -16.90)
>DroEre_CAF1 187875 103 + 1
CUCUGCUCUAAUUGAAUUUCUCAGCACGCUCAUUGUUCAUUUAUAAAAUAUCCUGUUUUAAUUUCCUUGGGUUAACGCUUGAAAUUGUUUUCC-------CUAUCGGAAA
........(((.(((((.....((....))....))))).)))((((((.....)))))).(((((..(((..((((........))))..))-------)....))))) ( -14.60)
>DroYak_CAF1 191183 90 + 1
CUCUGCUCUAAUUGAAUUUCUCAGCAA--------------UAUAAAAUAUUUCUCCUUAAUU-CAUAUAGAUACCGCUUGAAAUUGUUAUCCUA-----CGUUCUGAAG
.((.((((((..((((((....((.((--------------(((...))))).))....))))-))..))))....))..)).............-----.......... (  -7.60)
>consensus
CUCUGCUCUAAUUGAAUUUCUCAGCACUAUCAUUCUUCACUUAUAAAAUAUCCUCUUUUUAUUUUUGAAGGAUAACGCUUGAAAUUGGUAUCC_A___CACCUUCAGAC_
..............((((((..(((......((((((((...((((((........))))))...))))))))...))).))))))........................ ( -5.36 =  -8.44 +   3.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:45 2006