Locus 7846

Sequence ID 3R_DroMel_CAF1
Location 20,999,116 – 20,999,211
Length 95
Max. P 0.586307
window12645

overview

Window 5

Location 20,999,116 – 20,999,211
Length 95
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 80.94
Mean single sequence MFE -25.42
Consensus MFE -16.66
Energy contribution -17.78
Covariance contribution 1.12
Combinations/Pair 1.14
Mean z-score -1.67
Structure conservation index 0.66
SVM decision value 0.11
SVM RNA-class probability 0.586307
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20999116 95 + 27905053
GCAAUUCAAAUACGCACAGCUCUAGUUUCGGCUUUGGGAUAGGAUUUACCGGUAUAAGCCAAGAUCUUUCAGGAGGAUCUGUGACUAGGUAUGCA
.............(((..((.((((((.((((((....((.((.....)).))..))))).((((((((...))))))))).)))))))).))). ( -25.40)
>DroSec_CAF1 3760 95 + 1
GCAAUUCAAAUACGCACAGCUCUAGUUUCGGCUUUGGGAUAGGAUUUGCCGGUAUAAGCCAAGAUCUUUCAGGAGGAUCUGAGACUAGGUAUGCA
.............(((..((.(((((((((((((....((.((.....)).))..))))).((((((((...)))))))))))))))))).))). ( -29.70)
>DroSim_CAF1 3793 95 + 1
GCAAAGCAAAUACGCACAGCUCUAGUUUCGGCUUUGGGACAGGAUUUGGCGGUAUAAGCCAAGAUCUUUCAGAAGGAUCUGAGACUAGGUAUGCA
(((..((......))...((.((((((((((((((..((.(((.((((((.......)))))).))).))..))))..)))))))))))).))). ( -32.20)
>DroEre_CAF1 3809 84 + 1
GAAAUUCAAAUACACAGAGCUCUAGUUUCGGUUUG-GGAUAGGAUUU---GGUAUAAGCCUAGAUCUGUCA---GGAUCUAAGACUGGGUA----
..................((.(((((((..(.((.-.(((((.((((---(((....))).))))))))).---.)).)..))))))))).---- ( -20.30)
>DroYak_CAF1 4559 79 + 1
AAAAUUCAAAUGCACAGAGCUCUGGUUUCGGCUUU-G-----GAUUU---GGUAUAAGCCUAGAUCUUGCA---GGAUCUAUGUGUAGGUA----
.(((((((((.((.(..(((....)))..))))))-)-----)))))---(((....)))(((((((....---)))))))..........---- ( -19.50)
>consensus
GCAAUUCAAAUACGCACAGCUCUAGUUUCGGCUUUGGGAUAGGAUUU__CGGUAUAAGCCAAGAUCUUUCAG_AGGAUCUGAGACUAGGUAUGCA
..................((.(((((((((((((.....................))))).(((((((.....)))))))))))))))))..... (-16.66 = -17.78 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:56:14 2006