Locus 1666

Sequence ID 2R_DroMel_CAF1
Location 6,300,338 – 6,300,436
Length 98
Max. P 0.547748
window2784

overview

Window 4

Location 6,300,338 – 6,300,436
Length 98
Sequences 4
Columns 104
Reading direction forward
Mean pairwise identity 79.51
Mean single sequence MFE -28.71
Consensus MFE -23.05
Energy contribution -22.62
Covariance contribution -0.44
Combinations/Pair 1.18
Mean z-score -1.40
Structure conservation index 0.80
SVM decision value 0.03
SVM RNA-class probability 0.547748
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6300338 98 + 20766785
GGACUGUGAAAAACGGAUGGGCAAGUGGAAAGGGAAAUGGCAGAAGGAUGAUGGC------GAGGACGAGGACGAACCCACUGCCAGUCUGUUUGCUCCUGUCA
.(((.(.((.((((((((.((((.((((.........((.((.........)).)------)....((....))...)))))))).))))))))..))).))). ( -27.80)
>DroSec_CAF1 42802 92 + 1
GGACUGUGAAAAACGGAUGGGCAAGUGGAAAUGGCAAUGGAA--------AUGGC----AGGAGGGCGAGGACGAACCCACUGCCAGUCUGUUUGCUCCUGUCA
.(((.(.((.((((((((.((((.((((.....((.((....--------)).))----....(..((....))..))))))))).))))))))..))).))). ( -30.60)
>DroEre_CAF1 42964 104 + 1
GGACUGUGAAAAGCGGAUGGGCAAGUGGAAAUGGAAAUGGCAGGAGGACGAGGACAGGGAUGAUGACGAGGAGGAACCCACUGUCCCUCUGUUUGCUCCAGUCA
.(((((.((.(((((((.(((((.((((............((...(..(........)..)..))............))))))))).)))))))..))))))). ( -29.75)
>DroYak_CAF1 46767 91 + 1
GGACUGUGAAAAAUGGACGGGCAAGUGGAAAUAAAAAUGGCAGGAGGACGG-------------GACGAAGAGGAACCCACUGCCAGUCUGUUUGCUCCUGUCA
...............((((((((((..((........((((((..((.(..-------------........)...))..)))))).))..))))).)).))). ( -26.70)
>consensus
GGACUGUGAAAAACGGAUGGGCAAGUGGAAAUGGAAAUGGCAGGAGGACGAUGGC______GAGGACGAGGACGAACCCACUGCCAGUCUGUUUGCUCCUGUCA
.(((.(.((.((((((((.((((.((((.................................................)))))))).))))))))..))).))). (-23.05 = -22.62 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

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