Locus 1889

Sequence ID 3L_DroMel_CAF1
Location 5,287,974 – 5,288,064
Length 90
Max. P 0.934463
window2943

overview

Window 3

Location 5,287,974 – 5,288,064
Length 90
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 72.21
Mean single sequence MFE -13.15
Consensus MFE -7.05
Energy contribution -7.63
Covariance contribution 0.59
Combinations/Pair 1.15
Mean z-score -1.90
Structure conservation index 0.54
SVM decision value 1.24
SVM RNA-class probability 0.934463
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5287974 90 + 23771897
GCCAACCAAACAGGACCUUACAUCCU-----UCAAAGGGUAUUUUUUGGUACAACCAGUCGCAAAAAAAAAAAAAACUUCAAACAAUAUCCUGUU
........(((((((......(((((-----....))))).((((((((.((.....))).)))))))....................))))))) ( -15.40)
>DroPse_CAF1 72751 90 + 1
ACCAUCCAGUCAU---CAUAUCUCUUCCCAAUCAAAGGGUAUCUCAGAGUAAAGCAAAAAGAA--AAGAAAAAACACCCUAAACAACAUCCUGGC
.....((((....---.....((((.(((.......)))......))))..............--..(......)...............)))). (  -6.70)
>DroSec_CAF1 35325 84 + 1
GCCAACCAAACAGGACCUUACAUAUU-----UCAAAGGGUAUUUUUUGGUACAACCAGUCGAA------AAAAAAACUUCAAACAAUAUCCUGUU
........(((((((((((.......-----...))))...((((((.(.((.....))).))------))))...............))))))) ( -13.40)
>DroSim_CAF1 35660 78 + 1
----ACCAAACAGGACCUUACAUCCU-----UCAAAGGGUAUUUUUUGGUACAACCAGUCGAA------A--AAAACUUCAAACAAUAUCCUGUU
----....(((((((......(((((-----....))))).((((((.(.((.....))).))------)--))).............))))))) ( -14.80)
>DroEre_CAF1 35001 87 + 1
CCCAACGAAACAUGCGCUUACAUCCUUUCCAUCACAGGGUAUUUUUUGGUACAACCAGUCGGA------A--AAAACUUCCAACAAUAUCCUGUU
......((((.(((......)))..))))....((((((((((...(((.....)))((.(((------(--.....)))).)))))))))))). ( -18.00)
>DroYak_CAF1 36606 78 + 1
CCCAACGAAACAAGCGCUUACAUCUUGCCCAUCAAAGGGUAUUUUUUGGUACA---------A------A--AAAACUUCAAACAAUAUCCUGUU
.............(.((.........)).).....((((((((.(((((....---------.------.--......))))).))))))))... ( -10.60)
>consensus
CCCAACCAAACAGGACCUUACAUCCU_____UCAAAGGGUAUUUUUUGGUACAACCAGUCGAA______A__AAAACUUCAAACAAUAUCCUGUU
...................................((((((((.(((((.............................))))).))))))))... ( -7.05 =  -7.63 +   0.59)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:11 2006