Locus 1071

Sequence ID 3R_DroMel_CAF1
Location 3,293,167 – 3,293,266
Length 99
Max. P 0.500000
window1731

overview

Window 1

Location 3,293,167 – 3,293,266
Length 99
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 87.51
Mean single sequence MFE -18.30
Consensus MFE -11.98
Energy contribution -11.78
Covariance contribution -0.20
Combinations/Pair 1.10
Mean z-score -2.00
Structure conservation index 0.65
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3293167 99 + 27905053
AUAAAGAGAUAAAAUUUGUCGCUU-UUUGCGCUUCUUACACUUUGUAUAUGCACAUUAUUGGGUUAUGCACCUUGCUGAUAUUUUUAUUUCCCACGCAUU
.....(((((((((..((((((..-..(((((....(((.....)))...)).((....))......)))....)).)))).)))))))))......... ( -17.30)
>DroSec_CAF1 46058 82 + 1
AUAAAGAGAUAAAAUUUGUCGCUU-UUUGUGCUUCUUACACUUUGUGCAU-----------------GCACCUUGCUGAUAUUUUUAUUUCCCACGCAUU
.....(((((((((..((((((..-...((((....(((.....)))...-----------------))))...)).)))).)))))))))......... ( -16.30)
>DroSim_CAF1 47234 82 + 1
AUAAAGAGAUAAAAUUUGUCGCUU-UUUGUGCUUCUUACACUUUGUGCAU-----------------GCACCUUGCUGAUAUUUUUAUUUCCCACGCAUU
.....(((((((((..((((((..-...((((....(((.....)))...-----------------))))...)).)))).)))))))))......... ( -16.30)
>DroEre_CAF1 47835 99 + 1
AUAAAGAGAUAAAAUUUGUCGCUU-UUUGUGCUUCUUACACUUUGUAUAUGCACAUUAUUGGGUUAUGCACCUUGCUGAUAUUUUUAUUUCCCACGCAUU
.....(((((((((..((((((..-..(((((....(((.....)))...))))).....((((.....)))).)).)))).)))))))))......... ( -20.80)
>DroYak_CAF1 65490 100 + 1
AUAAAGAGAUAAAAUUUGUCGCUUUUUUGUGCUUCUUACACUUUGUAUAUGCACAUUAUUGGGUUAUGCACCUUGCUGAUAUUUUUAUUUCCCACGCAUU
.....(((((((((..((((((.....(((((....(((.....)))...))))).....((((.....)))).)).)))).)))))))))......... ( -20.80)
>consensus
AUAAAGAGAUAAAAUUUGUCGCUU_UUUGUGCUUCUUACACUUUGUAUAUGCACAUUAUUGGGUUAUGCACCUUGCUGAUAUUUUUAUUUCCCACGCAUU
.....(((((((((..((((.......(((((............)))))..................((.....)).)))).)))))))))......... (-11.98 = -11.78 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:48 2006