Locus 4000

Sequence ID 2R_DroMel_CAF1
Location 13,230,378 – 13,230,468
Length 90
Max. P 0.819058
window6456

overview

Window 6

Location 13,230,378 – 13,230,468
Length 90
Sequences 3
Columns 111
Reading direction forward
Mean pairwise identity 82.28
Mean single sequence MFE -20.93
Consensus MFE -16.55
Energy contribution -17.00
Covariance contribution 0.45
Combinations/Pair 1.04
Mean z-score -1.89
Structure conservation index 0.79
SVM decision value 0.67
SVM RNA-class probability 0.819058
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13230378 90 + 20766785
AAUC-------------------UAGAAUGUGUUUAUUAACUAUUAAUAAGUGUUUCCUGCACAAUUGUAUUUUCUGCUAUUGUUAAUGGUUCGAUAUACGCAAGAUCA--
.(((-------------------(....(((((.((((((((((((((((((((.....))))....(((.....)))..)))))))))))).)))).)))))))))..-- ( -21.50)
>DroSec_CAF1 10834 111 + 1
AAUCUGAAUACUGUAUUAAACACUAGAAUGUGUUUAUUAACUAUUAAUAAGUGUUUCCUGCACAAUUGUAUUUCCUCCUAUUGUUAAUGGUUUGAAAUACGCAAGAUAAAG
.((((.((((...((.(((((((......))))))).))..)))).....((((.....))))....(((((((..((..........))...)))))))...)))).... ( -20.80)
>DroSim_CAF1 12100 111 + 1
AAUCUGAAUACUAUAUUAAACACUAGAAUGUGUUUAUUAACUAUUAAUAAGUGUUUCCUGCACAAUUGUUUUCCCUGCUAUUGUUAAUGGUUUGAAAUACACAAGAUAAAG
.((((...........(((((((......)))))))..((((((((((((((((.....))))....((.......))..))))))))))))...........)))).... ( -20.50)
>consensus
AAUCUGAAUACU_UAUUAAACACUAGAAUGUGUUUAUUAACUAUUAAUAAGUGUUUCCUGCACAAUUGUAUUUCCUGCUAUUGUUAAUGGUUUGAAAUACGCAAGAUAAAG
............................(((((.....((((((((((((((((.....))))....(((.....)))..))))))))))))......)))))........ (-16.55 = -17.00 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:21 2006