Locus 3633

Sequence ID 2L_DroMel_CAF1
Location 10,584,381 – 10,584,471
Length 90
Max. P 0.525289
window5729

overview

Window 9

Location 10,584,381 – 10,584,471
Length 90
Sequences 5
Columns 90
Reading direction forward
Mean pairwise identity 88.09
Mean single sequence MFE -29.83
Consensus MFE -21.00
Energy contribution -21.36
Covariance contribution 0.36
Combinations/Pair 1.04
Mean z-score -1.72
Structure conservation index 0.70
SVM decision value -0.02
SVM RNA-class probability 0.525289
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10584381 90 + 22407834
CUGGGACACUUGGAAAGGCGAAAGCCCACUUGGUUGAGUGGCUUUGGGAAAACCUAGGAGGACAGUUGUCACCCGCUCAGCCACUAGCUU
((((............(((....)))....((((((((((((((((((....)))).)))(((....)))..)))))))))))))))... ( -34.80)
>DroSec_CAF1 71842 90 + 1
CUGGGACACUUGGAAAGCCGAAAGCCCACUUGGUUGAGUGGCUUCGGGAAAACCUAGGAGGACAGUUGUCACCCGCUCAGCCACUAGCUU
.((((.(..((((....))))..)))))..((((((((((((((((((....))).))))(((....)))..)))))))))))....... ( -34.20)
>DroSim_CAF1 72361 90 + 1
CUGGGACACUUGGAAAGCCGAAAGCCCACUUGGUUGAGUGGCUUCGGGAAAACCUAGGAGGACAGUUGUCACCCGCUCAGCCACUAGCUU
.((((.(..((((....))))..)))))..((((((((((((((((((....))).))))(((....)))..)))))))))))....... ( -34.20)
>DroEre_CAF1 72802 79 + 1
CUGGGAGACAUGGAA-------AGCCCACUUGGUUGAGUGGCUUCAGAAAAACGUAG---GACAGUUGUCAC-CGCUCAGCCACUAGCUU
((((......(((..-------...)))..(((((((((((((.(........).))---(((....))).)-))))))))))))))... ( -24.10)
>DroYak_CAF1 74700 80 + 1
CUGGGACCCUUGGAA-------AGCCCACUUGGUUGAGUGGCUUCAGAAAAACCUAG---GACAGUUGUCACCCGCUGAGCCACUAGUUU
....((((..(((..-------...)))...)))).(((((((.(((..........---(((....))).....))))))))))..... ( -21.86)
>consensus
CUGGGACACUUGGAAAG_CGAAAGCCCACUUGGUUGAGUGGCUUCGGGAAAACCUAGGAGGACAGUUGUCACCCGCUCAGCCACUAGCUU
((((......(((............)))..(((((((((((....((......)).....(((....)))..)))))))))))))))... (-21.00 = -21.36 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:18 2006