Locus 1539

Sequence ID 3R_DroMel_CAF1
Location 4,392,299 – 4,392,419
Length 120
Max. P 0.566620
window2548

overview

Window 8

Location 4,392,299 – 4,392,419
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.75
Mean single sequence MFE -34.52
Consensus MFE -23.08
Energy contribution -22.16
Covariance contribution -0.92
Combinations/Pair 1.21
Mean z-score -1.73
Structure conservation index 0.67
SVM decision value 0.07
SVM RNA-class probability 0.566620
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4392299 120 - 27905053
CGGUGGAGGUAAAACCAGGUCAUUUUUAUUGCUCUUUCGCCCACUUGUGCUUCUGCCCCGUGUAUUUACAACGUACUCUGGAGGCGGGGGAGCAAUCUCAAUUGCAUCACUAUUUACACU
.(((((.((.....))..((.(((...((((((((..((((.......((....))((.(.((((.......)))).).)).))))..))))))))...))).)).)))))......... ( -34.40)
>DroSec_CAF1 4651 120 - 1
CGGUGGAGGUAAAACAAUGUCAUUUUUAUUGCUCUUCCGCCCACUUGUGCUUCUGCCCCGUGUAUUUACAACGUAUUCAGGAGGCGGAGGAGCAAUCUCAAUUGCAUCAUUAUUUACACU
.((((.((((((....((((.(((...((((((((((((((..((((.((....))..(((((....)).)))....)))).))))))))))))))...))).))))..)))))).)))) ( -37.80)
>DroSim_CAF1 4637 120 - 1
CGGUGGAGGUAAAACUAUGUCAUUUUUAUUGCUCUUCCGCCCACUUGUGCUUCUGCCCCGUGUAUUUACAACGUAUUCAGGAGGCGGAGGAGCAAUCUCAAUUGCAUCAUUAUUUACACU
.((((.((((((....((((.(((...((((((((((((((..((((.((....))..(((((....)).)))....)))).))))))))))))))...))).))))..)))))).)))) ( -37.80)
>DroEre_CAF1 4575 111 - 1
CGGUGGAGGUGAAAGAAGGUAAUUGUUAUUGC---------CAUUUGUGCUUCUGUCCCGUGUAUUUACAACGUGCUCUGGUGGCGGAGGAGCAAUUUCGAUGGUGUCAGUACUUAGACU
(.((.(((((.......((((((....)))))---------)...(((.(((((((((((.((((.......))))..))).)))))))).)))))))).)).).(((........))). ( -29.80)
>DroYak_CAF1 4478 120 - 1
CAGUGGAGGUGAAUCCAGGUAAUUUUUAUUGCUGUUUGGUCCAUUUGUGCUUCCGUCCCUUGUAUUUAUAACGUACUCAGGCGGCGGAGGAGCAAUAUCGAUCGUAUCCCUAUUUAAACU
.((.(((((.....)).((((((....))))))....((((...((((.(((((((((((.((((.......))))..))).)))))))).))))....))))...)))))......... ( -32.80)
>consensus
CGGUGGAGGUAAAACAAGGUCAUUUUUAUUGCUCUUCCGCCCACUUGUGCUUCUGCCCCGUGUAUUUACAACGUACUCAGGAGGCGGAGGAGCAAUCUCAAUUGCAUCACUAUUUACACU
((((((((((...........)))))))))).............((((.((((((((((..((((.......))))...)).)))))))).))))......................... (-23.08 = -22.16 +  -0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:04 2006