Locus 3928

Sequence ID 3L_DroMel_CAF1
Location 11,395,424 – 11,395,519
Length 95
Max. P 0.819458
window6115

overview

Window 5

Location 11,395,424 – 11,395,519
Length 95
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 72.54
Mean single sequence MFE -18.29
Consensus MFE -13.34
Energy contribution -13.15
Covariance contribution -0.19
Combinations/Pair 1.06
Mean z-score -1.42
Structure conservation index 0.73
SVM decision value 0.68
SVM RNA-class probability 0.819458
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11395424 95 + 23771897
CAUUGCCACCUUCCGCACCGACCACUGGAAUUCAAAUUUCCAGAACUUUAAAAAAAAAAAACCAUUCAAAGUU---------GAAAAAGAUGU----------------UGGCAGAUUGG
..((((((.(.((...........((((((.......))))))((((((..................))))))---------......)).).----------------))))))..... ( -17.07)
>DroSec_CAF1 115796 82 + 1
CAUUGCCA-------------CCACUGGAAUUAAAAUUUCCAGAACUUAAAAAAAAAUAAACGAUUCAAAGUU---------GAAAAAGAUGU----------------UGGCAGAUUGG
..((((((-------------.((((((((.......))))))..................((((.....)))---------).......)).----------------))))))..... ( -17.10)
>DroSim_CAF1 127864 90 + 1
CAUUGCCACCUUCCUCGCCGACCACUGGAAUUCAAAUUUCCAGAACUUAAAAAA-----AACGAUUCAAAGUU---------GAAAAAGAUGU----------------UGGCAGAUUGG
........((...((.((((((..((((((.......))))))...........-----..((((.....)))---------)........))----------------))))))...)) ( -19.00)
>DroYak_CAF1 111433 116 + 1
CAUUGCCUCCUUUUGCGCCGACCACUGGAAUUCAAAUUUCUAGAACUUACAAAA----ACGCCAUUCAAAGUUCAAAGUUAAUAAAAAGACGUGGCUUUCGUCCAUUCUUGGCAGCUUGG
..(((((......((.(.((((((((((((.......)))))((((((......----..........)))))).................))))...))).))).....)))))..... ( -19.99)
>consensus
CAUUGCCACCUUCCGCGCCGACCACUGGAAUUCAAAUUUCCAGAACUUAAAAAA____AAACCAUUCAAAGUU_________GAAAAAGAUGU________________UGGCAGAUUGG
..(((((.................((((((.......))))))(((((....................))))).....................................)))))..... (-13.34 = -13.15 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:13 2006