Locus 7234

Sequence ID X_DroMel_CAF1
Location 18,077,890 – 18,078,010
Length 120
Max. P 0.732839
window11839

overview

Window 9

Location 18,077,890 – 18,078,010
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 84.44
Mean single sequence MFE -45.37
Consensus MFE -36.90
Energy contribution -38.90
Covariance contribution 2.00
Combinations/Pair 1.00
Mean z-score -1.87
Structure conservation index 0.81
SVM decision value 0.43
SVM RNA-class probability 0.732839
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18077890 120 + 22224390
CGCUCAGCAGACCGCUCGCUCCGCACCGACCAAUAACAAUCCAGCCAGCCGUUCGGCGUCUCUGUUGUCGUAGGUCAGCGACUUGAUAACGACGCCGACUGAGCUGUCGGCGGUUCUGCG
......((((((((((.((...))...................(.((((((.((((((((...(((((((..((((...))))))))))))))))))).)).)))).)))))).))))). ( -46.60)
>DroSec_CAF1 1 94 + 1
--------------------------CGACCAAUAACAAUCCAGCCAGCCGCUCGGCGGCUCUGUUGUCGUAGGUCAGCGACUUGAUAACGACGCCGACUGAGCUGUCGGCGGUUCUGCG
--------------------------.................((.((((((.(((((((((.((((.(((..(((((....)))))....))).)))).)))))))))))))))..)). ( -39.40)
>DroSim_CAF1 1 120 + 1
CGCUCAGCAGACCGCUCGCUCCGCACCGACCAAUAACAAUCCAGCCAGCCGCUCGGCGGCUCUGUUGUCGUAGGUCAGCGACUUGAUAACGACGCCGACUGAGCUGUCGGCGGUUCUGCG
......(((((((..(((((.......((((.(..(((((..((((.(((....)))))))..)))))..).)))))))))............((((((......)))))))).))))). ( -50.11)
>consensus
CGCUCAGCAGACCGCUCGCUCCGCACCGACCAAUAACAAUCCAGCCAGCCGCUCGGCGGCUCUGUUGUCGUAGGUCAGCGACUUGAUAACGACGCCGACUGAGCUGUCGGCGGUUCUGCG
......(((((................((((.(..(((((..((((.(((....)))))))..)))))..).))))................(((((((......)))))))..))))). (-36.90 = -38.90 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:33:44 2006