Locus 3741

Sequence ID 2R_DroMel_CAF1
Location 12,359,631 – 12,359,751
Length 120
Max. P 0.812079
window6075

overview

Window 5

Location 12,359,631 – 12,359,751
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 96.25
Mean single sequence MFE -41.47
Consensus MFE -39.99
Energy contribution -39.67
Covariance contribution -0.31
Combinations/Pair 1.08
Mean z-score -1.72
Structure conservation index 0.96
SVM decision value 0.65
SVM RNA-class probability 0.812079
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12359631 120 + 20766785
UGCUCUUUCGUCACUGGCACCACAAUCAGAUGGAUGUCCUUAUGCAUCACCUUGGGCUGCAUCAUCGAUACCACGGUGACAUUGUGUCCUGCCUCGGCCAGAGCCUUGGCCGUGGACAUA
.........((((((((((((.(((...((((.(((....))).))))...))))).)))(((...)))....)))))))..(((((((.....(((((((....))))))).))))))) ( -42.30)
>DroSec_CAF1 18604 120 + 1
UGCUCCUUCGUCACUGGCACCACAAUCAGAUGGAUGUCCUUGUGCAUCACCUUGGGCUGCAUCAUCGAUACCACGGUGACAUUGUGUCCUGCCUCGGCCAGAGCCUUGGCCGUGGACAUA
.........((((((((((((.(((...((((.((......)).))))...))))).)))(((...)))....)))))))..(((((((.....(((((((....))))))).))))))) ( -41.40)
>DroSim_CAF1 19051 120 + 1
UGCUCCUUCGUCACUGGCACCACAAUCAGAUGGAUGUCCUUGUGCAUCACCUUGGGCUGCAUCAUCGAUACCACGGUGACAUUGUGUCCUGCCUCGGCCAGAGCCUUGGCCGUGGACAUA
.........((((((((((((.(((...((((.((......)).))))...))))).)))(((...)))....)))))))..(((((((.....(((((((....))))))).))))))) ( -41.40)
>DroYak_CAF1 19140 120 + 1
UGCUCCUGCGUCACUGGCACCACAAUCAGAUGGAUGUCCUUGUGCAUCACCUUGGGCUGCAUCAUUGUUACCACGGUAACAUUAUGUCCUGCCUCGGCCAGCGCCUUGGCCGUGGACAUG
.((....))(((...((((..(((....((((.(.((((..(((...)))...))))).))))..((((((....))))))...)))..)))).(((((((....)))))))..)))... ( -40.80)
>consensus
UGCUCCUUCGUCACUGGCACCACAAUCAGAUGGAUGUCCUUGUGCAUCACCUUGGGCUGCAUCAUCGAUACCACGGUGACAUUGUGUCCUGCCUCGGCCAGAGCCUUGGCCGUGGACAUA
.........((((((((((((.(((...((((.(((....))).))))...))))).)))......(....).)))))))..(((((((.....(((((((....))))))).))))))) (-39.99 = -39.67 +  -0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:11 2006