Locus 240

Sequence ID 3L_DroMel_CAF1
Location 656,954 – 657,052
Length 98
Max. P 0.827292
window358

overview

Window 8

Location 656,954 – 657,052
Length 98
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 75.65
Mean single sequence MFE -37.70
Consensus MFE -22.16
Energy contribution -23.50
Covariance contribution 1.34
Combinations/Pair 1.37
Mean z-score -1.69
Structure conservation index 0.59
SVM decision value 0.70
SVM RNA-class probability 0.827292
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 656954 98 + 23771897
GAGAGA--------AAAGGAGCAAUUCUCCAAUGGAUCGCCAAGGUGGGGAACCUCAGCCAGUUGGGGAAGUUUCCUCAGCUGGGGAAACGGUCGCGCAUGCUCAG
......--------....(((((..((((((.(((....)))...))))))(((....(((((((((((....)))))))))))(....))))......))))).. ( -39.70)
>DroPse_CAF1 18624 81 + 1
GAGAGCAC-------UCGCUCCAAGUCUCCACUGGAUCUCUGAGUUGG--AGCCG----------------CGUCUCAGGCUGGGGCAGUGGUUGCGCAUGCGCCG
((((((..-------..(((((((.(((((...))).....)).))))--))).)----------------).)))).....((.((((((....))).))).)). ( -29.70)
>DroSec_CAF1 12728 98 + 1
GAGAGA--------GUGGGAGCAAUUCUCCAAUGGAUCGCCAAGGUGGGGAACCUCAGCCAGUUGGGGAAGGUUCCUCAGCUGGGGAAACGGUCGCGCAUGCUCAG
(((...--------(((.((.(..((((((..(((....)))((.(((((((((((..((....)).).)))))))))).))))))))..).)).)))...))).. ( -41.70)
>DroSim_CAF1 12671 98 + 1
GAGAGA--------GUGGGAGCAAUUCUCCAAUGGAUCGCCAAGGUGGGGAACCUCAGCCAGUUGGGGAAGGUUGCUCAGCUGGGGAAACGGUCGCGCAUGCUCAG
(((...--------(((.((.(..(((((((.(((....)))...)))))))......(((((((((........)))))))))(....)).)).)))...))).. ( -37.10)
>DroEre_CAF1 12946 106 + 1
GAGAGAUCUCUGAGAUUGGGGCAAUUCUCCAAUGGAUCGCCGAGUAGGGGAACCUCAGUCGAUUGGGGAAGCUAACUCAGCUGGGGAAACCGUCGCGCAUGCUCAG
(((....)))((((....(.((...((((((((((....))((.((((....))).).)).))))))))((((.....)))).((....))...)).)...)))). ( -35.00)
>DroYak_CAF1 13143 106 + 1
GAGAGACCUCUGAGAUGGGAGCAAUUCUCCAAUGGAUCGCCGAGUUGGGGAAACUCAGCCAGUUGGGGGAGUUUCUUCGGCUGGGGAAACGGUCGCGCAUGCUCAG
.........((((((((((((.....))))....(((((((.((((((((((((((..((....))..)))))))))))))).))....)))))...))).))))) ( -43.00)
>consensus
GAGAGA________AUGGGAGCAAUUCUCCAAUGGAUCGCCAAGGUGGGGAACCUCAGCCAGUUGGGGAAGCUUCCUCAGCUGGGGAAACGGUCGCGCAUGCUCAG
..................(((((..((((((.(((....)))...))))))(((....(((((((((........)))))))))(....))))......))))).. (-22.16 = -23.50 +   1.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:13 2006