Locus 5005

Sequence ID X_DroMel_CAF1
Location 13,086,584 – 13,086,680
Length 96
Max. P 0.678985
window8152

overview

Window 2

Location 13,086,584 – 13,086,680
Length 96
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 65.43
Mean single sequence MFE -21.87
Consensus MFE -7.73
Energy contribution -7.98
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.95
Structure conservation index 0.35
SVM decision value 0.30
SVM RNA-class probability 0.678985
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13086584 96 + 22224390
--AGA-AAGCGGC--GGCUCUCCGCCCCAAAUCUUCGCAGCUCUUCA-GCGCGAUUCUGCUGUGCGAC--UGCCAUCCAAUUGGCAAUAAAUCAAA----GCCCACGC
--...-..(((..--((((...(((.........((((.(((....)-)))))).........)))..--(((((......))))).........)----)))..))) ( -27.27)
>DroPse_CAF1 39876 81 + 1
----------GGCUUAGCUCUCUGC---------UCGAGCCUCCUCAA----AACUCUUUGCUGCCUC--UGCCUACCAAUUGGCAAUAAAUCAAGA--CGCCCACAC
----------((((((((.....))---------).))))).......----................--((((........))))...........--......... ( -16.00)
>DroSec_CAF1 35776 100 + 1
--AGA-AAGCGGC--GGCUCUCCGCCCCAAAUCUUCGCAGCUCUUCA-GUGCGAUUCUUCUGCGCGAC--UGCCAUCCAAUUGGCAAUAAAUCAACAGCCGCCCACGC
--...-..(.(((--((((...(((.........(((((.((....)-)))))).........)))..--(((((......)))))..........)))))))).... ( -30.97)
>DroAna_CAF1 46309 88 + 1
AAAGAAAAUAGGC--UG---------------CUUCCCAAAUCUUCU-CCACGAUUCUUCUGGGCGACUUUGCCAUCCAAUUGGCAAUAAAUCAAGA--CGCCCACAC
..((((....((.--..---------------....)).((((....-....)))).))))(((((.((((((((......))))).......))).--))))).... ( -19.11)
>DroPer_CAF1 39336 81 + 1
----------GGCUUAGCUCUCUGC---------UCGAGCCUCCUCAA----AACUCUUUGCUGCCUC--UGCCUACCAAUUGGCAAUAAAUCAAGA--CGCCCACAC
----------((((((((.....))---------).))))).......----................--((((........))))...........--......... ( -16.00)
>consensus
__AGA_AA__GGC__AGCUCUCCGC_______CUUCGCACCUCUUCA____CGAUUCUUCUGUGCGAC__UGCCAUCCAAUUGGCAAUAAAUCAAGA__CGCCCACAC
..........(((...((.....)).............................................((((........))))..............)))..... ( -7.73 =  -7.98 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:58 2006