Locus 4947

Sequence ID X_DroMel_CAF1
Location 12,923,848 – 12,923,956
Length 108
Max. P 0.705821
window8065

overview

Window 5

Location 12,923,848 – 12,923,956
Length 108
Sequences 4
Columns 111
Reading direction reverse
Mean pairwise identity 93.69
Mean single sequence MFE -28.89
Consensus MFE -26.02
Energy contribution -26.77
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -1.56
Structure conservation index 0.90
SVM decision value 0.36
SVM RNA-class probability 0.705821
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12923848 108 - 22224390
GUGUGCCGCCGAACAACAACAACAUCAGCGACAAAAC---AAACAGGGCGCACAGCAAAACAAUUCACACACACACGCACCCUCCCCCGCCUGCGCGCGCUUGUGUGUGUG
(((((((((.((............)).))(......)---......)))))))............(((((((((((((.(.(..........).).)))..)))))))))) ( -29.70)
>DroSec_CAF1 545 111 - 1
GUGUGCCGCCGAACAACAACAACAUCAGCGACAAAACAACAAGCAGGGCGCACAGCAAAACAAUUCACACACACACACACCCUCCCCCGCCUGCGCGCGCUUGUGUGUGUG
(((((((...((............)).((.............))..)))))))................((((((((((........(((....)))....)))))))))) ( -27.92)
>DroSim_CAF1 574 111 - 1
GUGUGCCGCCGAACAACAACAACAUCAGCGACAAAACAACAAGCAAGGCGCACAGCAAAAGAAUCCACACACACACGCACCCUCCCCCGCCUGCGCGCGCUUGUGUGUGUG
(((((((...((............)).((.............))..)))))))............(((((((((((((.(.(..........).).)))..)))))))))) ( -30.12)
>DroEre_CAF1 535 106 - 1
GUGUGCCGCCGAACAAC---AACAUCAGCGACAAAACAACAAGCAGGGCGCACAGCAAAACAAUUCACAC--ACACGCACCCUCCCCCGCCUGCGCGCGCCUGUGUGUGUG
(((((((...((.....---....)).((.............))..)))))))..............(((--(((((((........(((....)))....)))))))))) ( -27.82)
>consensus
GUGUGCCGCCGAACAACAACAACAUCAGCGACAAAACAACAAGCAGGGCGCACAGCAAAACAAUUCACACACACACGCACCCUCCCCCGCCUGCGCGCGCUUGUGUGUGUG
(((((((((.((............)).))(......).........)))))))............((((((((((.((.........(((....))).)).)))))))))) (-26.02 = -26.77 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:41 2006