Locus 4671

Sequence ID 3L_DroMel_CAF1
Location 13,214,306 – 13,214,421
Length 115
Max. P 0.602753
window7351

overview

Window 1

Location 13,214,306 – 13,214,421
Length 115
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 93.76
Mean single sequence MFE -21.95
Consensus MFE -20.44
Energy contribution -20.00
Covariance contribution -0.44
Combinations/Pair 1.09
Mean z-score -1.39
Structure conservation index 0.93
SVM decision value 0.14
SVM RNA-class probability 0.602753
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13214306 115 + 23771897
CAAAAUGCAAGUCAAUAUGUCAGGCGAGCAAUCAACACUCGAAAACGAGAAUGA-----AAAUCAAAGCGAAACCGGAAAAUUGUACAACGCCUGAAAUGUCAUAAAUUCUUUAGAUGGC
..........((((((((.(((((((.(((((.....((((....)))).....-----.........((....))....)))))....))))))).)))).......((....)))))) ( -20.20)
>DroSec_CAF1 7644 115 + 1
CAAAAUGCAAGUCAAUAUGUCAGGCGAGCAAUCAACACUCGAAAACGAGAAUGA-----AAAUCAAAGCGAAACCGGAAAAUUUUACAACGCCUGAAAUGCCAUAAAUUCUUGUGAUGGC
......(((((....(((((((((((.....(((...((((....))))..)))-----.........((....)).............))))))).....))))....)))))...... ( -22.70)
>DroSim_CAF1 12717 115 + 1
CAAAAUGCAAGUCAAUAUGUCAGGCGAGCAAUCAACACUCGAAAACGAGAAUGA-----AAAUCAAAGCGAAACCGGAAAAUUUUACAACGCCUGAAAUGCCAUAAAUUCUUUUGAUGGC
...................(((((((.....(((...((((....))))..)))-----.........((....)).............)))))))...((((((((....))).))))) ( -22.20)
>DroYak_CAF1 7558 120 + 1
CAAAAUGCAAGUCAAUAUGUCAGGCGAGCAAUCAACACUCGUAAACGAGAAUGAAACGAAAAUCAAUGCUAAACCGGAAAAUUGUACAACGCCUGAACUGUCAUAAAUUCUUUUGAUGAC
..........(((......(((((((((((.......((((....))))..(((........))).)))).....(..........)..)))))))...((((..........))))))) ( -22.70)
>consensus
CAAAAUGCAAGUCAAUAUGUCAGGCGAGCAAUCAACACUCGAAAACGAGAAUGA_____AAAUCAAAGCGAAACCGGAAAAUUGUACAACGCCUGAAAUGCCAUAAAUUCUUUUGAUGGC
...................(((((((.((........((((....))))..(((........)))..))......(..........)..)))))))...(((((...........))))) (-20.44 = -20.00 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:15 2006