Locus 4030

Sequence ID 2L_DroMel_CAF1
Location 11,688,371 – 11,688,477
Length 106
Max. P 0.957303
window6350

overview

Window 0

Location 11,688,371 – 11,688,477
Length 106
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 85.49
Mean single sequence MFE -32.02
Consensus MFE -23.94
Energy contribution -24.38
Covariance contribution 0.44
Combinations/Pair 1.04
Mean z-score -2.47
Structure conservation index 0.75
SVM decision value 1.48
SVM RNA-class probability 0.957303
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11688371 106 + 22407834
CCAAAUGGGCCAACAUGGC----GCUCGUGGCAGUCAAUAAUAAGCAGGCGACAUGUUGGCCAGAGCACACUUUCGGCCAUCUCCCAAAAAAAAGGGUAAGAAAUAAAAA
((.....((((((((((.(----((..((...............))..))).)))))))))).(((......)))))...((((((........)))..)))........ ( -30.16)
>DroPse_CAF1 140318 102 + 1
CCAAAUGGGCCGACAUGGCAGUCGCUCGUGGCAGUCAAUAAUAAGCAGGCGACAUGUUGGCCAGAGUACACUUUCGGCC-----CAACAGAAAAGGACAAGCCAGGA---
((...((((((((..((((.(((((..((...............))..)))))......))))(((....)))))))))-----))........((.....)).)).--- ( -32.26)
>DroSec_CAF1 149602 105 + 1
CCAAAUGGGCCAACAUGGC----GCUCGUGGCAGUCAAUAAUAAGCAGGCGACAUGUUGGCCAGAGCACACUUUCGGCCAUCUCCCAAAA-AAAGGGAAAGAAAUAAAAA
((.....((((((((((.(----((..((...............))..))).)))))))))).(((......))))).....((((....-...))))............ ( -30.86)
>DroSim_CAF1 147435 105 + 1
CCAAAUGGGCCAACAUGGC----GCUCGUGGCAGUCAAUAAUAAGCAGGCGACAUGUUGGCCAGAGCACACUUUCGGCCAUCACCCAAAA-AAAGGGAAAGAAAUAAAAA
((.....((((((((((.(----((..((...............))..))).)))))))))).(((......)))))......(((....-...)))............. ( -29.66)
>DroAna_CAF1 155749 106 + 1
CCAAAUGGGCCAACAUGGC----GCUCGUGGCAGUCAAUAAUAAGCAGGCGACAUGUUGGCCAGAGCUCACUUUCGGCCAUCUCCACGGCACGAAGGAAAAAAGUGUCAU
.......((((((((((.(----((..((...............))..))).))))))))))........(((((((((........))).))))))............. ( -37.16)
>consensus
CCAAAUGGGCCAACAUGGC____GCUCGUGGCAGUCAAUAAUAAGCAGGCGACAUGUUGGCCAGAGCACACUUUCGGCCAUCUCCCAAAAAAAAGGGAAAGAAAUAAAAA
((.....((((((((((((....))((((.((............))..)))))))))))))).(((......)))))......(((........)))............. (-23.94 = -24.38 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:32 2006