Locus 4138

Sequence ID X_DroMel_CAF1
Location 10,866,521 – 10,866,630
Length 109
Max. P 0.539287
window6799

overview

Window 9

Location 10,866,521 – 10,866,630
Length 109
Sequences 4
Columns 110
Reading direction reverse
Mean pairwise identity 85.08
Mean single sequence MFE -37.52
Consensus MFE -26.69
Energy contribution -29.38
Covariance contribution 2.69
Combinations/Pair 1.07
Mean z-score -1.47
Structure conservation index 0.71
SVM decision value 0.01
SVM RNA-class probability 0.539287
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10866521 109 - 22224390
GCAUGUGGGUAUAAGUUGGUGGAGCAGCAGAAGCGGCGGAAGCUGUGCAAGCUGCUGGGA-CGAAGGACGAGGCAAUUCUCAUGAAUAUUAUUACGCAUACGCCCCGUGC
(((((.(((..((.((((((((((((((....(((((....)))))....))))))....-........((((....)))).......)))))).)).))..)))))))) ( -39.00)
>DroSec_CAF1 20161 109 - 1
GCAUGUGGGGAUAAGUUGGCGGAGCAGCAGGAGCGGCGGAAGCUGUGCAAGCUGCUGGGA-CGAGGGACGUGGCAAACCUCAUGAAUAUUAUUACGCAUACGCCCCGUGC
((((..((((....((..(((.((((((..(.(((((....))))).)..))))))....-.((((...........)))).............)))..)).)))))))) ( -42.50)
>DroSim_CAF1 21685 109 - 1
GCAUGUGGGGAUAAGUUGGCGGAGCAGCAGGAGCGGCGGAAGCUGUGCAAGCUGCUGGGA-CGAGGGACGUGGCAAACCUCAUGAAUAUUAUUACGCAUACGCCCCGUGC
((((..((((....((..(((.((((((..(.(((((....))))).)..))))))....-.((((...........)))).............)))..)).)))))))) ( -42.50)
>DroYak_CAF1 20315 101 - 1
GCAUGUGGGAAUAAGUGGGAGAAGCC---------AAUGGAGGUGUGGGAGCUGCAGGAAGCGAAGGACGAGACUAACCUCAUGAAUAUUAUUACGCAUACGCCCCGUGC
(((((.(((......(((......))---------)......(((((.(.(((......))).......(((......))).............).))))).)))))))) ( -26.10)
>consensus
GCAUGUGGGGAUAAGUUGGCGGAGCAGCAGGAGCGGCGGAAGCUGUGCAAGCUGCUGGGA_CGAAGGACGAGGCAAACCUCAUGAAUAUUAUUACGCAUACGCCCCGUGC
(((((.(((.....((..(((.((((((....(((((....)))))....))))))......((((...........)))).............)))..)).)))))))) (-26.69 = -29.38 +   2.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:17:18 2006