Locus 5499

Sequence ID 2L_DroMel_CAF1
Location 15,726,243 – 15,726,337
Length 94
Max. P 0.533570
window8724

overview

Window 4

Location 15,726,243 – 15,726,337
Length 94
Sequences 6
Columns 94
Reading direction reverse
Mean pairwise identity 79.08
Mean single sequence MFE -30.95
Consensus MFE -21.09
Energy contribution -22.10
Covariance contribution 1.01
Combinations/Pair 1.30
Mean z-score -1.15
Structure conservation index 0.68
SVM decision value 0.00
SVM RNA-class probability 0.533570
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15726243 94 - 22407834
CACAAUUUCUCCAGCCUCCUCCGGCUGCAGCCAGCAGCAGGCGGUGAAUGGAGAGCGUACUCCCGGCCUGCCAAAACAUCAGGAGCAGAUCCAU
......(((((((..(.((.((.(((((.....))))).)).)).)..))))))).........((....)).........(((.....))).. ( -31.10)
>DroVir_CAF1 77251 82 - 1
GAGCUCUUCGCCCGCCUCCUCAA-CGGUCACCGGUCGCAGUC--AAAAUGGUGAACGGACGCCGGCUAC---------UCAGCAGCUGGCGCAU
........((((.((........-((((..(((.((((....--......)))).)))..))))(((..---------..))).)).))))... ( -24.00)
>DroSec_CAF1 45757 94 - 1
CACAAUUUCUCCAGCCUCCUCCGGCUGCAGCCAGCAGCAGGCGGUGAAUGGAGAGCGUACUCCCGGCCUGCCAAAUCACCAGGAGCAGAUCCAU
....((((((((.((((.(((.(((....))).).)).))))(((((..((.(((....)))))((....))...))))).)))).)))).... ( -33.90)
>DroSim_CAF1 38534 94 - 1
CACAAUUUCUCCAGCCUCCUCCGGCUGCAGCCAGCAGCAGGCGGUGAAUGGAGAGCGUACUCCCGGCCUGGCAAAUCACCAGGAGCAGAUCCAU
.......((((((..(.((.((.(((((.....))))).)).)).)..))))))((..........(((((.......))))).))........ ( -33.50)
>DroEre_CAF1 44941 94 - 1
GACAAUUUCUCCAGCCUCCUCCGGCUGCAGUCAGCAGCAGGCGGUGAAUGGCGAGCGUACUCCCGGUCUGCCAAAUCACCAGGAGCAGAUCCAC
....((((((((.((((......(((((.....)))))))))(((((.((((((.((......)).)).))))..))))).)))).)))).... ( -36.20)
>DroYak_CAF1 50560 94 - 1
CACAAUUUCUCCAGCCUCCUCUGGCUGCAGUCAACAACAGGCGGUGAAUGGAGAGUGUACUCCCGGCCUGUCGAAUCAUCAGGAGCAGAUCCAG
....((((((((((((......))))........(.((((((.(.....((((......))))).)))))).)........)))).)))).... ( -27.00)
>consensus
CACAAUUUCUCCAGCCUCCUCCGGCUGCAGCCAGCAGCAGGCGGUGAAUGGAGAGCGUACUCCCGGCCUGCCAAAUCACCAGGAGCAGAUCCAU
......(((((((..(.((.((.(((((.....))))).)).)).)..)))))))....((((.((............)).))))......... (-21.09 = -22.10 +   1.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:37 2006