Locus 8546

Sequence ID 3L_DroMel_CAF1
Location 22,327,196 – 22,327,314
Length 118
Max. P 0.640296
window14007

overview

Window 7

Location 22,327,196 – 22,327,314
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.50
Mean single sequence MFE -28.00
Consensus MFE -21.04
Energy contribution -22.12
Covariance contribution 1.08
Combinations/Pair 1.07
Mean z-score -1.67
Structure conservation index 0.75
SVM decision value 0.22
SVM RNA-class probability 0.640296
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22327196 118 - 23771897
AGCCUUUUAGCAGGGCUUUUGGCCUCCUCAGCACUCUGCAAACAAUAAAUCCAUUGUGGCCAAAGUGAAAUCAGGCUCAGCUCUCUCGAAAGCCACUUCAUCGCACCA--CCCCACCCCA
((((((.....))))))(((((((......((.....))..(((((......))))))))))))((((.....((((...(......)..))))......))))....--.......... ( -27.10)
>DroVir_CAF1 5540 108 - 1
AGGCUUUUAGCAGAGCUCGACGGCUG-UGA-----GUGCAAACAAUAAAUCCAUUGUGGCCAAAGUGAAAUCAGGCUCAGCUCUCUCGAAAGCCACUUCAUCGCC--A--UCUCCGG--C
.(((((((((.((((((.((.(.(((-...-----.(((..(((((......))))).......)))....))).))))))))))).)))))))........(((--.--.....))--) ( -29.90)
>DroSec_CAF1 6463 120 - 1
AGCCUUUUAGCAGGGCUUUUGGCCUCCUCAGCACUCUGCAAACAAUAAAUCCAUUGUGGCCAAAGUGAAAUCAGGCUCAGCUCUCUCGAAAGCCACUUCAUCGCACCAAACCCCCACCCA
.((......)).(((..(((((((......((.....))..(((((......))))))))))))((((.....((((...(......)..))))......))))............))). ( -27.20)
>DroSim_CAF1 5970 120 - 1
AGCCUUUUAGCAGGGCUUUUGGCCUCCUCAGCACUCUGCAAACAAUAAAUCCAUUGUGGCCAAAGUGAAAUCAGGCUCAGCUCUCUCGAAAGCCACUUCAUCGCACCAAACCCCCACCCA
.((......)).(((..(((((((......((.....))..(((((......))))))))))))((((.....((((...(......)..))))......))))............))). ( -27.20)
>DroYak_CAF1 4000 113 - 1
AGCCUUUUAGCAGGGCUUUUGGCCUCCUCAGCACUCUGCAAACAAUAAAUCCAUUGUGGCCAAAGUGAAAUCAGGCGCAGCUCUCUCGAAAGCUACUUCAUGGCACCA--CCCCA-----
.(((...(((((((((((((((((......((.....))..(((((......))))))))))))(((........))))))))).......))))......)))....--.....----- ( -28.61)
>consensus
AGCCUUUUAGCAGGGCUUUUGGCCUCCUCAGCACUCUGCAAACAAUAAAUCCAUUGUGGCCAAAGUGAAAUCAGGCUCAGCUCUCUCGAAAGCCACUUCAUCGCACCA__CCCCCACCCA
.(.(((((((.((((((...(((((......((((.((...(((((......)))))...)).)))).....))))).)))))))).))))).).......................... (-21.04 = -22.12 +   1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:18:42 2006