Locus 5256

Sequence ID 2R_DroMel_CAF1
Location 17,102,950 – 17,103,041
Length 91
Max. P 0.662369
window8396

overview

Window 6

Location 17,102,950 – 17,103,041
Length 91
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 70.60
Mean single sequence MFE -28.35
Consensus MFE -10.44
Energy contribution -10.12
Covariance contribution -0.32
Combinations/Pair 1.31
Mean z-score -1.78
Structure conservation index 0.37
SVM decision value 0.27
SVM RNA-class probability 0.662369
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17102950 91 - 20766785
UUG--CAACGCAGU-CGGAAACAGGACCCACAACCCU--GGUGCAUGCAUCAAUCUGCUGCCCGCC--------CGACUGCCCGAUUGCGACUGCAAUUGUCAA
...--....(((((-(((...((((.........)))--)(.(((.(((......)))))).)..)--------))))))).(((((((....))))))).... ( -32.20)
>DroSec_CAF1 39672 101 - 1
UUG--CAACGCAGU-CGGAAACAGGACCCACGAACCUGUGGUGCAUGCAUCAAUCUGCUGCCCGCCCGACCGCCCGACUGCCCGAUUGCGACUGUAAUUGUCAA
..(--(((.(((((-(((..(((((.........)))))((.(((.(((......))))))))..........))))))))....))))(((.......))).. ( -35.10)
>DroEre_CAF1 40605 86 - 1
UUG--CAUUGUAGG-UGGAAACAGGACCCACAACCCU--GAUGCAUGCAUCAUUCUGCUGCCUG-------------CCGCCCGAUUGCGCCUGCAAUUGUCAA
..(--(((((((((-((.((.((((.........)))--)..(((.(((.(.....).))).))-------------).......)).))))))))).)))... ( -25.40)
>DroYak_CAF1 44165 87 - 1
UUG--CAUCGCAGU-CGGUAACAGGACCCACAACCCC--GAUGCAUGCAUCAAUCUGCUGCCUGG------------CCGCCCGAUUGCGAGUGCAAUUGUCAA
(((--(((((((((-(((...((((...((.......--((((....))))....))...)))).------------....)))))))))).)))))....... ( -30.40)
>DroAna_CAF1 50822 78 - 1
CAGCCCAGCCCAGCCCAGUGGCAGGAUUC----------GGGACAUGCAUCAAUAUACUGUCC----------------AACUGAUUGUGCCCGAAAUUGUCAA
..................((((((..(((----------(((.((((.((((...........----------------...)))))))))))))).)))))). ( -18.64)
>consensus
UUG__CAACGCAGU_CGGAAACAGGACCCACAACCCU__GGUGCAUGCAUCAAUCUGCUGCCCG_____________CCGCCCGAUUGCGACUGCAAUUGUCAA
........((((((.(((.....(....).............(((.(((......))))))....................))))))))).............. (-10.44 = -10.12 +  -0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:19 2006