Locus 7228

Sequence ID 2L_DroMel_CAF1
Location 20,258,150 – 20,258,267
Length 117
Max. P 0.591235
window11565

overview

Window 5

Location 20,258,150 – 20,258,267
Length 117
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 80.00
Mean single sequence MFE -21.60
Consensus MFE -16.26
Energy contribution -17.23
Covariance contribution 0.98
Combinations/Pair 1.08
Mean z-score -1.44
Structure conservation index 0.75
SVM decision value 0.12
SVM RNA-class probability 0.591235
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20258150 117 + 22407834
UCGCAUGCGAAAGCAC---ACUCCCCAGUACUUUUCCCCCACAGGAUCCCCCCAGUUCACCGAGUUAAAUACCCACUGCCAUGCCACGCAUCCCUAAUGCUUGUGUCUAUAUGGCAAAUU
.....(((....))).---((((......(((..(((......))).......))).....))))...........(((((((..(((((...........)))))...))))))).... ( -21.30)
>DroSec_CAF1 19706 114 + 1
UCGCGUGCGAAAGCACGACACACCUC----CACUCCCCCCACAGGAUCC--CCAGUUCGCCGAGUUAAAUACCCACUGCCAUGCCACGCAUCCCUAAUGCUUGUGUCUAUAUGGCAAAUU
..((((((....))))).).......----.((((.....((.((....--)).)).....))))...........(((((((..(((((...........)))))...))))))).... ( -27.40)
>DroSim_CAF1 18560 115 + 1
NNNNNNNNNNNNNNNNNNNNNNCCCC----CACUCCCCCCACAGGAUCC-CCCAGUUCGCCGAGUUAAAUACCCACUGCCAUGCCACGCAUCCCUAAUGCUUGUGUCUAUAUGGCAAAUU
..........................----.((((.....((.((....-.)).)).....))))...........(((((((..(((((...........)))))...))))))).... ( -16.10)
>consensus
UCGC_UGCGAAAGCAC___AC_CCCC____CACUCCCCCCACAGGAUCC_CCCAGUUCGCCGAGUUAAAUACCCACUGCCAUGCCACGCAUCCCUAAUGCUUGUGUCUAUAUGGCAAAUU
...(((((....)))))..............((((.....((.((......)).)).....))))...........(((((((..(((((...........)))))...))))))).... (-16.26 = -17.23 +   0.98)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:30:55 2006