Locus 9629

Sequence ID 3R_DroMel_CAF1
Location 25,442,496 – 25,442,607
Length 111
Max. P 0.855596
window15396

overview

Window 6

Location 25,442,496 – 25,442,607
Length 111
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 89.84
Mean single sequence MFE -34.38
Consensus MFE -27.66
Energy contribution -29.22
Covariance contribution 1.56
Combinations/Pair 1.03
Mean z-score -1.76
Structure conservation index 0.80
SVM decision value 0.81
SVM RNA-class probability 0.855596
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25442496 111 + 27905053
CCCUGUCCCACAGCCACUUGCCAC--------CUGGCCAACCAUCAGAUUGAAUGCACUCGCUGAGGCGAGCAAUCCGAAGAUGCUUCGAAAGUGCAGCUGAUAAGUGGGCAUCUCAAA
...((.(((((........(((..--------..))).....(((((......(((((((((....))))......(((((...)))))...))))).)))))..)))))))....... ( -33.70)
>DroSec_CAF1 125458 111 + 1
CCCUGUCCCACAGCCACUUGCCAC--------CUGGCAAACCAUCAGAUUGAAUGCACUCGCUGAGGCGAGCCAUCCGAAGAUGCUUCGAAAGUGCAGCUGAUAAGUGGGCAUCUCAAA
...((.(((((......(((((..--------..)))))...(((((......(((((((((....))))......(((((...)))))...))))).)))))..)))))))....... ( -36.30)
>DroSim_CAF1 127310 111 + 1
CCCUGUCCCACAGCCAGUUGCCAC--------CUGGCAAACCAUCAGAUUGAAUGCACUCGCUGAGGCGAGCAAUCCGAAGAUGCUUCGAAAGUGCAGCUGAUAAGUGGGCAUCUCAAA
...((.(((((.(((((.......--------))))).....(((((......(((((((((....))))......(((((...)))))...))))).)))))..)))))))....... ( -37.90)
>DroEre_CAF1 131852 119 + 1
CCCUGCCGCACAUCCACUUGCCACCUGGCAAACUGGCAAACCAUCAGAUUGAAUGCACUCGCUGAGGCGAGCAAUCCGAAGAUGCUUCAAAAGUGCAGCUGAUAAGUGGGCAUCUCGAA
...((((.(((..(((.(((((....)))))..)))......(((((......((((((...(((((((..(........).)))))))..)))))).)))))..)))))))....... ( -36.90)
>DroYak_CAF1 135857 104 + 1
CUCUGCCCCACAUCCAC---------------CUGACAAACCAUCAGAUUGAAUGCACUCGCUGGCUCGAGCAAUCCGAAGAUGCUUCGAAAGUGCAGCUGAUAAGUGGGCAUCUCAAA
...(((((.((......---------------((((.......))))((((..((((((.(((......)))....(((((...)))))..))))))..))))..)))))))....... ( -27.10)
>consensus
CCCUGUCCCACAGCCACUUGCCAC________CUGGCAAACCAUCAGAUUGAAUGCACUCGCUGAGGCGAGCAAUCCGAAGAUGCUUCGAAAGUGCAGCUGAUAAGUGGGCAUCUCAAA
...((((.(((......((((((..........))))))...(((((......(((((((((....))))......(((((...)))))...))))).)))))..)))))))....... (-27.66 = -29.22 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:38:41 2006