Locus 4828

Sequence ID 3R_DroMel_CAF1
Location 12,623,155 – 12,623,274
Length 119
Max. P 0.650462
window7915

overview

Window 5

Location 12,623,155 – 12,623,274
Length 119
Sequences 4
Columns 119
Reading direction reverse
Mean pairwise identity 95.24
Mean single sequence MFE -25.98
Consensus MFE -23.17
Energy contribution -23.05
Covariance contribution -0.12
Combinations/Pair 1.07
Mean z-score -1.62
Structure conservation index 0.89
SVM decision value 0.24
SVM RNA-class probability 0.650462
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12623155 119 - 27905053
CUUGCAAGCCAUUCAAAAUUUUAAAGGGGAAAUGCAGCGAAAGGAUGAUUCUCAUUUUAAUUGGUCUCUGAAUUGCACAUUCGCCAGGGCAUUAAAAUGCCACCAAAAAAGAAUCAACA
.(((((..((.................))...)))))(....)..(((((((........(((((....((((.....)))))))))(((((....)))))........)))))))... ( -22.23)
>DroSec_CAF1 105663 119 - 1
CUUGCAACCGAUUCAAAAUAUUAAAGGGGAAAUUCAGCGAAAGGAUGAUUCUCAUUUUAAUUGGUCUCUGAAUUGCACAAUCGCCAGGGCAUUAAAAUGCCACCAAAAAAGAAUCAACA
.........(((((......(((((((((((..(((.(....)..)))))))).))))))(((((..(((....((......)))))(((((....))))))))))....))))).... ( -27.20)
>DroSim_CAF1 106345 119 - 1
CUUGCAAGCGAUUCAAAAUAUUAAAGGGGAAAUUCAGCGAAAGGAUGAUUCUCAUUUUAAUUGGUCUCUGAAUUGCACAUUCGCCAGGGCAUUAAAAUGCCACCAAAAAAGAAUCAACA
.........(((((......(((((((((((..(((.(....)..)))))))).))))))(((((..(((....((......)))))(((((....))))))))))....))))).... ( -27.20)
>DroYak_CAF1 105918 118 - 1
CUUGCAAGCGAUUUAGAAUAGC-AAGGGGAAAUGCAGCGAAAGGAUGAUUCCCAUUUUAAUUGGUCUCUGAAUUGCACAUUCGCCAGGGCAUUAAAAUGCCACCAAAAAAGAAUCAACA
.......((((((((((..(.(-((.(((((...((.(....)..)).))))).......))).).))))))))))...........(((((....))))).................. ( -27.30)
>consensus
CUUGCAAGCGAUUCAAAAUAUUAAAGGGGAAAUGCAGCGAAAGGAUGAUUCUCAUUUUAAUUGGUCUCUGAAUUGCACAUUCGCCAGGGCAUUAAAAUGCCACCAAAAAAGAAUCAACA
.........(((((............(((((...((.(....)..)).))))).......(((((..(((....((......)))))(((((....))))))))))....))))).... (-23.17 = -23.05 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:52 2006