Locus 3878

Sequence ID 2R_DroMel_CAF1
Location 12,843,077 – 12,843,183
Length 106
Max. P 0.823522
window6263

overview

Window 3

Location 12,843,077 – 12,843,183
Length 106
Sequences 5
Columns 106
Reading direction reverse
Mean pairwise identity 97.08
Mean single sequence MFE -21.64
Consensus MFE -20.36
Energy contribution -20.44
Covariance contribution 0.08
Combinations/Pair 1.04
Mean z-score -1.31
Structure conservation index 0.94
SVM decision value 0.69
SVM RNA-class probability 0.823522
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12843077 106 - 20766785
CCAAAACUGCAGGGCUAUCGCUGUCCCUCUCGCUAACUAUGGCCCUCUCGCUUUCCUUUUGGCCAUAAUAAAUAUUUAUGCUAAAUUUAUUUGCGUUCGCUUUUAG
........((((((((((.(..((.......))...).))))))))..(((......((((((.((((.......)))))))))).......)))...))...... ( -21.22)
>DroSec_CAF1 186840 106 - 1
CCAAAACUGCAGGGCUAUCGCUGUCCCGCUCGCUAACUAUGGCCCUCUCGCUUUCCUUUUGGCCAUAAUAAAUAUUUAUGCUAAAUUUAUUUGCGUUCGCUUUUAG
........((((((((((.(..((.......))...).))))))))..(((......((((((.((((.......)))))))))).......)))...))...... ( -21.22)
>DroSim_CAF1 195439 106 - 1
CCAAAACUGCAGGGCUAUCGCUGUCCCGCUCGCUAACUAUGGCCCUCUCGCUUUCCUUUUGGCCAUAAUAAAUAUUUAUGCUAAAUUUAUUUGCGUUCGCUUUUAG
........((((((((((.(..((.......))...).))))))))..(((......((((((.((((.......)))))))))).......)))...))...... ( -21.22)
>DroEre_CAF1 190608 106 - 1
CCAAAACUGCAGGGCUAUCGCUGUCCCUCUUACGAACUAUGGCCCUCUCGCUUUCCUUUUGGCCAUAAUAAAUAUUUAUGCUAAAUUUAUUUGCGUUCGCUUUUAG
........((((((((((.(...((........)).).))))))))..(((......((((((.((((.......)))))))))).......)))...))...... ( -21.52)
>DroYak_CAF1 194980 106 - 1
CCAAAACUGCAGGGCUAUCGCUGUCCCUCUCUCGAACUAUGGCCCUCUCGCUUUCGUUUUGGCCAUAAUAAAUAUUUAUGCUAAAUUUAUUUGCGUUCGCAUUUAG
.......(((.((((.......)))).......(((((((((((....((....))....)))))))............((...........)))))))))..... ( -23.00)
>consensus
CCAAAACUGCAGGGCUAUCGCUGUCCCUCUCGCUAACUAUGGCCCUCUCGCUUUCCUUUUGGCCAUAAUAAAUAUUUAUGCUAAAUUUAUUUGCGUUCGCUUUUAG
........((((((((((.(..((.......))...).))))))))..(((......((((((.((((.......)))))))))).......)))...))...... (-20.36 = -20.44 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:15 2006