Locus 4874

Sequence ID 2R_DroMel_CAF1
Location 15,941,578 – 15,941,687
Length 109
Max. P 0.709007
window7821

overview

Window 1

Location 15,941,578 – 15,941,687
Length 109
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 84.49
Mean single sequence MFE -19.38
Consensus MFE -12.95
Energy contribution -14.45
Covariance contribution 1.50
Combinations/Pair 1.00
Mean z-score -1.85
Structure conservation index 0.67
SVM decision value 0.37
SVM RNA-class probability 0.709007
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15941578 109 + 20766785
AAGGGCUCUCCUGGCGCCCACACACACACAC---------ACACACUCGCACGUGCACUUAUAGAUGCCAUAAUAAUAUUGUAACUCUGCACUUCAAAUUGCAUUUUAAUGCAAACAC
..((((((....)).))))............---------............(((((.....((.(((.(((....))).))).)).)))))......((((((....)))))).... ( -19.40)
>DroSec_CAF1 68943 105 + 1
AAGGGCUCUCCUGGCGCCCACACACACAC-------------ACACUCACAUGUGCACUUAUAGAUGCCAUAAUAAUAUUGUAACUCUGCACUUCAAAUUGCAUUUUAAUGCAAACAC
..((((((....)).))))..........-------------..........(((((.....((.(((.(((....))).))).)).)))))......((((((....)))))).... ( -19.10)
>DroSim_CAF1 68268 105 + 1
AAGGGCUCUCCUGGCGCCCGCACACACAC-------------ACACUCACUCGUGCACUUAUAGAUGCCAUAAUAAUAUUGUAACUCUGCACUUCAAAUUGCAUUUUAAUGCAAACAC
..((((((....)).))))..........-------------..........(((((.....((.(((.(((....))).))).)).)))))......((((((....)))))).... ( -19.40)
>DroAna_CAF1 63633 109 + 1
AAGGACUCUC---------ACACACACACCCUCGUCGGGCUCGUACUUAUACGAGCACUUAUAGAUGCCAUAAUAAUAUUGUAACUUUGCACUUCAAAUUGCAUUUUAAUGCAAACAC
..((..(((.---------..........((.....))(((((((....)))))))......)))..))..........((((....)))).......((((((....)))))).... ( -19.60)
>consensus
AAGGGCUCUCCUGGCGCCCACACACACAC_____________ACACUCACACGUGCACUUAUAGAUGCCAUAAUAAUAUUGUAACUCUGCACUUCAAAUUGCAUUUUAAUGCAAACAC
..((((.(.....).)))).................................(((((.....((.(((.(((....))).))).)).)))))......((((((....)))))).... (-12.95 = -14.45 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:15 2006