Locus 1959

Sequence ID 3R_DroMel_CAF1
Location 5,530,419 – 5,530,524
Length 105
Max. P 0.605390
window3216

overview

Window 6

Location 5,530,419 – 5,530,524
Length 105
Sequences 4
Columns 110
Reading direction reverse
Mean pairwise identity 84.50
Mean single sequence MFE -40.50
Consensus MFE -27.27
Energy contribution -27.78
Covariance contribution 0.50
Combinations/Pair 1.11
Mean z-score -1.65
Structure conservation index 0.67
SVM decision value 0.15
SVM RNA-class probability 0.605390
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5530419 105 - 27905053
GCAUCGUAGGAGUGGUUCAUAUAGCGAGAG-----GGCAGAGGGAUAGUAGCUCAGGUGGUCUCUCGCAUGUUCCCUCUUCCCCUUCCCCAUCCCCUUCCCUGCACCUUC
(((..(.(((.((((........(.(((.(-----((.(((((((.....((....((((....))))..))))))))).)))))).)))))..))).)..)))...... ( -28.50)
>DroSec_CAF1 11308 105 - 1
GCAUCGUAGGAGUGGUUCACAUGGCGAGAG-----GGGAGAGGGAUAGUAGCUCAGGUGGUCUCUCGCACGUUCCCUCUUCCCCUUCCGCUUCCCCUUUCCCGCUCCAUC
........(((((((.......((((..((-----((((((((((..((.((..(((.....))).))))..)))))).))))))..)))).........)))))))... ( -45.69)
>DroSim_CAF1 9357 99 - 1
GCAUCGUAGGAGUGGUUCACAUGGCGAGAG-----GGGAGAGGGAUAGUAGCUCAGGUGGUCUCUCGCACGUUCCCUCUUCCCCU------UCCCCUUUCCCGCUCCUUG
.......((((((((.......((.(..((-----((((((((((..((.((..(((.....))).))))..)))))).))))))------..)))....)))))))).. ( -41.20)
>DroEre_CAF1 9752 108 - 1
GUAUCGUAGGAGUGGUUCACUAGGCGAGCGGCAGAGGGAGAGGGAUAGUAGCUCAGGUGGUCUCUCGCACGUUCCCUGUCCCUCUUCGCCG--CCCCUCCCCGCCCCUUC
.......(((.((((.......((((.((((.(((((((.(((((..((.((..(((.....))).))))..))))).)))))))))))))--)).....)))).))).. ( -46.60)
>consensus
GCAUCGUAGGAGUGGUUCACAUGGCGAGAG_____GGGAGAGGGAUAGUAGCUCAGGUGGUCUCUCGCACGUUCCCUCUUCCCCUUCCCC_UCCCCUUCCCCGCUCCUUC
........((((((((((.......))).......((((((((((..((.((..(((.....))).))))..))))))))))..................)))))))... (-27.27 = -27.78 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:52 2006