Locus 6030

Sequence ID X_DroMel_CAF1
Location 15,489,287 – 15,489,387
Length 100
Max. P 0.693304
window9799

overview

Window 9

Location 15,489,287 – 15,489,387
Length 100
Sequences 4
Columns 104
Reading direction forward
Mean pairwise identity 86.18
Mean single sequence MFE -28.18
Consensus MFE -22.40
Energy contribution -22.89
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.62
Structure conservation index 0.79
SVM decision value 0.33
SVM RNA-class probability 0.693304
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15489287 100 + 22224390
ACACGCUG----CUGCGCGGUCAUCGUGCGGGCAGCAGGUCCAGCAGCUUAGCGAUCGAGAUCUUAUUGUGCCCUCACAAAAAAACCAUCACAAGCUUCAUCCA
....((((----(((((((.....)))))((((.....))))))))))..((((((....)))...(((((....)))))..............)))....... ( -28.60)
>DroSec_CAF1 49451 89 + 1
ACACGCUG----CUGCGCGGUCAUCCUGCGGUCAGCAGGUCCAGCAGCUUAGCGAUCGAGAUCUCAUUGUGCCCUC-----------AUCACAAGCUUCAUCCA
...(((((----((((..((....(((((.....))))).)).)))))..))))...(.(((....(((((.....-----------..))))).....)))). ( -29.20)
>DroSim_CAF1 61733 89 + 1
ACACGCUG----CUGCGCGGUCAUCCUGCGGCCAGCAGGUCCAGCAGCUUAGCGAUCGAGAUCUCAUUGUGCCCUC-----------AUCACAAGCUUCAUCCA
...(((((----((((..((....(((((.....))))).)).)))))..))))...(.(((....(((((.....-----------..))))).....)))). ( -29.20)
>DroYak_CAF1 49852 92 + 1
ACACGCUCCUUCCUGCGCGGUCAUCCUGCGGCCAGCAGGUCCAGCAGCUUAGCGAUCGGCAUCUCAUUGUGCAC-A-----------ACCACAAACUUCAUCCA
...((((.....((((..((....(((((.....))))).)).))))...))))...((.......(((((...-.-----------..))))).......)). ( -25.74)
>consensus
ACACGCUG____CUGCGCGGUCAUCCUGCGGCCAGCAGGUCCAGCAGCUUAGCGAUCGAGAUCUCAUUGUGCCCUC___________AUCACAAGCUUCAUCCA
...(((((....((((..((....(((((.....))))).)).))))..)))))............(((((..................))))).......... (-22.40 = -22.89 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:02:26 2006