Locus 4430

Sequence ID 3L_DroMel_CAF1
Location 12,927,254 – 12,927,374
Length 120
Max. P 0.539696
window6869

overview

Window 9

Location 12,927,254 – 12,927,374
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 80.17
Mean single sequence MFE -36.36
Consensus MFE -16.76
Energy contribution -17.16
Covariance contribution 0.40
Combinations/Pair 1.31
Mean z-score -2.01
Structure conservation index 0.46
SVM decision value 0.01
SVM RNA-class probability 0.539696
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12927254 120 + 23771897
UAGGUGAAUUUUGUAUUUGCCGCAGAUAGCGAAAAAAUACAUCUGGGGAGAGAUCGGAGUCACCGUUUGCAUUGAAAAGUGAUAAAUAUGGACACUGUGGAUCCUGAGCCCAGCGCCGAU
..((((.....(((((((..(((.....)))...))))))).(((((.((.((((.(.(((...(((((((((....)))).)))))...)))....).))))))...)))))))))... ( -35.20)
>DroSec_CAF1 48079 120 + 1
UAGGUGCAUUAUGUAUUUGCCGCAGAUAGCGGAAAAAUACAUCUAGGGACAGAUCAAAGUCACCGUUUGCAUUGAAUUGUGAUAAGUAUGGACACUUUGGAUCCAAAGUCCAGCGCCGAU
..(((((...((((((((.((((.....))))..))))))))....((((.(((((((((..(((((..((......))..).....))))..))))).))))....)))).)))))... ( -38.40)
>DroSim_CAF1 51870 120 + 1
UAGGUGCAUUUUGUAUUUGCCGCAGAUAGCGGAAAAAUACAUUUAGGGACAGGUCAAAGUCACCGUUUGCAUGGAAAUGUGAUAAAUAUGGACACUUUGGAUCCAGAGUCCAGCGCCUAU
(((((((....(((((((.((((.....))))..))))))).....((((.(((((((((..(((((..(((....)))..).....))))..)))))))..))...)))).))))))). ( -42.10)
>DroEre_CAF1 53749 120 + 1
CAGGUGAGUUUUGGAUUCGCCGCAGAUAGCUGACAAAUACUUUAGGGGAGAAAUCGAAGCCACCGUUUACAUUGAGAAAGUGUACAUAAGGACACUUUGGAUCCCGAAUCCACCUGCGAU
((((((..(((.((((((...((((....))).).....(((((((((.(....)....)).))...((((((.....))))))..))))).......)))))).)))..)))))).... ( -31.60)
>DroYak_CAF1 51286 120 + 1
CAGGUGACUUUUGGAUUCGCCGCAGAUAGCUAAUAAAUACGUUUGGGGAGAGCAGGAAGUCACCGUUCGCAUUGAGAAAAUCUGCAUAAGGACACUUUGGAUCCCGAAUCCACCUGCGAU
..(((((((((..(.(((.((.(((((.............))))).)).))))..)))))))))..(((((.((((.....)).))...(((...(((((...))))))))...))))). ( -34.52)
>consensus
UAGGUGAAUUUUGUAUUUGCCGCAGAUAGCGGAAAAAUACAUUUGGGGAGAGAUCGAAGUCACCGUUUGCAUUGAAAAGUGAUAAAUAUGGACACUUUGGAUCCAGAGUCCAGCGCCGAU
..((((.((((((..(((.((.(((((.............))))).)).)))..))))))))))((((.....................))))....(((((.....)))))........ (-16.76 = -17.16 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:27 2006