Locus 3089

Sequence ID dm3.chr2R
Location 2,121,210 – 2,121,302
Length 92
Max. P 0.932866
window4240

overview

Window 0

Location 2,121,210 – 2,121,302
Length 92
Sequences 7
Columns 105
Reading direction forward
Mean pairwise identity 75.92
Shannon entropy 0.45212
G+C content 0.60142
Mean single sequence MFE -29.27
Consensus MFE -20.86
Energy contribution -20.73
Covariance contribution -0.14
Combinations/Pair 1.37
Mean z-score -1.47
Structure conservation index 0.71
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.37
SVM RNA-class probability 0.932866
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 2121210 92 + 21146708
AGCGACAGUCCCGGAGAUUGUCGCGUAACGAGAUC---------CACCAUGACGCCCACUCUGCGCCUGGAUCA----GACUUCCAGGCAAGAGCCUCUGCCCCA
.(((((((((.....))))))))).....(((...---------.....((.....))((((..(((((((...----....))))))).)))).)))....... ( -33.20, z-score =  -2.63, R)
>droSim1.chr2R 1018587 92 + 19596830
AGCGACAGUCCCGGAGAUUGUCGCGUAACGAGAUC---------CACCAUGACGCCCACUCUGCGCCUGGAUCA----GACUUCCCGGCAAGAGCCUGCGCCCCA
.(((((((((.....)))))))))...........---------........(((...((((..(((.(((...----....))).))).))))...)))..... ( -31.30, z-score =  -1.87, R)
>droSec1.super_26 764112 92 + 826190
AGCGACAGUCCCGGAGAUUGUCGCGUAACGAGAUC---------CACCAUGACGCCCACUCUGCGCCUGGAUCA----GACUUCCCGGCAAGAGCCUGCGCCCCA
.(((((((((.....)))))))))...........---------........(((...((((..(((.(((...----....))).))).))))...)))..... ( -31.30, z-score =  -1.87, R)
>droYak2.chr2L 1972180 92 - 22324452
AGCGACAGUCCCGGAGAUUGUCGCGUAACGAGAUC---------CACCAUGACGCCUACUCUGCGCCUAGAUCA----CACUUCCAGGCAAGAGCCUCUUCCGCA
.(((((((((.....))))))))).....(((.((---------......))......((((..((((.((...----....)).)))).)))).)))....... ( -26.50, z-score =  -1.30, R)
>droEre2.scaffold_4929 6436101 92 - 26641161
AGCGACAGUCCCGGAGAUUGUCGCGUAACGAGAUC---------CACCAUGACGCCCACUCUGCGCCUGGAUCA----CACUUCCAGGCAAGAGCCUCUUCCGCA
.(((((((((.....))))))))).....(((...---------.....((.....))((((..(((((((...----....))))))).)))).)))....... ( -33.20, z-score =  -2.84, R)
>droAna3.scaffold_13266 1202197 86 - 19884421
AGCGACCGUCCCGGAGACUGUCGCGUCACCAGGUC---------CAGCGUGACGUCCGCCCUCCGCUUGGAGCG----CAGUCCCAAGCAGCCCGCCGA------
.(((........((((..((..((((((((.....---------..).))))))).))..))))((((((..(.----..)..))))))....)))...------ ( -29.60, z-score =  -0.21, R)
>droWil1.scaffold_180699 851002 105 - 2593675
CGAGGCAGUCCCGGUGAUUGUCGCAUUACAAGAUCUUCCUCAGGCAAUAUGACGCCAACUUUGAGAUAUGAACGUCAUCACUCCAAAUCGAAAUCAAAAUCGCCA
.((((.((((...(((((......)))))..)).)).)))).(((...((((((..................))))))...........((........))))). ( -19.77, z-score =   0.45, R)
>consensus
AGCGACAGUCCCGGAGAUUGUCGCGUAACGAGAUC_________CACCAUGACGCCCACUCUGCGCCUGGAUCA____CACUUCCAGGCAAGAGCCUCUGCCCCA
.(((((((((.....)))))))))..................................((((..(((.(((...........))).))).))))........... (-20.86 = -20.73 +  -0.14) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:03:26 2011