Locus 601

Sequence ID dm3.chr2L
Location 4,243,222 – 4,243,341
Length 119
Max. P 0.926380
window798

overview

Window 8

Location 4,243,222 – 4,243,341
Length 119
Sequences 3
Columns 119
Reading direction forward
Mean pairwise identity 87.01
Shannon entropy 0.17749
G+C content 0.27922
Mean single sequence MFE -24.63
Consensus MFE -18.84
Energy contribution -19.73
Covariance contribution 0.89
Combinations/Pair 1.08
Mean z-score -2.46
Structure conservation index 0.77
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.32
SVM RNA-class probability 0.926380
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 4243222 119 + 23011544
UAAGGGCUCACUUGCUCACCUAAAAAAUGUGCAUCCAUUAAUCGUUUGAAAUCAAAUAUUUGAAUUGGAUUUAACUAACGAUUCAAUCAUGAAUUUGAAGCGAUUAUAUUUAUUUUUUU
...((((......))))....((((((((.........(((((((((.((((...((..((((((((...........))))))))..))..)))).)))))))))....)))))))). ( -24.72, z-score =  -2.47, R)
>droSim1.chr2L 4161566 116 + 22036055
AUAUAGAUCCCUUGCUUAACUAAAAAAUGUGCAACCAUUCAUCGUUUCAAAUCAAAUGUAUGAAUUGGAUAUUA-UAACGAUUUAAUCAUGAAUUUGAAGCGAUUAUAUAUUUUUUC--
(((((((....((((...............))))....))((((((((((((...(((..(((((((.......-...)))))))..)))..)))))))))))))))))........-- ( -22.26, z-score =  -2.15, R)
>droSec1.super_5 2340424 116 + 5866729
AUAGGGCUCACUUGCUCAACUAAAAAAUGUGCAACCAUUCAUCGUUUCAAAUCAAAUGUAUGAAUUGGAUAUUA-UAACGAUUCAAUCAUGAAUUUGAAGCGAUUAUAGAUUUUUUC--
...((((......))))..(((...((((......)))).((((((((((((...(((..(((((((.......-...)))))))..)))..))))))))))))..)))........-- ( -26.90, z-score =  -2.75, R)
>consensus
AUAGGGCUCACUUGCUCAACUAAAAAAUGUGCAACCAUUCAUCGUUUCAAAUCAAAUGUAUGAAUUGGAUAUUA_UAACGAUUCAAUCAUGAAUUUGAAGCGAUUAUAUAUUUUUUC__
...((((......)))).......................((((((((((((...(((..(((((((...........)))))))..)))..))))))))))))............... (-18.84 = -19.73 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:15:46 2011