Locus 5176

Sequence ID dm3.chr2R
Location 18,331,366 – 18,331,470
Length 104
Max. P 0.982040
window7105 window7106

overview

Window 5

Location 18,331,366 – 18,331,465
Length 99
Sequences 3
Columns 99
Reading direction reverse
Mean pairwise identity 89.56
Shannon entropy 0.14587
G+C content 0.62041
Mean single sequence MFE -46.07
Consensus MFE -42.01
Energy contribution -42.90
Covariance contribution 0.89
Combinations/Pair 1.07
Mean z-score -2.43
Structure conservation index 0.91
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.09
SVM RNA-class probability 0.982040
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 18331366 99 - 21146708
GCCCGGCUGGAUGCUGGAUUCUUUAUUCUGGAUGCUGGAUGUUGGAUUGCGGAUGCUCCGCCCAGCCGGGAAAGUCACCCCGGGGAAACCCGCGGGCCA
.(((((((((......(((((..(((((........)))))..)))))((((.....))))))))))))).......(((((((....)))).)))... ( -50.50, z-score =  -3.15, R)
>droSim1.chr2R 16931538 99 - 19596830
GCCCGGCUGGAUUCUGGAUUCUUUAUUCUGGCUGCUGGAUGCUGGAUUCCGGAUGCUCCGCCCAGCCGGGAAAGUCACCCCGGGGAAACCUGCGGGCCA
.(((((((((..((((((.(((....((..(...)..))....))).)))))).((...))))))))))).......(((((((....)))).)))... ( -47.20, z-score =  -2.31, R)
>droSec1.super_9 1639916 92 - 3197100
GCCCGGCUGGAUGCUGGAUUCUUCAUU-------CUGUAUGCUGGAUUCCGGAUGCUCCGCCAAGCCGGGAAAGUCACCCCGGGGAAACCUGUGGGCCA
.((((((((((..(((((.(((.(((.-------....)))..))).)))))....)))....))))))).......(((((((....)))).)))... ( -40.50, z-score =  -1.82, R)
>consensus
GCCCGGCUGGAUGCUGGAUUCUUUAUUCUGG_UGCUGGAUGCUGGAUUCCGGAUGCUCCGCCCAGCCGGGAAAGUCACCCCGGGGAAACCUGCGGGCCA
.(((((((((.....((((((..(((((........)))))..))))))(((.....))).))))))))).......(((((((....)))).)))... (-42.01 = -42.90 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 18,331,371 – 18,331,470
Length 99
Sequences 3
Columns 99
Reading direction reverse
Mean pairwise identity 89.56
Shannon entropy 0.14587
G+C content 0.61005
Mean single sequence MFE -40.07
Consensus MFE -35.87
Energy contribution -36.77
Covariance contribution 0.89
Combinations/Pair 1.07
Mean z-score -1.79
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.08
SVM RNA-class probability 0.888392
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 18331371 99 - 21146708
UGCCUGCCCGGCUGGAUGCUGGAUUCUUUAUUCUGGAUGCUGGAUGUUGGAUUGCGGAUGCUCCGCCCAGCCGGGAAAGUCACCCCGGGGAAACCCGCG
.((...(((((((((......(((((..(((((........)))))..)))))((((.....)))))))))))))...........(((....))))). ( -44.70, z-score =  -2.59, R)
>droSim1.chr2R 16931543 99 - 19596830
UGCCUGCCCGGCUGGAUUCUGGAUUCUUUAUUCUGGCUGCUGGAUGCUGGAUUCCGGAUGCUCCGCCCAGCCGGGAAAGUCACCCCGGGGAAACCUGCG
.((...(((((((((..((((((.(((....((..(...)..))....))).)))))).((...)))))))))))...)).....((((....)))).. ( -41.00, z-score =  -1.63, R)
>droSec1.super_9 1639921 92 - 3197100
UGCCUGCCCGGCUGGAUGCUGGAUUCUUCAUU-------CUGUAUGCUGGAUUCCGGAUGCUCCGCCAAGCCGGGAAAGUCACCCCGGGGAAACCUGUG
.((...((((((((((..(((((.(((.(((.-------....)))..))).)))))....)))....)))))))...)).....((((....)))).. ( -34.50, z-score =  -1.15, R)
>consensus
UGCCUGCCCGGCUGGAUGCUGGAUUCUUUAUUCUGG_UGCUGGAUGCUGGAUUCCGGAUGCUCCGCCCAGCCGGGAAAGUCACCCCGGGGAAACCUGCG
.((...(((((((((.....((((((..(((((........)))))..))))))(((.....))).)))))))))...)).....((((....)))).. (-35.87 = -36.77 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:43:20 2011