Locus 2792

Sequence ID dm3.chr2L
Location 22,407,806 – 22,407,924
Length 118
Max. P 0.998595
window3841 window3842

overview

Window 1

Location 22,407,806 – 22,407,924
Length 118
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 67.63
Shannon entropy 0.58348
G+C content 0.53394
Mean single sequence MFE -37.98
Consensus MFE -20.80
Energy contribution -23.16
Covariance contribution 2.36
Combinations/Pair 1.23
Mean z-score -1.45
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.61
SVM RNA-class probability 0.955206
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 22407806 118 + 23011544
UGAACUUCGGCCGGCGGUAGUGCUCUACUGACUGGGGUCUCGCAGCUCUACUCACUCCACCACCGCCGGCGGCAAUGGCACAGCAUCCUGGGGUAACCUUGAACUUCGUCUGAUUUGA
.(((.(((((((((((((.(((......(((.((((((......)))))).)))...))).)))))))))((.....((.(((....)))..))..)).)))).)))........... ( -37.60, z-score =   0.12, R)
>droSim1.chr2h_random 780520 118 - 3178526
UGAACUUCGGCCGGCGGUAGUGCUCUACUGACUGGGGUGUCGGAGCUCUACUCACUCCACUACCGCCGGCGGCAAUGUCAUAGCAUCCUGGGAUAAACUUGAAUUUCGUCUGAUUUGA
.(((.(((((((((((((((((......(((.((((((......)))))).)))...))))))))))))).....((((.(((....))).))))....)))).)))........... ( -42.30, z-score =  -2.19, R)
>droSec1.super_162 12836 118 + 37850
GAAACUCCGGCCGGCGGUAGUGCUCUACUGACUGGGGUGUCGGAGCUCUACUCACUCCACUACCGCCGGCGGCAAUGGCAUAGCAUCCUGGGAUAAACUUGAAUUUCGUCUGAUUUGA
.....(((.(((((((((((((......(((.((((((......)))))).)))...))))))))))))).((....))...........))).....(..((((......))))..) ( -41.00, z-score =  -1.45, R)
>droEre2.scaffold_4929 12728927 118 - 26641161
UGAACUCCGGCCGGCGGUAGCACUCUCCUAACUGGGGAGACCGAGCUCUACUCACUCCACUACCGCCGGCCCCGAUGGGACAGCAUCCUAGGUUUAACUUGAACUACGUUUGCUUUGA
.((((...((((((((((((..((((((.....))))))...(((.....)))......))))))))))))....(((((.....)))))(((((.....)))))..))))....... ( -46.30, z-score =  -3.67, R)
>droAna3.scaffold_13228 1071623 111 - 1099307
UGACCAGCUUAUAGCAGAUGUGGUCUAAUG-UUGAUAAUUCACCGUCUUUAUUGCUUAACUCGCACCAGUCGGGCAUGUUCGACAAGUCACUCGGCAAAUAAACCACUUUAG------
......((.....))....(((((.((.((-((((.......(((.((....(((.......)))..)).)))......)))))).(((....)))...)).))))).....------ ( -22.72, z-score =  -0.07, R)
>consensus
UGAACUCCGGCCGGCGGUAGUGCUCUACUGACUGGGGUGUCGGAGCUCUACUCACUCCACUACCGCCGGCGGCAAUGGCACAGCAUCCUGGGAUAAACUUGAACUUCGUCUGAUUUGA
.........(((((((((((((......(((.((((((......)))))).)))...)))))))))))))................................................ (-20.80 = -23.16 +   2.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 22,407,806 – 22,407,924
Length 118
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 67.63
Shannon entropy 0.58348
G+C content 0.53394
Mean single sequence MFE -40.33
Consensus MFE -23.06
Energy contribution -24.66
Covariance contribution 1.60
Combinations/Pair 1.47
Mean z-score -2.45
Structure conservation index 0.57
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.41
SVM RNA-class probability 0.998595
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 22407806 118 - 23011544
UCAAAUCAGACGAAGUUCAAGGUUACCCCAGGAUGCUGUGCCAUUGCCGCCGGCGGUGGUGGAGUGAGUAGAGCUGCGAGACCCCAGUCAGUAGAGCACUACCGCCGGCCGAAGUUCA
...........(((.(((..(((....((((....))).).....)))(((((((((((((............((((..(((....))).))))..))))))))))))).))).))). ( -42.74, z-score =  -1.91, R)
>droSim1.chr2h_random 780520 118 + 3178526
UCAAAUCAGACGAAAUUCAAGUUUAUCCCAGGAUGCUAUGACAUUGCCGCCGGCGGUAGUGGAGUGAGUAGAGCUCCGACACCCCAGUCAGUAGAGCACUACCGCCGGCCGAAGUUCA
...........(((.(((..(((((((....))))....)))......(((((((((((((((((.......)))))(((......)))........)))))))))))).))).))). ( -42.80, z-score =  -3.96, R)
>droSec1.super_162 12836 118 - 37850
UCAAAUCAGACGAAAUUCAAGUUUAUCCCAGGAUGCUAUGCCAUUGCCGCCGGCGGUAGUGGAGUGAGUAGAGCUCCGACACCCCAGUCAGUAGAGCACUACCGCCGGCCGGAGUUUC
...........(((((((.(((..(((....))))))...........(((((((((((((((((.......)))))(((......)))........))))))))))))..))))))) ( -44.00, z-score =  -3.78, R)
>droEre2.scaffold_4929 12728927 118 + 26641161
UCAAAGCAAACGUAGUUCAAGUUAAACCUAGGAUGCUGUCCCAUCGGGGCCGGCGGUAGUGGAGUGAGUAGAGCUCGGUCUCCCCAGUUAGGAGAGUGCUACCGCCGGCCGGAGUUCA
....((((..(...(((.......)))...)..)))).(((......(((((((((((((.((((.......))))(.(((((.......))))).)))))))))))))))))..... ( -44.80, z-score =  -1.98, R)
>droAna3.scaffold_13228 1071623 111 + 1099307
------CUAAAGUGGUUUAUUUGCCGAGUGACUUGUCGAACAUGCCCGACUGGUGCGAGUUAAGCAAUAAAGACGGUGAAUUAUCAA-CAUUAGACCACAUCUGCUAUAAGCUGGUCA
------.....((((((((((..(((......((((..(((.(((((....)).))).)))..))))......)))..)).......-...))))))))(((.((.....)).))).. ( -27.30, z-score =  -0.60, R)
>consensus
UCAAAUCAGACGAAGUUCAAGUUUAUCCCAGGAUGCUGUGCCAUUGCCGCCGGCGGUAGUGGAGUGAGUAGAGCUCCGACACCCCAGUCAGUAGAGCACUACCGCCGGCCGAAGUUCA
...........(((.(((.............((((......))))...(((((((((((((((((.......)))).(((......))).......))))))))))))).))).))). (-23.06 = -24.66 +   1.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:58:01 2011