Locus 4996

Sequence ID dm3.chr2R
Location 17,020,891 – 17,020,985
Length 94
Max. P 0.973679
window6861 window6862

overview

Window 1

Location 17,020,891 – 17,020,985
Length 94
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 76.78
Shannon entropy 0.44967
G+C content 0.42644
Mean single sequence MFE -25.84
Consensus MFE -15.12
Energy contribution -16.27
Covariance contribution 1.14
Combinations/Pair 1.20
Mean z-score -1.39
Structure conservation index 0.59
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.48
SVM RNA-class probability 0.711567
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 17020891 94 + 21146708
UGUUAAUUAUGGCCAAGCGAAAGAAGUAAAUGAG--UGGCCUAUGCUUUUAGCCAAGUUGCCCUUGGUGAUUUCGCUUGGCAAGCCGCUAAGAGAU
...........(((((((((((((((((....((--....)).))))))).((((((.....))))))...))))))))))............... ( -28.10, z-score =  -1.57, R)
>droAna3.scaffold_13266 12946100 89 - 19884421
UUUUAAUUAUGGCCAAGUAUAAGAAUUGAAUGAGAAUGGUCGCGGCAAUUAAACGAACCUUUCGCUUUCCCAUUCCGUUAAGAUCUUCC-------
....................((((....((((.((((((..((((................))))....))))))))))....))))..------- ( -13.09, z-score =   0.74, R)
>droEre2.scaffold_4845 11165088 91 + 22589142
UGAUAAUUAUGGCCAAGCGAAAGAAGUAAAUGAG--UGGCCUAUGCUUUUGGCCAAU---GCCAACUUGAAUUCGCUUGGCAAGCCGCUAAGAGGU
...........((((((((((..((((.......--(((((.........)))))..---....))))...))))))))))..(((.......))) ( -30.12, z-score =  -2.39, R)
>droYak2.chr2R 8965487 91 - 21139217
UGUUAAUUAUGGCCAAGCGAAAGAAGUAAAUGAG--UGGCCUAUGCUUUUAGCCAAG---GCCAAUAUGAUUUCGCUUGGCAAGCUGCUAAGAGAA
...........(((((((((((...(((......--((((((..((.....))..))---)))).)))..)))))))))))............... ( -30.70, z-score =  -2.94, R)
>droSec1.super_9 349723 94 + 3197100
UGUUAAUUAUGGCCAAGCGAAAGAAGUAAAUGAG--UGGCCUAUGCUUUUAGCCAAGUUGGCCUUGGUAAUUUCGCUUGGCAAGCCGCUAAGAGAU
...........(((((((((((((((((....((--....)).))))))).((((((.....))))))...))))))))))............... ( -28.10, z-score =  -1.26, R)
>droSim1.chr2R 15678215 94 + 19596830
UGUUAAUUAUGGCCAAGCGAAAGAAGUAAAUGAG--UGGCCUAUGCUUUUAGCCAAGUUGGCCUUGGUAAUUUCGCUUGACAAGCCGCUAAGAGAU
.(((..((((((((((((((((((((((....((--....)).))))))).((((((.....))))))...))))))))....)))).)))..))) ( -24.90, z-score =  -0.93, R)
>consensus
UGUUAAUUAUGGCCAAGCGAAAGAAGUAAAUGAG__UGGCCUAUGCUUUUAGCCAAGUUGGCCUUGGUGAUUUCGCUUGGCAAGCCGCUAAGAGAU
...........(((((((((((..............((((...........))))...............)))))))))))............... (-15.12 = -16.27 +   1.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 17,020,891 – 17,020,985
Length 94
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 76.78
Shannon entropy 0.44967
G+C content 0.42644
Mean single sequence MFE -23.66
Consensus MFE -16.49
Energy contribution -16.97
Covariance contribution 0.48
Combinations/Pair 1.31
Mean z-score -1.81
Structure conservation index 0.70
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.89
SVM RNA-class probability 0.973679
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 17020891 94 - 21146708
AUCUCUUAGCGGCUUGCCAAGCGAAAUCACCAAGGGCAACUUGGCUAAAAGCAUAGGCCA--CUCAUUUACUUCUUUCGCUUGGCCAUAAUUAACA
...............(((((((((((......(((....)))((((.........)))).--............)))))))))))........... ( -25.30, z-score =  -2.02, R)
>droAna3.scaffold_13266 12946100 89 + 19884421
-------GGAAGAUCUUAACGGAAUGGGAAAGCGAAAGGUUCGUUUAAUUGCCGCGACCAUUCUCAUUCAAUUCUUAUACUUGGCCAUAAUUAAAA
-------((..((...(((..(((((((((..((...(((..........))).))....))))))))).....)))...))..)).......... ( -15.60, z-score =   0.32, R)
>droEre2.scaffold_4845 11165088 91 - 22589142
ACCUCUUAGCGGCUUGCCAAGCGAAUUCAAGUUGGC---AUUGGCCAAAAGCAUAGGCCA--CUCAUUUACUUCUUUCGCUUGGCCAUAAUUAUCA
...............((((((((((...((((....---..(((((.........)))))--.......))))..))))))))))........... ( -27.12, z-score =  -2.48, R)
>droYak2.chr2R 8965487 91 + 21139217
UUCUCUUAGCAGCUUGCCAAGCGAAAUCAUAUUGGC---CUUGGCUAAAAGCAUAGGCCA--CUCAUUUACUUCUUUCGCUUGGCCAUAAUUAACA
...............(((((((((((......((((---((..((.....))..))))))--............)))))))))))........... ( -26.77, z-score =  -3.13, R)
>droSec1.super_9 349723 94 - 3197100
AUCUCUUAGCGGCUUGCCAAGCGAAAUUACCAAGGCCAACUUGGCUAAAAGCAUAGGCCA--CUCAUUUACUUCUUUCGCUUGGCCAUAAUUAACA
...............(((((((((((((((((((.....))))).)))..((....))..--............)))))))))))........... ( -24.80, z-score =  -2.01, R)
>droSim1.chr2R 15678215 94 - 19596830
AUCUCUUAGCGGCUUGUCAAGCGAAAUUACCAAGGCCAACUUGGCUAAAAGCAUAGGCCA--CUCAUUUACUUCUUUCGCUUGGCCAUAAUUAACA
..........(((....(((((((((((((((((.....))))).)))..((....))..--............)))))))))))).......... ( -22.40, z-score =  -1.55, R)
>consensus
AUCUCUUAGCGGCUUGCCAAGCGAAAUCACCAAGGCCAACUUGGCUAAAAGCAUAGGCCA__CUCAUUUACUUCUUUCGCUUGGCCAUAAUUAACA
...............(((((((((((...............(((((.........)))))..............)))))))))))........... (-16.49 = -16.97 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:39:54 2011