Locus 1694

Sequence ID dm3.chr2L
Location 13,076,864 – 13,076,970
Length 106
Max. P 0.878478
window2314 window2315

overview

Window 4

Location 13,076,864 – 13,076,970
Length 106
Sequences 8
Columns 106
Reading direction forward
Mean pairwise identity 69.94
Shannon entropy 0.61432
G+C content 0.45361
Mean single sequence MFE -23.82
Consensus MFE -10.79
Energy contribution -11.22
Covariance contribution 0.44
Combinations/Pair 1.25
Mean z-score -1.02
Structure conservation index 0.45
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.15
SVM RNA-class probability 0.567370
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 13076864 106 + 23011544
AAGCCCCUGACGAUUACGCAUCGUGUGUCGUCGCCAGUUUCCUGACCAAAUAAACAAUGGAAAAUAAGAAAAAGAAGCCCAAGGCGAUUUUUUAAUACCCUUGAAG
..((..(((.((((.((((.....)))).)))).)))(((((................))))).............)).(((((..(((....)))..)))))... ( -20.49, z-score =  -1.40, R)
>droSim1.chr2L 12867162 106 + 22036055
AAGCCCCUGACGAUUACGCAUCGUGUGUCGUCGCCAGUUUCCUGACCAAAUAAACAAUGGAAAAUAAGAAAAAGAGGCCGAAGGCGAUUUUUUAAUACACUUGAAG
..(((...((((((.((((...))))))))))(((..(((((................)))))............)))....)))..................... ( -19.93, z-score =  -0.14, R)
>droSec1.super_16 1231970 106 + 1878335
AAGCCCCUGACGAUUACGCAUCGUGUGUCGUCGCCAGUUUCCUGACCAAAUAAACAAUGGAAAAUAAGAAAAAGAGGCCGAAGGCGAUUUUUUAAUACCCUUGAAG
..(((.(((.((((.((((.....)))).)))).)))(((((................)))))............)))..((((..(((....)))..)))).... ( -20.89, z-score =  -0.59, R)
>droYak2.chr2L 9496925 106 + 22324452
AAGCCCCUGACGAUUACGCAUCGUGUGUCGUCGCCAGUUUCCUGACCAAAUAAACAAUGGAAAAUAAGAAGAAAAGGCCAAAGGCGAUUUUUUAAUACCCUCGAAG
..(((...((((((.((((...))))))))))(((..(((((................)))))............)))....)))..................... ( -19.93, z-score =  -0.40, R)
>droEre2.scaffold_4929 14274535 106 - 26641161
AAGCCCCUGACGAUUGGCCAUCGUGUGUCGUCGCCAGUUUCCUGACCAAAUAAACAAUGGAAAGGAAGCAGCAAAGGCCAAAAGCGAUUUUUUAAUACCCUCGAAG
..(((...((((((..((....))..))))))((..(((((((..(((.........)))..))))))).))...)))............................ ( -25.40, z-score =  -1.08, R)
>droAna3.scaffold_12916 3811439 82 - 16180835
AAGCCUCUGACGAUUACACACUGUGUGUUGUCGCCAGACUCCUGAUCAAACA-----UAGAAAAUAACAAACAUUUUUUAUUUGAAA-------------------
.....((((.((((.((((.....)))).)))).)))).......((((..(-----((((((((.......)))))))))))))..------------------- ( -18.20, z-score =  -2.98, R)
>dp4.chr4_group4 772830 104 + 6586962
AAGCCUCUGACGAUUACGCAUCGUGUGUCGUCCGACAUUCGUCGGCCACACCCCCA--GACCAAACAAUAGAAAUGGUGGGAGGCUGGUAAGUGGGAAAGUCGAAG
...((((.((((((.((((...)))))))))).))((((..((((((...((((((--...(........)...))).))).))))))..)))))).......... ( -32.50, z-score =  -0.83, R)
>droPer1.super_46 301672 104 - 590583
AAGCCUCUGACGAUUACGCAUCGUGUGUCGUCCGACAUUCGUCGGCCACACCCCCA--GACCGAACAAUAGAAAUGGUGGGAGGCUGGUAAGUGGGAAAGUCGAAG
...((((.((((((.((((...)))))))))).))((((..((((((...((((((--...(........)...))).))).))))))..)))))).......... ( -33.20, z-score =  -0.74, R)
>consensus
AAGCCCCUGACGAUUACGCAUCGUGUGUCGUCGCCAGUUUCCUGACCAAAUAAACAAUGGAAAAUAAGAAAAAAAGGCCGAAGGCGAUUUUUUAAUACCCUCGAAG
..(((...((((((.((((...))))))))))..(((....)))......................................)))..................... (-10.79 = -11.22 +   0.44)

alignment

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secondary structure

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dotplot

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Window 5

Location 13,076,864 – 13,076,970
Length 106
Sequences 8
Columns 106
Reading direction reverse
Mean pairwise identity 69.94
Shannon entropy 0.61432
G+C content 0.45361
Mean single sequence MFE -28.99
Consensus MFE -11.74
Energy contribution -12.27
Covariance contribution 0.53
Combinations/Pair 1.31
Mean z-score -1.66
Structure conservation index 0.41
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.04
SVM RNA-class probability 0.878478
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 13076864 106 - 23011544
CUUCAAGGGUAUUAAAAAAUCGCCUUGGGCUUCUUUUUCUUAUUUUCCAUUGUUUAUUUGGUCAGGAAACUGGCGACGACACACGAUGCGUAAUCGUCAGGGGCUU
...((((((.(((....)))).)))))(((((((..........................(((((....)))))(((((...(((...)))..)))))))))))). ( -28.10, z-score =  -1.91, R)
>droSim1.chr2L 12867162 106 - 22036055
CUUCAAGUGUAUUAAAAAAUCGCCUUCGGCCUCUUUUUCUUAUUUUCCAUUGUUUAUUUGGUCAGGAAACUGGCGACGACACACGAUGCGUAAUCGUCAGGGGCUU
......(((.(((....))))))....(((((((..........................(((((....)))))(((((...(((...)))..)))))))))))). ( -26.40, z-score =  -1.49, R)
>droSec1.super_16 1231970 106 - 1878335
CUUCAAGGGUAUUAAAAAAUCGCCUUCGGCCUCUUUUUCUUAUUUUCCAUUGUUUAUUUGGUCAGGAAACUGGCGACGACACACGAUGCGUAAUCGUCAGGGGCUU
.....((((((((....))).))))).(((((((..........................(((((....)))))(((((...(((...)))..)))))))))))). ( -28.50, z-score =  -1.92, R)
>droYak2.chr2L 9496925 106 - 22324452
CUUCGAGGGUAUUAAAAAAUCGCCUUUGGCCUUUUCUUCUUAUUUUCCAUUGUUUAUUUGGUCAGGAAACUGGCGACGACACACGAUGCGUAAUCGUCAGGGGCUU
...((((((((((....))).)))))))((((((..........................(((((....)))))(((((...(((...)))..))))))))))).. ( -29.40, z-score =  -1.83, R)
>droEre2.scaffold_4929 14274535 106 + 26641161
CUUCGAGGGUAUUAAAAAAUCGCUUUUGGCCUUUGCUGCUUCCUUUCCAUUGUUUAUUUGGUCAGGAAACUGGCGACGACACACGAUGGCCAAUCGUCAGGGGCUU
...((((((((((....))).)))))))(((((((.((........(((((((.....(.(((((....))))).)......))))))).....)).))))))).. ( -29.02, z-score =  -0.69, R)
>droAna3.scaffold_12916 3811439 82 + 16180835
-------------------UUUCAAAUAAAAAAUGUUUGUUAUUUUCUA-----UGUUUGAUCAGGAGUCUGGCGACAACACACAGUGUGUAAUCGUCAGAGGCUU
-------------------..(((((((.((((((.....))))))...-----)))))))..(((..((((((((..((((.....))))..))))))))..))) ( -23.30, z-score =  -3.19, R)
>dp4.chr4_group4 772830 104 - 6586962
CUUCGACUUUCCCACUUACCAGCCUCCCACCAUUUCUAUUGUUUGGUC--UGGGGGUGUGGCCGACGAAUGUCGGACGACACACGAUGCGUAAUCGUCAGAGGCUU
....................((((((((.(((..((........))..--)))))((((.((((((....))))).).))))(((((.....)))))..)))))). ( -33.90, z-score =  -1.27, R)
>droPer1.super_46 301672 104 + 590583
CUUCGACUUUCCCACUUACCAGCCUCCCACCAUUUCUAUUGUUCGGUC--UGGGGGUGUGGCCGACGAAUGUCGGACGACACACGAUGCGUAAUCGUCAGAGGCUU
....................((((((((.(((..((........))..--)))))((((.((((((....))))).).))))(((((.....)))))..)))))). ( -33.30, z-score =  -0.94, R)
>consensus
CUUCGAGGGUAUUAAAAAAUCGCCUUCGGCCUUUUCUUCUUAUUUUCCAUUGUUUAUUUGGUCAGGAAACUGGCGACGACACACGAUGCGUAAUCGUCAGGGGCUU
.....................(((((....................................(((....)))..(((((...(((...)))..))))).))))).. (-11.74 = -12.27 +   0.53)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:36:50 2011