Locus 15909

Sequence ID dm3.chrYHet
Location 79,970 – 80,055
Length 85
Max. P 0.999972
window21916 window21917

overview

Window 6

Location 79,970 – 80,055
Length 85
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 52.31
Shannon entropy 0.78791
G+C content 0.45929
Mean single sequence MFE -26.04
Consensus MFE -12.86
Energy contribution -13.38
Covariance contribution 0.52
Combinations/Pair 1.58
Mean z-score -2.24
Structure conservation index 0.49
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 4.00
SVM RNA-class probability 0.999549
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrYHet 79970 85 + 347038
--------AGCGGUU-----UUUUUGGGCUUUUGAGAUUCAUCUAAUAGCUUAAGGCCAUUAAACUGUUCAUUAAGCGCGGAAAGAACGUCAUCGGCU
--------.(((.((-----((((((.((((.((((.......((((.((.....)).)))).....))))..)))).)))))))).)))........ ( -18.90, z-score =  -0.16, R)
>droAna3.scaffold_13230 681636 75 - 3602488
--------AGAUGAU-----UUUUUACGCUUUAGAGACUCGUUUAGUAGUUGAAGACUACUAAGCUGUGUAUCGAGCGCACAGAGUUG----------
--------.......-----...............((((((((((((((((...)))))))))))(((((.......)))))))))).---------- ( -21.30, z-score =  -1.84, R)
>dp4.Unknown_singleton_1208 2487 93 + 4803
AGUGGUUUAGUCACCACAGGCCCAGUAGCCUCGGAGACUCAUUCAGCAGUUGCAGACUGCCAAAUUGAGACUCCAUGGCUAGGAGCCGAUCGU-----
.(((((......))))).(((((..(((((..((((.((((....((((((...)))))).....)))).))))..))))))).)))......----- ( -39.40, z-score =  -4.33, R)
>droPer1.super_75 146823 80 - 290005
--------AGUGACC-----UUUUUACGCCUCGGAGAUUCAUUCAGCAGUUGCAGACUGCCAAAUUGAGACUCCAUGGCUAGGAGCCGAUCGU-----
--------.......-----((((((.(((..((((.((((....((((((...)))))).....)))).))))..)))))))))........----- ( -22.40, z-score =  -1.03, R)
>droWil1.scaffold_181145 855079 85 + 2682060
--------ACUGGUC-----CUUUUACGUUUCGGAGACUCAUUCAUAAGCGAUAAACUUCUGAACUGAGUCUCCACCGCAGUAAACUCCACUUGGAGU
--------((((((.-----.....)).....(((((((((((((.(((.......))).)))).)))))))))....))))..(((((....))))) ( -28.20, z-score =  -3.86, R)
>consensus
________AGUGGCC_____UUUUUACGCUUCGGAGACUCAUUCAGCAGUUGAAGACUACUAAACUGAGACUCCAGCGCAAAGAGCCGAUCGU_____
...........................((...((((.(((((((((((((.....))))))))).)))).))))...))................... (-12.86 = -13.38 +   0.52)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 7

Location 79,970 – 80,055
Length 85
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 52.31
Shannon entropy 0.78791
G+C content 0.45929
Mean single sequence MFE -28.25
Consensus MFE -19.14
Energy contribution -18.54
Covariance contribution -0.60
Combinations/Pair 1.71
Mean z-score -3.45
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 5.44
SVM RNA-class probability 0.999972
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrYHet 79970 85 - 347038
AGCCGAUGACGUUCUUUCCGCGCUUAAUGAACAGUUUAAUGGCCUUAAGCUAUUAGAUGAAUCUCAAAAGCCCAAAAA-----AACCGCU--------
.((.((..........)).))((((...((...((((((((((.....))))))))))...))....)))).......-----.......-------- ( -15.30, z-score =  -0.69, R)
>droAna3.scaffold_13230 681636 75 + 3602488
----------CAACUCUGUGCGCUCGAUACACAGCUUAGUAGUCUUCAACUACUAAACGAGUCUCUAAAGCGUAAAAA-----AUCAUCU--------
----------........((((((.((.((...(.((((((((.....)))))))).)..)).))...))))))....-----.......-------- ( -15.80, z-score =  -2.61, R)
>dp4.Unknown_singleton_1208 2487 93 - 4803
-----ACGAUCGGCUCCUAGCCAUGGAGUCUCAAUUUGGCAGUCUGCAACUGCUGAAUGAGUCUCCGAGGCUACUGGGCCUGUGGUGACUAAACCACU
-----......(((((.(((((.(((((.((((.((..(((((.....)))))..)))))).))))).)))))..))))).(((((......))))). ( -47.40, z-score =  -6.28, R)
>droPer1.super_75 146823 80 + 290005
-----ACGAUCGGCUCCUAGCCAUGGAGUCUCAAUUUGGCAGUCUGCAACUGCUGAAUGAAUCUCCGAGGCGUAAAAA-----GGUCACU--------
-----..((((........(((.(((((..(((.((..(((((.....)))))..)))))..))))).))).......-----))))...-------- ( -30.46, z-score =  -3.49, R)
>droWil1.scaffold_181145 855079 85 - 2682060
ACUCCAAGUGGAGUUUACUGCGGUGGAGACUCAGUUCAGAAGUUUAUCGCUUAUGAAUGAGUCUCCGAAACGUAAAAG-----GACCAGU--------
(((((....)))))....((((.((((((((((.((((.((((.....)))).))))))))))))))...))))....-----.......-------- ( -32.30, z-score =  -4.19, R)
>consensus
_____ACGAUCAGCUCCCAGCGAUGGAGACUCAGUUUAGCAGUCUGCAACUACUGAAUGAGUCUCCGAAGCGUAAAAA_____GACCACU________
...................((..(((((((((.((((((((((.....)))))))))))))))))))..))........................... (-19.14 = -18.54 +  -0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:08:05 2011