Locus 6331

Sequence ID dm3.chr3L
Location 5,701,524 – 5,701,658
Length 134
Max. P 0.982134
window8706 window8707

overview

Window 6

Location 5,701,524 – 5,701,658
Length 134
Sequences 6
Columns 152
Reading direction forward
Mean pairwise identity 70.98
Shannon entropy 0.52376
G+C content 0.36334
Mean single sequence MFE -29.96
Consensus MFE -15.05
Energy contribution -15.11
Covariance contribution 0.06
Combinations/Pair 1.54
Mean z-score -1.99
Structure conservation index 0.50
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.69
SVM RNA-class probability 0.960924
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 5701524 134 + 24543557
--------------AGUGUUUGCCGGAAAAUUACAACUUCCGGUU--AUGGGAAAUCCAACAAAAAGAAAGUUUCUCAAAUUA--CUAUAAGAAGUGACUCGCAGAAGUUUGCUCAGCGCUCAUAAUUAAUAGCCGGCAAAUAACUUUGAAG
--------------..((((((((((((.........))))((((--(((((((((..............)))))))......--......((.(((.((.((((....))))..))))))).......))))))))))))))......... ( -30.84, z-score =  -1.60, R)
>droGri2.scaffold_15110 11114896 144 + 24565398
AAUAUAUUAUAUCAAUUUUCCACAAAUACAUUUCAGUUUUUAUCUCAACACACAGUAUCUUUUAGUCGAGCACUAUCAACUAAACCAAUAUUUAUGCUGCUGUUGAGAAUUGCAC--UCGCCAUAGUUUACCGUCAGCCACUGACU------
..((.(((((................................((((((((..((((((..((((((.((......)).)))))).........)))))).))))))))...((..--..)).))))).))..(((((...))))).------ ( -23.10, z-score =  -1.95, R)
>droSim1.chr3L 5215940 121 + 22553184
--------------AGUGUUUGCCGGAAAAUUACAACUUCCGGUU--AUGGGAAAUCCAACAAAAAGAAAGUUUUUCAAAUUA--CUAUA---AGAAGU-----GAAGUUUGC-----GCUCAUAAUUAAUAGCCGGCAAAUAACUUUGAAG
--------------..((((((((((((.........))))((((--((.((....))........((..((.(((((..((.--.....---.))..)-----))))...))-----..)).......))))))))))))))......... ( -25.40, z-score =  -1.41, R)
>droSec1.super_2 5637349 134 + 7591821
--------------AGUGUUUGCCGGAAAAUUACAACUUCCGGUU--AUGGGAAAUCCAACAAAAAGAAAGUUUUUCAAAUUA--CUAUAAGAAGUGACUCGCAGAAGUUUGCUCAGCGCUCAUAAUUAAUAGCCGGCAAAUAACUUUGAAG
--------------..((((((((((((.........))))((((--(((..((((..............))))..)......--......((.(((.((.((((....))))..))))))).......))))))))))))))......... ( -28.34, z-score =  -0.91, R)
>droYak2.chr3L 6267680 134 + 24197627
--------------AGUGUUUGCCGGAAAAUUACAACUUCCGGUU--AUGGGAAAUCCAACAAAACGAAAGUUUUUCAAAUUA--CAGUAAGCAGAGACCCGUAGAAGUUUGCUCAGUGCUCGUAAUUAAUAGCCGGCAAAUAACUUUGAAG
--------------..((((((((((..((((((((((((....(--(((((.........(((((....)))))........--..(....).....)))))))))))).((.....))..)))))).....))))))))))......... ( -35.60, z-score =  -2.78, R)
>droEre2.scaffold_4784 8392284 131 + 25762168
--------------AGUGUUUGCCGGAAAAUUACAACUUCCGGUU--AUGGGAAAUCCAACAAAAAGAAAGUUUUUCAAAUUA--CUAUG---AGAGACUCGUAGAAGUUUGCUCAGCGCUCGUAAUUAAUAGCCGGCAAAUAAGUUUGAAG
--------------..((((((((((..((((((...(((((...--.))))).............((..(((...((((((.--(((((---((...))))))).))))))...)))..)))))))).....))))))))))......... ( -36.50, z-score =  -3.26, R)
>consensus
______________AGUGUUUGCCGGAAAAUUACAACUUCCGGUU__AUGGGAAAUCCAACAAAAAGAAAGUUUUUCAAAUUA__CUAUAAG_AGAGACUCGUAGAAGUUUGCUCAGCGCUCAUAAUUAAUAGCCGGCAAAUAACUUUGAAG
................((((((((((........((((((........(((.....)))..........(((((((.................)))))))....)))))).((.....)).............))))))))))......... (-15.05 = -15.11 +   0.06)

alignment

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secondary structure

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dotplot

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Window 7

Location 5,701,524 – 5,701,658
Length 134
Sequences 6
Columns 152
Reading direction reverse
Mean pairwise identity 70.98
Shannon entropy 0.52376
G+C content 0.36334
Mean single sequence MFE -31.51
Consensus MFE -16.34
Energy contribution -17.07
Covariance contribution 0.73
Combinations/Pair 1.31
Mean z-score -2.13
Structure conservation index 0.52
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.09
SVM RNA-class probability 0.982134
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 5701524 134 - 24543557
CUUCAAAGUUAUUUGCCGGCUAUUAAUUAUGAGCGCUGAGCAAACUUCUGCGAGUCACUUCUUAUAG--UAAUUUGAGAAACUUUCUUUUUGUUGGAUUUCCCAU--AACCGGAAGUUGUAAUUUUCCGGCAAACACU--------------
...........((((((((.....((((((..((.....)).((((((((.((((...((((((...--.....)))))))))).....((((.((....)).))--)).))))))))))))))..))))))))....-------------- ( -31.50, z-score =  -1.64, R)
>droGri2.scaffold_15110 11114896 144 - 24565398
------AGUCAGUGGCUGACGGUAAACUAUGGCGA--GUGCAAUUCUCAACAGCAGCAUAAAUAUUGGUUUAGUUGAUAGUGCUCGACUAAAAGAUACUGUGUGUUGAGAUAAAAACUGAAAUGUAUUUGUGGAAAAUUGAUAUAAUAUAUU
------.(((((...))))).........(.((((--(((((..((((((((((((......((((..(((((((((......))))))))).)))))))).))))))))............))))))))).)................... ( -34.24, z-score =  -1.57, R)
>droSim1.chr3L 5215940 121 - 22553184
CUUCAAAGUUAUUUGCCGGCUAUUAAUUAUGAGC-----GCAAACUUC-----ACUUCU---UAUAG--UAAUUUGAAAAACUUUCUUUUUGUUGGAUUUCCCAU--AACCGGAAGUUGUAAUUUUCCGGCAAACACU--------------
...........((((((((..((((((((((((.-----.........-----....))---)))))--).........(((((((...((((.((....)).))--))..))))))).))))...))))))))....-------------- ( -24.84, z-score =  -1.86, R)
>droSec1.super_2 5637349 134 - 7591821
CUUCAAAGUUAUUUGCCGGCUAUUAAUUAUGAGCGCUGAGCAAACUUCUGCGAGUCACUUCUUAUAG--UAAUUUGAAAAACUUUCUUUUUGUUGGAUUUCCCAU--AACCGGAAGUUGUAAUUUUCCGGCAAACACU--------------
...........((((((((.....((((((..((.....)).(((((((((((((.(((......))--).))))).............((((.((....)).))--)).))))))))))))))..))))))))....-------------- ( -31.00, z-score =  -1.83, R)
>droYak2.chr3L 6267680 134 - 24197627
CUUCAAAGUUAUUUGCCGGCUAUUAAUUACGAGCACUGAGCAAACUUCUACGGGUCUCUGCUUACUG--UAAUUUGAAAAACUUUCGUUUUGUUGGAUUUCCCAU--AACCGGAAGUUGUAAUUUUCCGGCAAACACU--------------
...........((((((((.....((((((..(((.((((((....((....))....)))))).))--).........((((((((..((((.((....)).))--)).))))))))))))))..))))))))....-------------- ( -37.70, z-score =  -3.61, R)
>droEre2.scaffold_4784 8392284 131 - 25762168
CUUCAAACUUAUUUGCCGGCUAUUAAUUACGAGCGCUGAGCAAACUUCUACGAGUCUCU---CAUAG--UAAUUUGAAAAACUUUCUUUUUGUUGGAUUUCCCAU--AACCGGAAGUUGUAAUUUUCCGGCAAACACU--------------
...........((((((((.....((((((..((..((((...((((....))))..))---))..)--).........(((((((...((((.((....)).))--))..)))))))))))))..))))))))....-------------- ( -29.80, z-score =  -2.27, R)
>consensus
CUUCAAAGUUAUUUGCCGGCUAUUAAUUAUGAGCGCUGAGCAAACUUCUACGAGUCUCU_CUUAUAG__UAAUUUGAAAAACUUUCUUUUUGUUGGAUUUCCCAU__AACCGGAAGUUGUAAUUUUCCGGCAAACACU______________
...........((((((((.....((((((..((.....))......................................(((((((.......(((.....))).......)))))))))))))..)))))))).................. (-16.34 = -17.07 +   0.73)

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 23:05:39 2011