Locus 2284

Sequence ID dm3.chr2L
Location 17,596,378 – 17,596,475
Length 97
Max. P 0.745215
window3153 window3154

overview

Window 3

Location 17,596,378 – 17,596,475
Length 97
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 88.01
Shannon entropy 0.20440
G+C content 0.39852
Mean single sequence MFE -20.23
Consensus MFE -13.84
Energy contribution -14.00
Covariance contribution 0.16
Combinations/Pair 1.07
Mean z-score -2.29
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.57
SVM RNA-class probability 0.745215
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 17596378 97 + 23011544
GUAGCCCACGCCAGGACAUGUUUCUUCUUUUAUUUUUCUUUUUUUU---GCCAUCCGAAGAGCGCAUGUAAACAUUUUCCGUUGUUUACUUCUUGGGCAU
...(((((....((((.((((((((((...................---.......)))))).))))(((((((........)))))))))))))))).. ( -21.27, z-score =  -2.23, R)
>droSim1.chr2L 17300011 100 + 22036055
GUAGCCCACGCCACGAUGUGUUUCUUCUUUUAUUUUUCUUUUUUUUUUUGCCAUCCCAAGAGCGCAUGUAAACAUUUUUCGUUGUUUACUUCUUGGGCAU
...(((((.......(((((((.(((...............................))))))))))(((((((........)))))))....))))).. ( -20.68, z-score =  -2.87, R)
>droSec1.super_7 1237697 95 + 3727775
GUAGCCCACGCCACGAUGUGUUUCUUCUUUUAUUUUUCUUUUUU-----GCCAUCCCAAGAGCGCAUGUAAACAUUUUCCGUUGUUUACUACUUGGGCAU
...(((((.......(((((((.(((..................-----........))))))))))(((((((........)))))))....))))).. ( -20.87, z-score =  -2.65, R)
>droYak2.chr2R 17636759 95 - 21139217
GUAGCCCUCGCCAGGACAUGUUUUUUCUUUUAUUUUUCUUUUUU-----GCCAUCCCGAGAGCGCAUGUAAACAUUUUUCGUUGUUUACUUCUUGGGCAU
...((((........((((((.(((((.................-----........))))).))))))(((((........))))).......)))).. ( -18.21, z-score =  -1.29, R)
>droEre2.scaffold_4845 15934630 85 - 22589142
----------CCAGGAUAUGUUUCUGCUCUUAUUUUUCUUUUUU-----GCCAUCCCGAGAGCGCAUGUAAACAUUUUCCGUUGUUUACUUCUUGGGCAU
----------((((((.((((....((((((.............-----........))))))))))(((((((........))))))).)))))).... ( -20.10, z-score =  -2.43, R)
>consensus
GUAGCCCACGCCAGGAUAUGUUUCUUCUUUUAUUUUUCUUUUUU_____GCCAUCCCAAGAGCGCAUGUAAACAUUUUCCGUUGUUUACUUCUUGGGCAU
......................................................((((((((.....(((((((........)))))))))))))))... (-13.84 = -14.00 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 17,596,378 – 17,596,475
Length 97
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 88.01
Shannon entropy 0.20440
G+C content 0.39852
Mean single sequence MFE -20.57
Consensus MFE -15.19
Energy contribution -16.91
Covariance contribution 1.72
Combinations/Pair 1.09
Mean z-score -1.75
Structure conservation index 0.74
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.00
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>dm3.chr2L 17596378 97 - 23011544
AUGCCCAAGAAGUAAACAACGGAAAAUGUUUACAUGCGCUCUUCGGAUGGC---AAAAAAAAGAAAAAUAAAAGAAGAAACAUGUCCUGGCGUGGGCUAC
..((((.....(((((((........))))))).(((..((....))..))---)..........................((((....))))))))... ( -21.60, z-score =  -1.63, R)
>droSim1.chr2L 17300011 100 - 22036055
AUGCCCAAGAAGUAAACAACGAAAAAUGUUUACAUGCGCUCUUGGGAUGGCAAAAAAAAAAAGAAAAAUAAAAGAAGAAACACAUCGUGGCGUGGGCUAC
..((((.....(((((((........)))))))..(((((...(.((((.................................)))).))))))))))... ( -22.31, z-score =  -2.52, R)
>droSec1.super_7 1237697 95 - 3727775
AUGCCCAAGUAGUAAACAACGGAAAAUGUUUACAUGCGCUCUUGGGAUGGC-----AAAAAAGAAAAAUAAAAGAAGAAACACAUCGUGGCGUGGGCUAC
..((((.....(((((((........)))))))..(((((...(.((((..-----..........................)))).))))))))))... ( -22.49, z-score =  -1.90, R)
>droYak2.chr2R 17636759 95 + 21139217
AUGCCCAAGAAGUAAACAACGAAAAAUGUUUACAUGCGCUCUCGGGAUGGC-----AAAAAAGAAAAAUAAAAGAAAAAACAUGUCCUGGCGAGGGCUAC
..((((.....(((((((........)))))))...(((...((((((...-----...........................))))))))).))))... ( -22.21, z-score =  -2.36, R)
>droEre2.scaffold_4845 15934630 85 + 22589142
AUGCCCAAGAAGUAAACAACGGAAAAUGUUUACAUGCGCUCUCGGGAUGGC-----AAAAAAGAAAAAUAAGAGCAGAAACAUAUCCUGG----------
....(((.((.(((((((........)))))))....(((((........(-----......).......))))).........)).)))---------- ( -14.26, z-score =  -0.33, R)
>consensus
AUGCCCAAGAAGUAAACAACGGAAAAUGUUUACAUGCGCUCUUGGGAUGGC_____AAAAAAGAAAAAUAAAAGAAGAAACAUAUCCUGGCGUGGGCUAC
..((((.....(((((((........)))))))..(((((...((((((.................................)))))))))))))))... (-15.19 = -16.91 +   1.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:48:25 2011