Locus 2247

Sequence ID dm3.chr2L
Location 17,293,704 – 17,293,810
Length 106
Max. P 0.909380
window3097 window3098

overview

Window 7

Location 17,293,704 – 17,293,810
Length 106
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 82.33
Shannon entropy 0.32500
G+C content 0.49492
Mean single sequence MFE -33.20
Consensus MFE -17.85
Energy contribution -17.72
Covariance contribution -0.14
Combinations/Pair 1.18
Mean z-score -2.16
Structure conservation index 0.54
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.37
SVM RNA-class probability 0.662585
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 17293704 106 - 23011544
GCAGGAAAACUGCAGCUG------AAAAACAGUUGUUGACUGUUUGCCGGCAUCGCCUAUAUCUCCAUCAUCAUGAU--GUUGAUGAUCAUCAUCAUCUUCACCUCGCAACAGG
((((.....)))).((((------..((((((((...))))))))..))))...((.........((((.....)))--)..((((((....))))))........))...... ( -29.00, z-score =  -1.72, R)
>droAna3.scaffold_12916 12610928 101 + 16180835
GCUGCCAGUCUCUUGCCGGCACACGAAAACAGUUGUUGACUGUUUGCCGGCAUCGCUUGCAACAUCAUCAUGGCGACGAGGUGGUGAUAAUGACGACCCCC-------------
..(((.(((....((((((((......(((((((...)))))))))))))))..))).))).(((((((.((....)).)))))))...............------------- ( -35.10, z-score =  -1.59, R)
>droEre2.scaffold_4845 15631344 106 + 22589142
GCAGGAAAACUGCAGCUG------GAAAACAGUUGUUGACUGUUUGCCGGCAUCGCCUAUAUCUCCAUCACCGUGAG--GUUGAUGAUCAUCAUCAUCUUCACCUCGCAACAGG
((((.....)))).((((------(.((((((((...)))))))).))))).....................(((((--((.((((((....))))))...)))))))...... ( -39.40, z-score =  -4.07, R)
>droYak2.chr2R 17325845 106 + 21139217
GCAGGAAAACUGCAGCUG------GAAAACAGUUGUUGACUGUUUGCCGGCAUCGCCUAUAUCUCCAUCACCGUGAU--GUUGAUGAUCAUCAUCGUCUCCACCUCGCAACAGU
((((.....)))).((((------(.((((((((...)))))))).))))).....................((((.--((.((((((....))))))...)).))))...... ( -32.50, z-score =  -2.15, R)
>droSec1.super_7 926954 106 - 3727775
GCAGGAAAACUGCAGCUG------GAAAACAGUUGUUGACUGUUUGCCGGCAUCGCCUAUAUCUCCAUCACCAUGAU--GUUGAUGAUCAUCAUCGUCUUCACCUCGCAACGGG
((((.....)))).((((------(.((((((((...)))))))).)))))...((.........((((.....)))--)..((((((....))))))........))...... ( -31.60, z-score =  -1.71, R)
>droSim1.chr2L 16989193 106 - 22036055
GCAGGAAAACUGCAGCUG------GAAAACAGUUGUUGACUGUUUGCCGGCAUCGCCUAUAUCUCCAUCACCAUGAU--GUUGAUGAUCAUCAUCGUCUUCACCUCGCAACGGG
((((.....)))).((((------(.((((((((...)))))))).)))))...((.........((((.....)))--)..((((((....))))))........))...... ( -31.60, z-score =  -1.71, R)
>consensus
GCAGGAAAACUGCAGCUG______GAAAACAGUUGUUGACUGUUUGCCGGCAUCGCCUAUAUCUCCAUCACCAUGAU__GUUGAUGAUCAUCAUCAUCUUCACCUCGCAACAGG
((((.....)))).((((........((((((((...))))))))..))))...............................((((((....))))))................ (-17.85 = -17.72 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 17,293,708 – 17,293,810
Length 102
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 83.57
Shannon entropy 0.30036
G+C content 0.48457
Mean single sequence MFE -33.20
Consensus MFE -17.85
Energy contribution -17.72
Covariance contribution -0.14
Combinations/Pair 1.18
Mean z-score -2.71
Structure conservation index 0.54
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.20
SVM RNA-class probability 0.909380
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 17293708 102 - 23011544
GCAGGAAAACUGCAGCUG------AAAAACAGUUGUUGACUGUUUGCCGGCAUCGCCUAUAUCUCCAUCAUCAUGAU--GUUGAUGAUCAUCAUCAUCUUCACCUCGCAA
((((.....)))).((((------..((((((((...))))))))..))))...((.........((((.....)))--)..((((((....))))))........)).. ( -29.00, z-score =  -2.27, R)
>droAna3.scaffold_12916 12610928 101 + 16180835
GCUGCCAGUCUCUUGCCGGCACACGAAAACAGUUGUUGACUGUUUGCCGGCAUCGCUUGCAACAUCAUCAUGGCGACGAGGUGGUGAUAAUGACGACCCCC---------
..(((.(((....((((((((......(((((((...)))))))))))))))..))).))).(((((((.((....)).)))))))...............--------- ( -35.10, z-score =  -1.59, R)
>droEre2.scaffold_4845 15631348 102 + 22589142
GCAGGAAAACUGCAGCUG------GAAAACAGUUGUUGACUGUUUGCCGGCAUCGCCUAUAUCUCCAUCACCGUGAG--GUUGAUGAUCAUCAUCAUCUUCACCUCGCAA
((((.....)))).((((------(.((((((((...)))))))).))))).....................(((((--((.((((((....))))))...))))))).. ( -39.40, z-score =  -4.64, R)
>droYak2.chr2R 17325849 102 + 21139217
GCAGGAAAACUGCAGCUG------GAAAACAGUUGUUGACUGUUUGCCGGCAUCGCCUAUAUCUCCAUCACCGUGAU--GUUGAUGAUCAUCAUCGUCUCCACCUCGCAA
((((.....)))).((((------(.((((((((...)))))))).))))).....................((((.--((.((((((....))))))...)).)))).. ( -32.50, z-score =  -2.67, R)
>droSec1.super_7 926958 102 - 3727775
GCAGGAAAACUGCAGCUG------GAAAACAGUUGUUGACUGUUUGCCGGCAUCGCCUAUAUCUCCAUCACCAUGAU--GUUGAUGAUCAUCAUCGUCUUCACCUCGCAA
((((.....)))).((((------(.((((((((...)))))))).)))))...((.........((((.....)))--)..((((((....))))))........)).. ( -31.60, z-score =  -2.56, R)
>droSim1.chr2L 16989197 102 - 22036055
GCAGGAAAACUGCAGCUG------GAAAACAGUUGUUGACUGUUUGCCGGCAUCGCCUAUAUCUCCAUCACCAUGAU--GUUGAUGAUCAUCAUCGUCUUCACCUCGCAA
((((.....)))).((((------(.((((((((...)))))))).)))))...((.........((((.....)))--)..((((((....))))))........)).. ( -31.60, z-score =  -2.56, R)
>consensus
GCAGGAAAACUGCAGCUG______GAAAACAGUUGUUGACUGUUUGCCGGCAUCGCCUAUAUCUCCAUCACCAUGAU__GUUGAUGAUCAUCAUCAUCUUCACCUCGCAA
((((.....)))).((((........((((((((...))))))))..))))...............................((((((....))))))............ (-17.85 = -17.72 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:47:39 2011