Locus 10328

Sequence ID	dm3.chr3R
Location	13,086,296 – 13,086,396
Length	100
Max. P	0.766230

overview

Window 9

Location	13,086,296 – 13,086,396
Length	100
Sequences	6
Columns	102
Reading direction	reverse
Mean pairwise identity	86.56
Shannon entropy	0.25704
G+C content	0.51667
Mean single sequence MFE	-27.96
Consensus MFE	-18.42
Energy contribution	-19.15
Covariance contribution	0.73
Combinations/Pair	1.12
Mean z-score	-2.16
Structure conservation index	0.66
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.63
SVM RNA-class probability	0.766230
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 13086296 100 - 27905053
-CCAAACUUAACUCUUUUGCAAGCUGACCUCAGCUGUCGCCAUCCAUCAAAUGCCAACUGAUUCUUGGCCACCAGAG-AGUUGUUCGCCCACCCAGGGCUAU
-.......(((((((((....(((((....)))))((.((((...((((.........))))...)))).)).))))-)))))...((((.....))))... ( -30.00, z-score =  -3.19, R)
>droSim1.chr3R 19131527 100 + 27517382
-CCAAACUUAACUCUUUUGCAAGCUGACCUCAGCUGUCGCCAUCCAUCAAAUGCCAACUGAUUCUUGGCCACCAGAG-AGUUCUUCGCCCACCCAGGGCUAU
-........((((((((....(((((....)))))((.((((...((((.........))))...)))).)).))))-))))....((((.....))))... ( -28.50, z-score =  -3.10, R)
>droSec1.super_12 1052771 100 + 2123299
-CCAAACUUAACUCUUUUGCAAGCUGACCUCAGCUGUCGCCAUCCAUCAUAUGCCAACUGAUUCUUGGCCACCAGAG-AGUUGUUCGCCCACCCAGGGCUAU
-.......(((((((((....(((((....)))))((.((((...((((.........))))...)))).)).))))-)))))...((((.....))))... ( -29.80, z-score =  -3.17, R)
>droYak2.chr3R 17172402 100 - 28832112
-CUAAACUUAACUCUUUUGCGAGCUGACCUCAGCUGUCGCCAUCCAUCAAAUGCCAACUGAUUCUUGGCCAGCAGAG-AGCUGUUCGCCCACCCAGGGCUAU
-..........((((((.((.(((((....)))))...((((...((((.........))))...))))..))))))-))......((((.....))))... ( -29.50, z-score =  -1.95, R)
>droEre2.scaffold_4770 9204948 100 + 17746568
-CUGAACUCAACUCUUUCGCAAGCUGACCUCAGCUGUCGCCAUCCAUCAAAUGCCAACUGAUUCUUGGCCACCAGAG-AGUUGUUCGCCCAUCCAGGACUAU
-..((((..((((((((....(((((....)))))((.((((...((((.........))))...)))).)).))))-))))))))..((.....))..... ( -25.80, z-score =  -1.80, R)
>droAna3.scaffold_13340 10303792 100 - 23697760
CUGGAGUUCAACUCUUUGGAAAGCUGACCUCAGCUGUCGCCAUCCAUCAAAGGUCAACAGCGCCCGCACCUCCAAAACAACUGUUUGCCUGGCC--GGCUAU
..((((.....))))...((.(((((....))))).))(((..(((.....(((.(((((....................))))).))))))..--)))... ( -24.15, z-score =   0.26, R)
>consensus
_CCAAACUUAACUCUUUUGCAAGCUGACCUCAGCUGUCGCCAUCCAUCAAAUGCCAACUGAUUCUUGGCCACCAGAG_AGUUGUUCGCCCACCCAGGGCUAU
....((((...((((...((.(((((....)))))...))............(((((.......)))))....)))).))))....((((.....))))... (-18.42 = -19.15 +   0.73)

alignment

secondary structure

dotplot

Window 0

Location	13,086,297 – 13,086,396
Length	99
Sequences	6
Columns	101
Reading direction	reverse
Mean pairwise identity	86.42
Shannon entropy	0.25958
G+C content	0.52189
Mean single sequence MFE	-27.96
Consensus MFE	-18.42
Energy contribution	-19.15
Covariance contribution	0.73
Combinations/Pair	1.12
Mean z-score	-2.02
Structure conservation index	0.66
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.38
SVM RNA-class probability	0.665948
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 13086297 99 - 27905053
-CCAAACUUAACUCUUUUGCAAGCUGACCUCAGCUGUCGCCAUCCAUCAAAUGCCAACUGAUUCUUGGCCACCAGAG-AGUUGUUCGCCCACCCAGGGCUA
-.......(((((((((....(((((....)))))((.((((...((((.........))))...)))).)).))))-)))))...((((.....)))).. ( -30.00, z-score =  -2.97, R)
>droSim1.chr3R 19131528 99 + 27517382
-CCAAACUUAACUCUUUUGCAAGCUGACCUCAGCUGUCGCCAUCCAUCAAAUGCCAACUGAUUCUUGGCCACCAGAG-AGUUCUUCGCCCACCCAGGGCUA
-........((((((((....(((((....)))))((.((((...((((.........))))...)))).)).))))-))))....((((.....)))).. ( -28.50, z-score =  -2.94, R)
>droSec1.super_12 1052772 99 + 2123299
-CCAAACUUAACUCUUUUGCAAGCUGACCUCAGCUGUCGCCAUCCAUCAUAUGCCAACUGAUUCUUGGCCACCAGAG-AGUUGUUCGCCCACCCAGGGCUA
-.......(((((((((....(((((....)))))((.((((...((((.........))))...)))).)).))))-)))))...((((.....)))).. ( -29.80, z-score =  -3.00, R)
>droYak2.chr3R 17172403 99 - 28832112
-CUAAACUUAACUCUUUUGCGAGCUGACCUCAGCUGUCGCCAUCCAUCAAAUGCCAACUGAUUCUUGGCCAGCAGAG-AGCUGUUCGCCCACCCAGGGCUA
-..........((((((.((.(((((....)))))...((((...((((.........))))...))))..))))))-))......((((.....)))).. ( -29.50, z-score =  -1.83, R)
>droEre2.scaffold_4770 9204949 99 + 17746568
-CUGAACUCAACUCUUUCGCAAGCUGACCUCAGCUGUCGCCAUCCAUCAAAUGCCAACUGAUUCUUGGCCACCAGAG-AGUUGUUCGCCCAUCCAGGACUA
-..((((..((((((((....(((((....)))))((.((((...((((.........))))...)))).)).))))-))))))))..((.....)).... ( -25.80, z-score =  -1.76, R)
>droAna3.scaffold_13340 10303793 99 - 23697760
CUGGAGUUCAACUCUUUGGAAAGCUGACCUCAGCUGUCGCCAUCCAUCAAAGGUCAACAGCGCCCGCACCUCCAAAACAACUGUUUGCCUGGCC--GGCUA
..((((.....))))...((.(((((....))))).))(((..(((.....(((.(((((....................))))).))))))..--))).. ( -24.15, z-score =   0.39, R)
>consensus
_CCAAACUUAACUCUUUUGCAAGCUGACCUCAGCUGUCGCCAUCCAUCAAAUGCCAACUGAUUCUUGGCCACCAGAG_AGUUGUUCGCCCACCCAGGGCUA
....((((...((((...((.(((((....)))))...))............(((((.......)))))....)))).))))....((((.....)))).. (-18.42 = -19.15 +   0.73)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:21:50 2011