Locus 14929

Sequence ID dm3.chrX
Location 16,398,221 – 16,398,333
Length 112
Max. P 0.950940
window20568 window20569

overview

Window 8

Location 16,398,221 – 16,398,333
Length 112
Sequences 9
Columns 112
Reading direction forward
Mean pairwise identity 87.95
Shannon entropy 0.24975
G+C content 0.68651
Mean single sequence MFE -56.35
Consensus MFE -38.37
Energy contribution -38.36
Covariance contribution -0.01
Combinations/Pair 1.15
Mean z-score -1.86
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.12
SVM RNA-class probability 0.553574
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 16398221 112 + 22422827
GGAUGCAGUGCAGCCUCUUCGGCGGCAGCCGCAUCCGCUGCUGCCUGAGCCUGCGCAUUGGCCCGCUCCUCCAGCUUGGCCGCUUUGGCGGCGGCAGCUUCUUCCGCUUCCU
(((.((.((((((.(((...(((((((((.......))))))))).))).))))))....(((.(((.....)))...(((((....))))))))..........)).))). ( -55.10, z-score =  -1.41, R)
>droSim1.chrX 12597228 112 + 17042790
GGAUGCAGUGCAGCCUCUUCGGCGGCAGCCGCAUCCGCUGCUGCCUGAGCCUGCGCAUUGGCCCGCUCCUCCAGCUUGGCCGCUUUGGCGGCGGCAGCUUCUUCCGCUUCCU
(((.((.((((((.(((...(((((((((.......))))))))).))).))))))....(((.(((.....)))...(((((....))))))))..........)).))). ( -55.10, z-score =  -1.41, R)
>droSec1.super_17 211969 112 + 1527944
GGAUGCAGUGCAGCCUCUUCGGCGGCAGCCGCAUCCGCUGCUGCCUGAGCCUGCGCAUUGGCCCGCUCCUCCAGCUUGGCCGCUUUGGCGGCGGCAGCUUCUUCCGCUUCCU
(((.((.((((((.(((...(((((((((.......))))))))).))).))))))....(((.(((.....)))...(((((....))))))))..........)).))). ( -55.10, z-score =  -1.41, R)
>droYak2.chrX 10513461 112 + 21770863
GGAUGCAGUGCAGCCUCUUCGGCGGCAGCCGCAUCCGCUGCUGCCUGAGCCUGCGCAUUGGCCCGCUCCUCCAGCUUGGCCGCUUUGGCGGCGGCAGCUUCUUCCGCUUCCU
(((.((.((((((.(((...(((((((((.......))))))))).))).))))))....(((.(((.....)))...(((((....))))))))..........)).))). ( -55.10, z-score =  -1.41, R)
>droEre2.scaffold_4690 8043207 112 - 18748788
GGAUGCAGUGCAGCCUCUUCGGCGGCAGCCGCAUCCGCUGCUGCCUGAGCCUGCGCAUUGGCCCGCUCCUCCAGCUUGGCCGCUUUGGCGGCGGCAGCUUCUUCCGCUUCCU
(((.((.((((((.(((...(((((((((.......))))))))).))).))))))....(((.(((.....)))...(((((....))))))))..........)).))). ( -55.10, z-score =  -1.41, R)
>droWil1.scaffold_181096 5814485 112 + 12416693
GGAUGAAGAGCUGCCUCCUCGGCGGCAGCAGCAUCGGCAGCGGCCUGUGCCUGGGCAUUGGCUCUUUCCUCUAAUUUUGCUGCCUUGGCAGCUGCCGCUUCUUCUGCUUCCU
(((.(((((((.(((.....)))((((((.((...((((((((((.((((....)))).))))...............))))))...)).)))))))).)))))....))). ( -52.96, z-score =  -2.54, R)
>droVir3.scaffold_12970 2103187 112 + 11907090
GGAUGCAGUGCCGCCUCUUCGGCGGCAGCGGCAUCGGCGGCGGCCUGUGCAUGCGCAUUGGCGCGCUCCUCCAGCUUAGCCGCCUUCGCAGCGGCCGCCUCCUCUGCCUCCU
(((.((..(((((((.....)))))))))((((..((.(((((((...((.((((....((((.(((..........)))))))..))))))))))))).))..))))))). ( -60.60, z-score =  -2.15, R)
>droMoj3.scaffold_6359 3317840 112 + 4525533
GGAUGCAGGGCCGCCUCCUCGGCGGCGGCUGCAUCUGCGGCGGCUUGCGCCUGCGCAUUGGCUCGCUCCUCCAACUUAGCGGCCUUCGCAGCGGCCGCCUCUUCUGCCUCCU
(((.(((((((((......))))(((((((((....((((((.....)))).))((...(((.((((..........)))))))...)).)))))))))...))))).))). ( -58.50, z-score =  -2.23, R)
>droGri2.scaffold_14853 3251558 112 - 10151454
GGAUGCAGUGCAGCCUCCUCGGCGGCGGCUGCAUCAGCGGCGGCCUGCGCCUGCGCAUUAGCGCGCUCCUCCAACUUGGCUGCUUUCGCAGCGGCCGCCUCUUCUGCCUCCU
(((.(((((((((((.((.....)).)))))))..((.(((((((.((((..((......))))))............(((((....)))))))))))).)).)))).))). ( -59.60, z-score =  -2.77, R)
>consensus
GGAUGCAGUGCAGCCUCUUCGGCGGCAGCCGCAUCCGCUGCUGCCUGAGCCUGCGCAUUGGCCCGCUCCUCCAGCUUGGCCGCUUUGGCGGCGGCAGCUUCUUCCGCUUCCU
.(((((.((((.(((.....))).))).).)))))....((((((.(.(((........))).)..............(((((....))))))))))).............. (-38.37 = -38.36 +  -0.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 16,398,221 – 16,398,333
Length 112
Sequences 9
Columns 112
Reading direction reverse
Mean pairwise identity 87.95
Shannon entropy 0.24975
G+C content 0.68651
Mean single sequence MFE -58.52
Consensus MFE -48.02
Energy contribution -46.98
Covariance contribution -1.05
Combinations/Pair 1.36
Mean z-score -2.12
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.57
SVM RNA-class probability 0.950940
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 16398221 112 - 22422827
AGGAAGCGGAAGAAGCUGCCGCCGCCAAAGCGGCCAAGCUGGAGGAGCGGGCCAAUGCGCAGGCUCAGGCAGCAGCGGAUGCGGCUGCCGCCGAAGAGGCUGCACUGCAUCC
......(....)..(((((((((((....)))))...(((.....)))(((((........))))).))))))...((((((((.(((.(((.....))).))))))))))) ( -56.60, z-score =  -1.29, R)
>droSim1.chrX 12597228 112 - 17042790
AGGAAGCGGAAGAAGCUGCCGCCGCCAAAGCGGCCAAGCUGGAGGAGCGGGCCAAUGCGCAGGCUCAGGCAGCAGCGGAUGCGGCUGCCGCCGAAGAGGCUGCACUGCAUCC
......(....)..(((((((((((....)))))...(((.....)))(((((........))))).))))))...((((((((.(((.(((.....))).))))))))))) ( -56.60, z-score =  -1.29, R)
>droSec1.super_17 211969 112 - 1527944
AGGAAGCGGAAGAAGCUGCCGCCGCCAAAGCGGCCAAGCUGGAGGAGCGGGCCAAUGCGCAGGCUCAGGCAGCAGCGGAUGCGGCUGCCGCCGAAGAGGCUGCACUGCAUCC
......(....)..(((((((((((....)))))...(((.....)))(((((........))))).))))))...((((((((.(((.(((.....))).))))))))))) ( -56.60, z-score =  -1.29, R)
>droYak2.chrX 10513461 112 - 21770863
AGGAAGCGGAAGAAGCUGCCGCCGCCAAAGCGGCCAAGCUGGAGGAGCGGGCCAAUGCGCAGGCUCAGGCAGCAGCGGAUGCGGCUGCCGCCGAAGAGGCUGCACUGCAUCC
......(....)..(((((((((((....)))))...(((.....)))(((((........))))).))))))...((((((((.(((.(((.....))).))))))))))) ( -56.60, z-score =  -1.29, R)
>droEre2.scaffold_4690 8043207 112 + 18748788
AGGAAGCGGAAGAAGCUGCCGCCGCCAAAGCGGCCAAGCUGGAGGAGCGGGCCAAUGCGCAGGCUCAGGCAGCAGCGGAUGCGGCUGCCGCCGAAGAGGCUGCACUGCAUCC
......(....)..(((((((((((....)))))...(((.....)))(((((........))))).))))))...((((((((.(((.(((.....))).))))))))))) ( -56.60, z-score =  -1.29, R)
>droWil1.scaffold_181096 5814485 112 - 12416693
AGGAAGCAGAAGAAGCGGCAGCUGCCAAGGCAGCAAAAUUAGAGGAAAGAGCCAAUGCCCAGGCACAGGCCGCUGCCGAUGCUGCUGCCGCCGAGGAGGCAGCUCUUCAUCC
.(((..........((((((((.((...((((((....((....))..(.(((..(((....)))..))))))))))...)).)))))))).((((((....)))))).))) ( -50.20, z-score =  -2.39, R)
>droVir3.scaffold_12970 2103187 112 - 11907090
AGGAGGCAGAGGAGGCGGCCGCUGCGAAGGCGGCUAAGCUGGAGGAGCGCGCCAAUGCGCAUGCACAGGCCGCCGCCGAUGCCGCUGCCGCCGAAGAGGCGGCACUGCAUCC
.(((((((..((.((((((((((((....)))))...(((.....)))((((....)))).......))))))).))..))))(((((((((.....)))))))..)).))) ( -68.00, z-score =  -3.99, R)
>droMoj3.scaffold_6359 3317840 112 - 4525533
AGGAGGCAGAAGAGGCGGCCGCUGCGAAGGCCGCUAAGUUGGAGGAGCGAGCCAAUGCGCAGGCGCAAGCCGCCGCAGAUGCAGCCGCCGCCGAGGAGGCGGCCCUGCAUCC
.(((.((((....(((.((..(((((..(((((((..........)))).))).....((.(((....))))))))))..)).)))((((((.....)))))).)))).))) ( -59.60, z-score =  -2.34, R)
>droGri2.scaffold_14853 3251558 112 + 10151454
AGGAGGCAGAAGAGGCGGCCGCUGCGAAAGCAGCCAAGUUGGAGGAGCGCGCUAAUGCGCAGGCGCAGGCCGCCGCUGAUGCAGCCGCCGCCGAGGAGGCUGCACUGCAUCC
.(((.((((.((.((((((((((((....)))(((..(((.....)))((((....)))).))))).))))))).))..(((((((.((.....)).))))))))))).))) ( -65.90, z-score =  -3.88, R)
>consensus
AGGAAGCGGAAGAAGCUGCCGCCGCCAAAGCGGCCAAGCUGGAGGAGCGGGCCAAUGCGCAGGCUCAGGCAGCAGCGGAUGCGGCUGCCGCCGAAGAGGCUGCACUGCAUCC
.(((.((((.....(((((((((((....)))))...(((.....)))(((((........))))).)))))).......((((((..(......).)))))).)))).))) (-48.02 = -46.98 +  -1.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:49:43 2011