Locus 13353

Sequence ID	dm3.chrX
Location	6,008,000 – 6,008,063
Length	63
Max. P	0.810399

overview

Window 3

Location	6,008,000 – 6,008,063
Length	63
Sequences	13
Columns	63
Reading direction	forward
Mean pairwise identity	79.08
Shannon entropy	0.48350
G+C content	0.61294
Mean single sequence MFE	-25.14
Consensus MFE	-16.10
Energy contribution	-16.16
Covariance contribution	0.06
Combinations/Pair	1.65
Mean z-score	-1.19
Structure conservation index	0.64
Background model	dinucleotide
Decision model	sequence based alignment quality
SVM decision value	0.76
SVM RNA-class probability	0.810399
Prediction	RNA

Download alignment: ClustalW | MAF

>dm3.chrX 6008000 63 + 22422827
AUCCCGGGCGAGCCGGAUCUUGGAGAGGCGUGGCGCCUCGCUGCGCCGCUCCUUGAUGGAGUA
...((((.....))))(((..((((.((((..(((...)))..)))).))))..)))...... ( -32.20, z-score =  -1.92, R)
>droSim1.chrX_random 1896919 63 + 5698898
AUCCCGGGCGAGCCGGAUUUUGGAGAGGCGUGGCGCCUCGCUGCGCCGCUCCUUGAUGGAGUA
...((((.....))))(((..((((.((((..(((...)))..)))).))))..)))...... ( -30.40, z-score =  -1.71, R)
>droSec1.super_4 5421381 63 - 6179234
AUCCCGGGCGAGCCGGAUUUUGGAGAGGCGUGGCGCCUCGCUGCGCCGCUCCUUGAUGGAGUA
...((((.....))))(((..((((.((((..(((...)))..)))).))))..)))...... ( -30.40, z-score =  -1.71, R)
>droYak2.chrX 2017886 63 + 21770863
AUCCCGGGCGAGCCGGAUCUUGGAGAGGCGUGGCGCCUCGCUGCGCCGCUCCUUGAUGGAGUA
...((((.....))))(((..((((.((((..(((...)))..)))).))))..)))...... ( -32.20, z-score =  -1.92, R)
>droEre2.scaffold_4690 14987081 63 + 18748788
AUCCCGGGCGAGCCGGAUCUUGGAGAGGCGUGGCGCCUCGCUGCGCCGCUCCUUGAUGGAGUA
...((((.....))))(((..((((.((((..(((...)))..)))).))))..)))...... ( -32.20, z-score =  -1.92, R)
>droAna3.scaffold_13417 604370 63 + 6960332
AUCCCGGACGAGACGGAUUUUGGAGAGGCGUGGCGCCUCGCUGCGUCGCUCCUUGAUCGAGUA
....((.......))((((..((((.((((..(((...)))..)))).))))..))))..... ( -25.50, z-score =  -1.10, R)
>dp4.Unknown_group_804 53530 63 + 58332
CUCCCGGACGAGCCGGAUCUUGGAAAGGCGCGACGCCUCGCUGCGUCUGUCCUUGACGGAGUA
(((((((.....)))..((..(((.(((((((.((...)).))))))).)))..)).)))).. ( -23.90, z-score =  -0.60, R)
>droPer1.super_324 22913 63 - 26204
CUCCCGGACGAGCCGGAUCUUGGAAAGGCGCGGCGCCUCGCUGCGUCUGUCCUUGACGGAGUA
(((((((.....)))..((..(((.((((((((((...)))))))))).)))..)).)))).. ( -30.50, z-score =  -2.25, R)
>droWil1.scaffold_181150 2254741 63 - 4952429
UUCGCGUACCAACCGGAUUUUGGAGAGGCGCGAAGCAUCGCCCCGCCUGUCCUUGAUGGAGUA
............(((......(((.((((((((....))))...)))).)))....))).... ( -18.50, z-score =  -0.18, R)
>droVir3.scaffold_12928 730959 63 + 7717345
AUCGCGUAUGAGCCGCAUUUUGGUUAGGCGUGGCGCCUCGCUGCGUCGUUCCUUGAUCGAGUA
...((......))((.(((..((...((((..(((...)))..))))...))..))))).... ( -19.80, z-score =  -0.01, R)
>droMoj3.scaffold_6328 1700078 63 + 4453435
AUCGCGUAUGAGACGCAUUUUCGAUAACCGUGGCGCCUCGUUGCGUCGCUCCUUGAUCGAGUA
...((((.....))))...((((((....(((((((......)))))))......)))))).. ( -20.20, z-score =  -1.02, R)
>droGri2.scaffold_14853 2382182 63 - 10151454
AUCGCGUAUAAGUCGCAUCUUGGAUAUGCGUGGCGCCUCGUUGCGUCGAUCCUUGAUCGAGUA
..........(.(((.(((..((((..(((..(((...)))..)))..))))..)))))).). ( -20.60, z-score =  -0.99, R)
>anoGam1.chr2R 22074779 56 + 62725911
AUCCUGCAC---CUGGAUGUUGUACAGCUUUAAAGAUUC----CGCCUUUUUCUGGGUGAAUA
......(((---(..((.(((....)))...((((....----...)))).))..)))).... ( -10.40, z-score =  -0.16, R)
>consensus
AUCCCGGACGAGCCGGAUCUUGGAGAGGCGUGGCGCCUCGCUGCGCCGCUCCUUGAUGGAGUA
...(((.......))).((..(((..(((((((((...)))))))))..)))..))....... (-16.10 = -16.16 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:19:44 2011