Locus 14582

Sequence ID dm3.chrX
Location 14,236,413 – 14,236,504
Length 91
Max. P 0.979321
window20076 window20077

overview

Window 6

Location 14,236,413 – 14,236,504
Length 91
Sequences 5
Columns 121
Reading direction forward
Mean pairwise identity 70.15
Shannon entropy 0.45307
G+C content 0.53163
Mean single sequence MFE -31.70
Consensus MFE -25.02
Energy contribution -25.46
Covariance contribution 0.44
Combinations/Pair 1.13
Mean z-score -1.68
Structure conservation index 0.79
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.02
SVM RNA-class probability 0.979321
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 14236413 91 + 22422827
AUUUUUGGCCACGGGGGCGAC--------GUCUUCGCAUACCCAGUACUCAUGCGAGAGUUGGGUGUGCUGGG-UUAGGCUUUAUACUGAGAAGGAACAA---------------------
.......(((.....)))...--------.(((((((((((((((..(((....)))..))))))))))....-((((........))))))))).....--------------------- ( -31.20, z-score =  -1.75, R)
>droSim1.chrX 10930863 78 + 17042790
AUUUUUGGCCACGGGGGCGAC--------GUCUUCGCAUACCCAGUACUCAUGCGAUUGGUGGGUGUGCUAGG-UUAGGCUUUACAC----------------------------------
...(((((((..((((((...--------))))))(((((((((.((.((....)).)).)))))))))..))-)))))........---------------------------------- ( -28.60, z-score =  -2.38, R)
>droSec1.super_20 839180 89 + 1148123
AUUUUUGGCCACGGGGGCGAC--------GUCUUCGCACACCCAGUACUCAUGCGAUUGCUGGGUGUGCUGGG-UUAGGCUUUAUACUGAGAAGGAAC-----------------------
.......(((.....)))...--------.(((((((((((((((((.((....)).))))))))))))....-((((........)))))))))...----------------------- ( -35.00, z-score =  -3.09, R)
>droYak2.chrX 8479284 120 + 21770863
AUUUUUGGCCAUGGGGGCGACAUGGGGGCGUCUUCACAUACCCAGUACUCAUGCGAGAGGUGGGUGUGCUAGC-UUCGGUUUCGUACUGAGACUAACUUUUCCGGGAUGGAGAAUAAACAA
((((((.(((.(((..(.(.....(((((.......((((((((.(.(((....))).).))))))))...))-)))((((((.....))))))..).)..))))).).))))))...... ( -35.70, z-score =  -0.14, R)
>droEre2.scaffold_4690 6043199 81 - 18748788
AUUUUUGGCCACGGGGGCGAC--------GUCUUCGCAUACCCCGUACUCAUGCGAGAGGUGGGUGUGCAGGUACUACGUCUAACACAA--------------------------------
.......(((.....)))(((--------(((((.(((((((((.(.(((....)))).).)))))))))))....)))))........-------------------------------- ( -28.00, z-score =  -1.06, R)
>consensus
AUUUUUGGCCACGGGGGCGAC________GUCUUCGCAUACCCAGUACUCAUGCGAGAGGUGGGUGUGCUGGG_UUAGGCUUUAUACUGAGA___A_________________________
......((((..((((((...........))))))(((((((((.(.(((....))).).)))))))))........))))........................................ (-25.02 = -25.46 +   0.44)

alignment

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secondary structure

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dotplot

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Window 7

Location 14,236,413 – 14,236,504
Length 91
Sequences 5
Columns 121
Reading direction reverse
Mean pairwise identity 70.15
Shannon entropy 0.45307
G+C content 0.53163
Mean single sequence MFE -23.46
Consensus MFE -15.92
Energy contribution -16.56
Covariance contribution 0.64
Combinations/Pair 1.06
Mean z-score -1.32
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.96
SVM RNA-class probability 0.861089
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 14236413 91 - 22422827
---------------------UUGUUCCUUCUCAGUAUAAAGCCUAA-CCCAGCACACCCAACUCUCGCAUGAGUACUGGGUAUGCGAAGAC--------GUCGCCCCCGUGGCCAAAAAU
---------------------......((((...((.....))....-....(((.(((((((((......))))..))))).)))))))..--------(((((....)))))....... ( -22.50, z-score =  -1.81, R)
>droSim1.chrX 10930863 78 - 17042790
----------------------------------GUGUAAAGCCUAA-CCUAGCACACCCACCAAUCGCAUGAGUACUGGGUAUGCGAAGAC--------GUCGCCCCCGUGGCCAAAAAU
----------------------------------.......(((...-....(((.(((((....((....))....))))).)))....((--------(.......))))))....... ( -16.50, z-score =  -0.05, R)
>droSec1.super_20 839180 89 - 1148123
-----------------------GUUCCUUCUCAGUAUAAAGCCUAA-CCCAGCACACCCAGCAAUCGCAUGAGUACUGGGUGUGCGAAGAC--------GUCGCCCCCGUGGCCAAAAAU
-----------------------....((((...((.....))....-....((((((((((...((....))...))))))))))))))..--------(((((....)))))....... ( -27.40, z-score =  -3.10, R)
>droYak2.chrX 8479284 120 - 21770863
UUGUUUAUUCUCCAUCCCGGAAAAGUUAGUCUCAGUACGAAACCGAA-GCUAGCACACCCACCUCUCGCAUGAGUACUGGGUAUGUGAAGACGCCCCCAUGUCGCCCCCAUGGCCAAAAAU
..........((((((((((....(((((..((.((.....)).)).-.)))))........(((......)))..))))).))).)).((((......))))(((.....)))....... ( -27.50, z-score =  -0.99, R)
>droEre2.scaffold_4690 6043199 81 + 18748788
--------------------------------UUGUGUUAGACGUAGUACCUGCACACCCACCUCUCGCAUGAGUACGGGGUAUGCGAAGAC--------GUCGCCCCCGUGGCCAAAAAU
--------------------------------........(((((......((((.((((....(((....)))....)))).))))...))--------)))(((.....)))....... ( -23.40, z-score =  -0.65, R)
>consensus
_________________________U___UCUCAGUAUAAAGCCUAA_CCCAGCACACCCACCUCUCGCAUGAGUACUGGGUAUGCGAAGAC________GUCGCCCCCGUGGCCAAAAAU
....................................................(((.(((((...(((....)))...))))).)))...((((......))))(((.....)))....... (-15.92 = -16.56 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:42:51 2011