Locus 15496

Sequence ID dm3.chrX
Location 19,299,542 – 19,299,676
Length 134
Max. P 0.891679
window21364 window21365

overview

Window 4

Location 19,299,542 – 19,299,646
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 85.54
Shannon entropy 0.22509
G+C content 0.53951
Mean single sequence MFE -35.74
Consensus MFE -29.78
Energy contribution -30.14
Covariance contribution 0.36
Combinations/Pair 1.14
Mean z-score -1.66
Structure conservation index 0.83
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.72
SVM RNA-class probability 0.796696
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19299542 104 + 22422827
--------------CCCAGACACACGCAUUGGGCGGCAAAACAGUUUUUGGACAUUUCCGAAUUGCGAGCAAG--AUUUGUUCGCCAGAUGCUGCGAUGCCGCCGAUAUCGGUGGAUGGA
--------------.(((..(((.((...(.(((((((...((((.((((((....))))))..(((((((..--...))))))).....))))...))))))).)...)))))..))). ( -43.30, z-score =  -3.87, R)
>droSim1.chrX 14917072 97 + 17042790
--------------CCCAGACGCACGCAAUGGGCGGCAAAACAGUUUUUGGACAUUUCCGAAUUGCGAGCGAG--AUUUGUUCGCCAGAUG---CGAUGCCGCCGAUAUCGGUGGA----
--------------......(((.((..((.(((((((........((((((....))))))..((((((((.--..))))))))......---...))))))).))..)))))..---- ( -33.90, z-score =  -1.36, R)
>droSec1.super_8 1591607 97 + 3762037
--------------CCCAGACGCACGCAAUGGGCGGCAAAACAGUUUUUGGACAUUUCCGAAUUGCGAGCGAG--AUUUGCUCGCCAGAUG---CGAUGCCGCCGAUAUCGGUGGA----
--------------......(((.((..((.(((((((........((((((....))))))..((((((((.--..))))))))......---...))))))).))..)))))..---- ( -36.30, z-score =  -1.91, R)
>droYak2.chrX 9741090 113 - 21770863
GCUGGAGAGCACACGCAGGACACACGCAAUGGGCUGCAAAACAGUUUUUGGACAUUUCCGAAUUGCGAGCGAGAGAUUUGUUCGCCAGAUG---CGAUGCCGCCGAUAUUGGGGGU----
.((((.((((((.(((.(....).((((((((((((.....))))))(((((....))))))))))).))).).....))))).))))...---....(((.(((....))).)))---- ( -33.90, z-score =  -0.28, R)
>droEre2.scaffold_4690 9549575 97 + 18748788
-------------CCCAAG-CACACGCAAUGGGCUGCAAAACAGUUUUUGGACAUUUCCGAAUUGCGAGCGAG--AUUUGUUCGCCAGAUG---CGAUGCCGCCGAUAUUGGGGGU----
-------------((((((-(....)).((.(((.(((........((((((....))))))..((((((((.--..))))))))......---...))).))).)).)))))...---- ( -31.30, z-score =  -0.86, R)
>consensus
______________CCCAGACACACGCAAUGGGCGGCAAAACAGUUUUUGGACAUUUCCGAAUUGCGAGCGAG__AUUUGUUCGCCAGAUG___CGAUGCCGCCGAUAUCGGUGGA____
....................(((.((..((.(((((((........((((((....))))))..(((((((((...)))))))))............))))))).))..)))))...... (-29.78 = -30.14 +   0.36)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 5

Location 19,299,568 – 19,299,676
Length 108
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 69.71
Shannon entropy 0.54339
G+C content 0.52111
Mean single sequence MFE -32.48
Consensus MFE -20.96
Energy contribution -22.13
Covariance contribution 1.17
Combinations/Pair 1.38
Mean z-score -1.04
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.10
SVM RNA-class probability 0.891679
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 19299568 108 + 22422827
ACAGUUUUUGGACAUUUCCGAAUUGCGAGCAAGA--UUUGUUCGCCAGAUGCUGCGAU-GCCGCCGAUAUCGGUGGAUGGAUGUGAACG-------UGGCCAGUGGAAAGUUUCAAGG
......((((((..((((((....(((((((...--..))))))).....((..(...-.((((((....))))))......(....))-------..))...))))))..)))))). ( -34.60, z-score =  -1.17, R)
>droSim1.chrX 14917098 101 + 17042790
ACAGUUUUUGGACAUUUCCGAAUUGCGAGCGAGA--UUUGUUCGCCAGAUGC---GAU-GCCGCCGAUAUCGGUGGAUG--UGAACGUG---------GCCUGUGGAAAGUUUCAAGG
......((((((..((((((....((((((((..--.))))))))(((..((---...-.((((((....))))))(((--....))).---------)))))))))))..)))))). ( -32.80, z-score =  -1.35, R)
>droSec1.super_8 1591633 101 + 3762037
ACAGUUUUUGGACAUUUCCGAAUUGCGAGCGAGA--UUUGCUCGCCAGAUGC---GAU-GCCGCCGAUAUCGGUGGAUU--UGAACGUG---------GCCUGUGGAAAGUUUCAAGG
......((((((..((((((....((((((((..--.))))))))(((..((---.((-(((((((....))))))...--....))).---------)))))))))))..)))))). ( -34.81, z-score =  -1.93, R)
>droYak2.chrX 9741130 113 - 21770863
ACAGUUUUUGGACAUUUCCGAAUUGCGAGCGAGAGAUUUGUUCGCCAGAUGC---GAU-GCCGCCGAUAUUGGGGGUUUG-UGUGAGUGAGUGGACAGGCCACAGGAAAGUUUCAAGG
......((((((..(((((.....(((((((((...)))))))))...((((---((.-(((.(((....))).))))))-)))......((((.....)))).)))))..)))))). ( -34.10, z-score =  -1.10, R)
>droEre2.scaffold_4690 9549601 101 + 18748788
ACAGUUUUUGGACAUUUCCGAAUUGCGAGCGAGA--UUUGUUCGCCAGAUGC---GAU-GCCGCCGAUAUUGGGGGUUC--UGAAAGUG---------GCCUGUGGAAAGUUUCAAGG
......((((((..((((((......((((((..--.))))))((((....(---(..-(((.(((....))).)))..--))....))---------))...))))))..)))))). ( -28.00, z-score =   0.07, R)
>droAna3.scaffold_13417 4288931 81 - 6960332
---AUUCGCAGGCAUUUGCAAGCGGCGAGUGGGA--CUCGCUUCCCGGAUACCGAAACCGGGGCUGCGGUCGGCAGAUGUUCAAGG--------------------------------
---.......(((((((((..((((((((.....--)))....(((((.........)))))))))).....))))))))).....-------------------------------- ( -30.60, z-score =  -0.76, R)
>consensus
ACAGUUUUUGGACAUUUCCGAAUUGCGAGCGAGA__UUUGUUCGCCAGAUGC___GAU_GCCGCCGAUAUCGGUGGAUG__UGAAAGUG_________GCCUGUGGAAAGUUUCAAGG
......((((((..(((((.....(((((((((...)))))))))...............((((((....))))))............................)))))..)))))). (-20.96 = -22.13 +   1.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 02:00:33 2011