Locus 2779

Sequence ID dm3.chr2L
Location 22,269,834 – 22,269,944
Length 110
Max. P 0.999164
window3822 window3823

overview

Window 2

Location 22,269,834 – 22,269,944
Length 110
Sequences 7
Columns 110
Reading direction forward
Mean pairwise identity 68.13
Shannon entropy 0.61558
G+C content 0.50995
Mean single sequence MFE -27.97
Consensus MFE -15.09
Energy contribution -16.20
Covariance contribution 1.11
Combinations/Pair 1.41
Mean z-score -1.77
Structure conservation index 0.54
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.41
SVM RNA-class probability 0.990190
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 22269834 110 + 23011544
GCUGGACUACACUAGGCGACAGCGCGACAACGCCGUCGCCUCGACACUCGCCUCACUCGUAACGGUACUUUGGCGCCAGUCAUAUUCUUCGUGGUAGUCAAAUUCUAAGA
....((((((((.(((((((.(((......))).))))))).(((...((((..(((......))).....))))...))).........)).))))))........... ( -35.00, z-score =  -1.65, R)
>droSim1.chrU 10082218 91 - 15797150
------UUACACUCGGCGACAGCGCGACAGCACCGUCGCCUC------------ACUCGUAAUUGUAUUUUGGCAAGUGUAAU-UUUUUUGUUUUGAACGGACUUCAAAA
------((((((..((((((.(.((....)).).))))))..------------........((((......)))))))))).-.......(((((((.....))))))) ( -24.50, z-score =  -1.60, R)
>droSec1.super_72 42855 83 - 149286
GCUGGACUACACACGGAGACAGCGCGACAACGCCGUC---------------------------GCACUUUGGAGCCAGUCAUAUUCUACGUUGUAGUCAAAUUCUAAGA
....(((((((.(((.(((.((.(((((......)))---------------------------)).))(((....)))......))).))))))))))........... ( -23.90, z-score =  -1.54, R)
>droYak2.chr3L 23750628 97 + 24197627
GCUGGACUACACUUGGCGACAGCGCGACAACGCCGUCGCCUC------------ACUCAUUUCGGUACUUUGGCGCCAGUCAUAUUAUGCGUCGUAGUCAAAUUAUAGA-
....((((((....((((((.(((......))).))))))..------------.................(((((............)))))))))))..........- ( -30.90, z-score =  -1.89, R)
>droWil1.scaffold_181154 2779707 97 - 4610121
GCUGGACUACACUCGGCGACAGCGCGACAACGCUGUCGCCUC------------ACUCGUA-CGGCACCUAGGCGCCAGUCAUAUUCUUCGCUAUAGUCAAAUUCUAAGA
....(((((.....((((((((((......))))))))))..------------.......-.(((.(....).))).................)))))........... ( -32.70, z-score =  -2.77, R)
>droVir3.scaffold_13324 1039760 97 + 2960039
GCUGGACUACACUCGGGGACAGCGCGACAACGCCGUCCCCUC------------ACUUGUA-CGGUAUUUUGGCGCCAGUCAUAUUCUACGUUAUAGUCAAAUUCUAAGA
....(((((.....((((((.(((......))).))))))..------------....(((-..(((...((((....)))))))..)))....)))))........... ( -28.20, z-score =  -1.76, R)
>droMoj3.scaffold_6500 1112820 86 - 32352404
GUUGGACUACACUCAGCGACAGCGCGACACCGCCGUCGCCUC------------GCUCAAA---GGACACCACCGAUAUUCAUAAUUGUUGGAAUUUCUAA---------
(.((..((......(((((..(.(((((......))))))))------------)))...)---)..)).).((((((........)))))).........--------- ( -20.60, z-score =  -1.16, R)
>consensus
GCUGGACUACACUCGGCGACAGCGCGACAACGCCGUCGCCUC____________ACUCGUA_CGGUACUUUGGCGCCAGUCAUAUUCUUCGUUAUAGUCAAAUUCUAAGA
....(((((.....((((((.(((......))).)))))).......................(((........))).................)))))........... (-15.09 = -16.20 +   1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 22,269,834 – 22,269,944
Length 110
Sequences 7
Columns 110
Reading direction reverse
Mean pairwise identity 68.13
Shannon entropy 0.61558
G+C content 0.50995
Mean single sequence MFE -33.19
Consensus MFE -21.24
Energy contribution -21.86
Covariance contribution 0.62
Combinations/Pair 1.52
Mean z-score -2.30
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.68
SVM RNA-class probability 0.999164
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 22269834 110 - 23011544
UCUUAGAAUUUGACUACCACGAAGAAUAUGACUGGCGCCAAAGUACCGUUACGAGUGAGGCGAGUGUCGAGGCGACGGCGUUGUCGCGCUGUCGCCUAGUGUAGUCCAGC
...........((((((.((........((((...((((....(((((...)).))).))))...))))((((((((((((....)))))))))))).)))))))).... ( -43.50, z-score =  -2.79, R)
>droSim1.chrU 10082218 91 + 15797150
UUUUGAAGUCCGUUCAAAACAAAAAA-AUUACACUUGCCAAAAUACAAUUACGAGU------------GAGGCGACGGUGCUGUCGCGCUGUCGCCGAGUGUAA------
(((((((.....))))))).......-.((((((((.......(((........))------------).(((((((((((....)))))))))))))))))))------ ( -32.40, z-score =  -3.95, R)
>droSec1.super_72 42855 83 + 149286
UCUUAGAAUUUGACUACAACGUAGAAUAUGACUGGCUCCAAAGUGC---------------------------GACGGCGUUGUCGCGCUGUCUCCGUGUGUAGUCCAGC
...........((((((((((.(((.......((....)).(((((---------------------------((((....))))))))).))).))).))))))).... ( -26.60, z-score =  -1.76, R)
>droYak2.chr3L 23750628 97 - 24197627
-UCUAUAAUUUGACUACGACGCAUAAUAUGACUGGCGCCAAAGUACCGAAAUGAGU------------GAGGCGACGGCGUUGUCGCGCUGUCGCCAAGUGUAGUCCAGC
-..........(((((((((.(((......(((........)))......))).))------------..(((((((((((....)))))))))))...))))))).... ( -33.40, z-score =  -1.97, R)
>droWil1.scaffold_181154 2779707 97 + 4610121
UCUUAGAAUUUGACUAUAGCGAAGAAUAUGACUGGCGCCUAGGUGCCG-UACGAGU------------GAGGCGACAGCGUUGUCGCGCUGUCGCCGAGUGUAGUCCAGC
...........(((((((...............(((((....))))).-.......------------..(((((((((((....)))))))))))...))))))).... ( -39.30, z-score =  -2.95, R)
>droVir3.scaffold_13324 1039760 97 - 2960039
UCUUAGAAUUUGACUAUAACGUAGAAUAUGACUGGCGCCAAAAUACCG-UACAAGU------------GAGGGGACGGCGUUGUCGCGCUGUCCCCGAGUGUAGUCCAGC
...........(((((((..........(.(((.(((.........))-)...)))------------.)(((((((((((....)))))))))))...))))))).... ( -32.40, z-score =  -2.25, R)
>droMoj3.scaffold_6500 1112820 86 + 32352404
---------UUAGAAAUUCCAACAAUUAUGAAUAUCGGUGGUGUCC---UUUGAGC------------GAGGCGACGGCGGUGUCGCGCUGUCGCUGAGUGUAGUCCAAC
---------...((.((((..........)))).)).....((..(---(....((------------..((((((((((......))))))))))..))..))..)).. ( -24.70, z-score =  -0.40, R)
>consensus
UCUUAGAAUUUGACUACAACGAAGAAUAUGACUGGCGCCAAAGUACCG_UACGAGU____________GAGGCGACGGCGUUGUCGCGCUGUCGCCGAGUGUAGUCCAGC
...........((((((.((............((....))..............................(((((((((((....)))))))))))..)))))))).... (-21.24 = -21.86 +   0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:57:46 2011