Locus 1922

Sequence ID dm3.chr2L
Location 14,783,057 – 14,783,109
Length 52
Max. P 0.996663
window2652 window2653

overview

Window 2

Location 14,783,057 – 14,783,109
Length 52
Sequences 7
Columns 60
Reading direction forward
Mean pairwise identity 67.63
Shannon entropy 0.55854
G+C content 0.42601
Mean single sequence MFE -16.73
Consensus MFE -5.84
Energy contribution -7.19
Covariance contribution 1.35
Combinations/Pair 1.20
Mean z-score -3.11
Structure conservation index 0.35
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.58
SVM RNA-class probability 0.992941
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 14783057 52 + 23011544
------GGAAGUGGUAGAAUAAAUAGCAUAGCCACAACGGCUAAUGCUAUGU--ACUUCA
------.((((((.........(((((((((((.....)))).))))))).)--))))). ( -17.80, z-score =  -3.84, R)
>droEre2.scaffold_4929 6531612 52 + 26641161
------GGAAGUGGAAGUACGAAUAGCAUUGCCACGAUGGCAAAUGCUAGGU--AUUCCA
------.....(((((.(((...((((((((((.....))).))))))).))--)))))) ( -19.00, z-score =  -3.79, R)
>droYak2.chr2L 14891991 52 + 22324452
------GGAAGUGGAAGAACAAAUAGCAUUGCCACAAUGGCUAAUGCUAGGU--AUUCCA
------.....(((((..((...((((((((((.....))).))))))).))--.))))) ( -19.00, z-score =  -3.92, R)
>droSec1.super_3 1060094 52 + 7220098
------GGAAGUGGCAGAAUAAAUAGCAUAGCCACAAUGGCUAAUGCUAGGA--ACUUCA
------.(((((...........((((((((((.....)))).))))))...--))))). ( -16.74, z-score =  -3.25, R)
>droSim1.chr2L 14533301 52 + 22036055
------GGAAGUGGUAGAAUAAAUAGCAUAGCCACAAUGGCUAAUGCUAGGA--ACUUCA
------.(((((...........((((((((((.....)))).))))))...--))))). ( -16.74, z-score =  -3.54, R)
>dp4.chr3 173058 60 - 19779522
GAAUGACAAAGGAUCAGGCAAGCGAGCACUGCAACAGCAGCUAAUAUGAUCUUCAUUUCA
((((((....((((((.((......)).((((....))))......)))))))))))).. ( -14.50, z-score =  -1.62, R)
>droPer1.super_37 152556 60 - 760358
GAAUGACAAAGGAUCAGGCAAGCGAGCACAGCAACAGCAGCUAAUAUGAUCUUCAUUUCA
((((((....((((((....(((..((.........)).)))....)))))))))))).. ( -13.30, z-score =  -1.78, R)
>consensus
______GGAAGUGGCAGAAUAAAUAGCAUAGCCACAAUGGCUAAUGCUAGGU__AUUUCA
.......................((((((((((.....)))).))))))........... ( -5.84 =  -7.19 +   1.35)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 14,783,057 – 14,783,109
Length 52
Sequences 7
Columns 60
Reading direction reverse
Mean pairwise identity 67.63
Shannon entropy 0.55854
G+C content 0.42601
Mean single sequence MFE -14.67
Consensus MFE -6.87
Energy contribution -7.73
Covariance contribution 0.86
Combinations/Pair 1.30
Mean z-score -2.69
Structure conservation index 0.47
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.97
SVM RNA-class probability 0.996663
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 14783057 52 - 23011544
UGAAGU--ACAUAGCAUUAGCCGUUGUGGCUAUGCUAUUUAUUCUACCACUUCC------
...(((--(.(((((((.((((.....))))))))))).))))...........------ ( -14.40, z-score =  -2.91, R)
>droEre2.scaffold_4929 6531612 52 - 26641161
UGGAAU--ACCUAGCAUUUGCCAUCGUGGCAAUGCUAUUCGUACUUCCACUUCC------
((((((--((.(((((((.(((.....))))))))))...))).))))).....------ ( -18.20, z-score =  -4.83, R)
>droYak2.chr2L 14891991 52 - 22324452
UGGAAU--ACCUAGCAUUAGCCAUUGUGGCAAUGCUAUUUGUUCUUCCACUUCC------
.(((((--(..(((((((.(((.....))))))))))..)))))).........------ ( -17.50, z-score =  -3.99, R)
>droSec1.super_3 1060094 52 - 7220098
UGAAGU--UCCUAGCAUUAGCCAUUGUGGCUAUGCUAUUUAUUCUGCCACUUCC------
.(((..--...((((((.((((.....))))))))))....)))..........------ ( -13.80, z-score =  -2.51, R)
>droSim1.chr2L 14533301 52 - 22036055
UGAAGU--UCCUAGCAUUAGCCAUUGUGGCUAUGCUAUUUAUUCUACCACUUCC------
.(((..--...((((((.((((.....))))))))))....)))..........------ ( -13.80, z-score =  -3.13, R)
>dp4.chr3 173058 60 + 19779522
UGAAAUGAAGAUCAUAUUAGCUGCUGUUGCAGUGCUCGCUUGCCUGAUCCUUUGUCAUUC
(((...((.(((((.....(((((....)))))((......)).))))).))..)))... ( -14.30, z-score =  -1.19, R)
>droPer1.super_37 152556 60 + 760358
UGAAAUGAAGAUCAUAUUAGCUGCUGUUGCUGUGCUCGCUUGCCUGAUCCUUUGUCAUUC
(((...((.(((((....(((.((.........))..)))....))))).))..)))... ( -10.70, z-score =  -0.25, R)
>consensus
UGAAAU__ACCUAGCAUUAGCCAUUGUGGCUAUGCUAUUUAUUCUGCCACUUCC______
...........((((((.((((.....))))))))))....................... ( -6.87 =  -7.73 +   0.86)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:41:29 2011