Locus 1356

Sequence ID dm3.chr2L
Location 10,541,433 – 10,541,524
Length 91
Max. P 0.941690
window1850 window1851

overview

Window 0

Location 10,541,433 – 10,541,524
Length 91
Sequences 6
Columns 91
Reading direction forward
Mean pairwise identity 81.05
Shannon entropy 0.36413
G+C content 0.53249
Mean single sequence MFE -32.08
Consensus MFE -22.25
Energy contribution -23.17
Covariance contribution 0.92
Combinations/Pair 1.21
Mean z-score -2.01
Structure conservation index 0.69
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.47
SVM RNA-class probability 0.941690
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 10541433 91 + 23011544
GGAGGAGGAGAACUCAUCCUGCCCGCGUGGAUGUAGUCCGAACGGGCUAACAGGCAGUCAGGAUAUCCUACUGGUAACCAGUUACCAGUUA
(((.(((.....)))((((((.(.((.((....((((((....)))))).)).)).).)))))).))).((((((((....)))))))).. ( -38.20, z-score =  -3.35, R)
>droSim1.chr2L 10345449 91 + 22036055
GGAGGAGGGGAACUCAUCCUGCUAGCGUGGAUGGAGUCCGAACGGGCUAAAAGGCAGUCAGGAUAUCCUACUGGUAACCAGUUACCAGUUA
(((.(((.....)))((((((((.((.(......(((((....)))))...).)))).)))))).))).((((((((....)))))))).. ( -34.30, z-score =  -2.26, R)
>droSec1.super_3 5968040 91 + 7220098
CGAGGAGGGGAACUCAUCCUGCCAGCGUGGAUGGAGUCCGAACGGGCUAACAGGCAGUCAGGAUUUCCUACUGGUAACCAGUUACCAGUUA
.......(((((...((((((.(.((.((.....(((((....)))))..)).)).).)))))))))))((((((((....)))))))).. ( -34.50, z-score =  -2.05, R)
>droYak2.chr2L 6950298 88 + 22324452
---GGACGAGAACUCAUCCUGCCCGCGUGGAUGGAGUCCAAACGGGCUAACAGGCAGUCAGGAUAUCCUACUGGUAACCAGUUACCAGUUA
---(((.((....))((((((.(.((.((.....(((((....)))))..)).)).).)))))).))).((((((((....)))))))).. ( -32.70, z-score =  -2.46, R)
>droEre2.scaffold_4929 11755208 88 - 26641161
---GGACAGGACCUCAUCCUGCCAGUGUGGCUGCAGUCCGAACGGGCUAACAGGCAGUCAGGAUAUCCUACUGGUAACCAGUUACCAGUUA
---((.(((((.....))))))).....(((((((((((....))))).....))))))(((....)))((((((((....)))))))).. ( -35.80, z-score =  -2.74, R)
>droAna3.scaffold_12916 14391657 78 + 16180835
-----------CCUUUCACUGUCUGUGUGUGUGU-GUGUGUCCGU-CUAACAGGCAGUCAGGAUAUCCUACUGGUUACCAGCCAUCCUACA
-----------......(((((((((........-..........-...))))))))).(((((......((((...))))..)))))... ( -17.00, z-score =   0.79, R)
>consensus
___GGAGGGGAACUCAUCCUGCCAGCGUGGAUGGAGUCCGAACGGGCUAACAGGCAGUCAGGAUAUCCUACUGGUAACCAGUUACCAGUUA
...............((((((.(.((.((.....(((((....)))))..)).)).).)))))).....((((((((....)))))))).. (-22.25 = -23.17 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 10,541,433 – 10,541,524
Length 91
Sequences 6
Columns 91
Reading direction reverse
Mean pairwise identity 81.05
Shannon entropy 0.36413
G+C content 0.53249
Mean single sequence MFE -28.89
Consensus MFE -17.43
Energy contribution -18.55
Covariance contribution 1.12
Combinations/Pair 1.18
Mean z-score -1.64
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.18
SVM RNA-class probability 0.578873
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 10541433 91 - 23011544
UAACUGGUAACUGGUUACCAGUAGGAUAUCCUGACUGCCUGUUAGCCCGUUCGGACUACAUCCACGCGGGCAGGAUGAGUUCUCCUCCUCC
..((((((((....))))))))(((((((((((((.....))).((((((..(((.....)))..)))))))))))).....))))..... ( -33.80, z-score =  -2.55, R)
>droSim1.chr2L 10345449 91 - 22036055
UAACUGGUAACUGGUUACCAGUAGGAUAUCCUGACUGCCUUUUAGCCCGUUCGGACUCCAUCCACGCUAGCAGGAUGAGUUCCCCUCCUCC
..((((((((....)))))))).((((((((((.((((.....((.((....)).))........)).)))))))))...)))........ ( -24.82, z-score =  -0.98, R)
>droSec1.super_3 5968040 91 - 7220098
UAACUGGUAACUGGUUACCAGUAGGAAAUCCUGACUGCCUGUUAGCCCGUUCGGACUCCAUCCACGCUGGCAGGAUGAGUUCCCCUCCUCG
..((((((((....))))))))((((......((((.(((((((((..((..(((.....))))))))))))))...))))....)))).. ( -29.80, z-score =  -1.93, R)
>droYak2.chr2L 6950298 88 - 22324452
UAACUGGUAACUGGUUACCAGUAGGAUAUCCUGACUGCCUGUUAGCCCGUUUGGACUCCAUCCACGCGGGCAGGAUGAGUUCUCGUCC---
((((.(((((((((...)))))(((....)))...)))).))))((((((.((((.....)))).)))))).((((((....))))))--- ( -37.80, z-score =  -3.97, R)
>droEre2.scaffold_4929 11755208 88 + 26641161
UAACUGGUAACUGGUUACCAGUAGGAUAUCCUGACUGCCUGUUAGCCCGUUCGGACUGCAGCCACACUGGCAGGAUGAGGUCCUGUCC---
..((((((((....))))))))(((((((((((..((.((((.((.((....)).)))))).))......))))))...)))))....--- ( -30.00, z-score =  -0.93, R)
>droAna3.scaffold_12916 14391657 78 - 16180835
UGUAGGAUGGCUGGUAACCAGUAGGAUAUCCUGACUGCCUGUUAG-ACGGACACAC-ACACACACACAGACAGUGAAAGG-----------
..((((((((((((...)))))....)))))))((((.((((...-..(.......-.)......)))).))))......----------- ( -17.10, z-score =   0.49, R)
>consensus
UAACUGGUAACUGGUUACCAGUAGGAUAUCCUGACUGCCUGUUAGCCCGUUCGGACUCCAUCCACGCUGGCAGGAUGAGUUCCCCUCC___
.(((.((((((.((....(((((((....))).)))))).)))).)).))).(((((.(((((.........))))))))))......... (-17.43 = -18.55 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:30:25 2011