Locus 4992

Sequence ID dm3.chr2R
Location 16,983,547 – 16,983,601
Length 54
Max. P 0.995424
window6855 window6856

overview

Window 5

Location 16,983,547 – 16,983,601
Length 54
Sequences 4
Columns 54
Reading direction forward
Mean pairwise identity 87.23
Shannon entropy 0.19898
G+C content 0.27587
Mean single sequence MFE -6.57
Consensus MFE -6.10
Energy contribution -5.85
Covariance contribution -0.25
Combinations/Pair 1.11
Mean z-score -1.02
Structure conservation index 0.93
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.32
SVM RNA-class probability 0.641521
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 16983547 54 + 21146708
UUUUGCUUAGAAACUAUUUGGACAUGUACAACAAUUGGAUUGUACACUUCUUUA
...................(((..(((((((........)))))))..)))... (  -7.40, z-score =  -1.17, R)
>droEre2.scaffold_4845 11127078 51 + 22589142
UUUUGCUUAAAAACUAUUUGGACAUGUACAACAAUGUCAUUGUACACUUUA---
........................(((((((........))))))).....--- (  -5.60, z-score =  -0.16, R)
>droYak2.chr2R 8927639 51 - 21139217
UUUUGCUUAAAAACUAUUUGGACAUGUACAACUAUUUGAUUGUACACUUUA---
........................((((((((.....).))))))).....--- (  -5.90, z-score =  -1.39, R)
>droSec1.super_9 313105 54 + 3197100
UUUUGCUUAAGAACUAUUUGGACAUGUACAACAAUUGAAUUGUACACUUCUUUA
...................(((..(((((((........)))))))..)))... (  -7.40, z-score =  -1.36, R)
>consensus
UUUUGCUUAAAAACUAUUUGGACAUGUACAACAAUUGGAUUGUACACUUCA___
....................((..(((((((........)))))))..)).... ( -6.10 =  -5.85 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 16,983,547 – 16,983,601
Length 54
Sequences 4
Columns 54
Reading direction reverse
Mean pairwise identity 87.23
Shannon entropy 0.19898
G+C content 0.27587
Mean single sequence MFE -9.73
Consensus MFE -9.12
Energy contribution -9.12
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.75
Structure conservation index 0.94
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.80
SVM RNA-class probability 0.995424
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 16983547 54 - 21146708
UAAAGAAGUGUACAAUCCAAUUGUUGUACAUGUCCAAAUAGUUUCUAAGCAAAA
....((.(((((((((......))))))))).)).................... (  -9.90, z-score =  -3.20, R)
>droEre2.scaffold_4845 11127078 51 - 22589142
---UAAAGUGUACAAUGACAUUGUUGUACAUGUCCAAAUAGUUUUUAAGCAAAA
---....(((((((((......)))))))))....................... (  -9.40, z-score =  -1.56, R)
>droYak2.chr2R 8927639 51 + 21139217
---UAAAGUGUACAAUCAAAUAGUUGUACAUGUCCAAAUAGUUUUUAAGCAAAA
---....(((((((((......)))))))))....................... (  -8.90, z-score =  -3.10, R)
>droSec1.super_9 313105 54 - 3197100
UAAAGAAGUGUACAAUUCAAUUGUUGUACAUGUCCAAAUAGUUCUUAAGCAAAA
....((.(((((((((......))))))))).)).................... ( -10.70, z-score =  -3.16, R)
>consensus
___AAAAGUGUACAAUCAAAUUGUUGUACAUGUCCAAAUAGUUUUUAAGCAAAA
.......(((((((((......)))))))))....................... ( -9.12 =  -9.12 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:39:49 2011