Locus 7090

Sequence ID dm3.chr3L
Location 12,122,129 – 12,122,275
Length 146
Max. P 0.641880
window9765 window9766

overview

Window 5

Location 12,122,129 – 12,122,227
Length 98
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 57.32
Shannon entropy 0.74947
G+C content 0.43560
Mean single sequence MFE -22.92
Consensus MFE -8.44
Energy contribution -8.36
Covariance contribution -0.08
Combinations/Pair 1.70
Mean z-score -0.93
Structure conservation index 0.37
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.13
SVM RNA-class probability 0.555272
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 12122129 98 - 24543557
---GGUGAAGCAGCUGGAAGAUCCAGUUAAGAUUU---CCUCGCUCCAGAGACACCUUCUCCAGCUGUCUAAAUA-GGAGAGUC----UAAAAAAAAGAAUGCCCAAAA
---((((....((((((.....)))))).......---.(((......))).))))((((((.............-))))))..----..................... ( -21.82, z-score =  -0.48, R)
>droAna3.scaffold_13337 3828641 108 + 23293914
UUUCCAUAAGUUUUCAAAAUAAUUGAUUAAUCGUUAAAUACUAUAAGGAAAAAGGUGAUAUUCUCUACGUUAGUU-CACAUUUCUUUCCAUUGCAAUGAGAGCUGUGUA
....((((.(((((((......(((((.....))))).........(((((...((((................)-))).....))))).......))))))))))).. ( -16.19, z-score =  -0.16, R)
>droYak2.chr3L 12170164 106 - 24197627
---GCUGCAGCAGCUGGAGGAUCCACAUACGCCUCCAGCUGCGCUCCAUAGGCACCCCCUCCACCUGUCCAAAUAUCACGAGUUGCAGUCUAUAAAAAAAUGCCAAAAA
---(((((((((((((((((...........)))))))))))((((.(((((...........)))))...........)))))))))).................... ( -33.40, z-score =  -3.89, R)
>droSec1.super_0 4307197 98 - 21120651
---GCUGCAGCAGCUGGAAGAUCCAGUUCAUAUUU---CCUCGCUCCAGUGACACCUUCUCCAGCUGUCCAAAUA-GGUGAGUC----UAUAAAAAGGAAUGCCCAAAA
---......(((((((((.((......))......---..((((....)))).......))))))))).......-((((..((----(......)))..))))..... ( -21.90, z-score =  -0.37, R)
>droSim1.chr3L 11493344 97 - 22553184
---GCUGCAGCAGCUGGAAGAUCCAGUUCAGAUUU---CCUCGCUCCAGAGACA-CUUCUACAGCUGUCCAAAUA-GGUGAGUC----UAUAAAAAGGAAUGCCCAAAA
---...(((((((((((.....)))))).(((...---.(((......)))...-..)))...))))).......-((((..((----(......)))..))))..... ( -21.30, z-score =   0.25, R)
>consensus
___GCUGCAGCAGCUGGAAGAUCCAGUUAAGAUUU___CCUCGCUCCAGAGACACCUUCUCCAGCUGUCCAAAUA_GGCGAGUC____UAUAAAAAAGAAUGCCCAAAA
.........((((((((.....)))))............((((((.....((((.((.....)).)))).......))))))..................)))...... ( -8.44 =  -8.36 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 12,122,172 – 12,122,275
Length 103
Sequences 4
Columns 106
Reading direction reverse
Mean pairwise identity 79.74
Shannon entropy 0.32385
G+C content 0.47925
Mean single sequence MFE -31.27
Consensus MFE -18.67
Energy contribution -18.43
Covariance contribution -0.25
Combinations/Pair 1.22
Mean z-score -1.91
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.32
SVM RNA-class probability 0.641880
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 12122172 103 - 24543557
UACAUCAUUAUCUAAAUUCAAGAGUGAGCCACUAGAAACUGGUGGUUAGGUGAAGCAGCUGGAAGAUCCAGUUAAGAUUU---CCUCGCUCCAGAGACACCUUCUC
.....................(((..(((((((((...)))))))))(((((....((((((.....)))))).......---.(((......))).))))).))) ( -28.40, z-score =  -1.48, R)
>droYak2.chr3L 12170212 103 - 24197627
---GGCAUUAUCUAAACGCAAGAGUACGCCACUGGGAACUGGCUAUUAGCUGCAGCAGCUGGAGGAUCCACAUACGCCUCCAGCUGCGCUCCAUAGGCACCCCCUC
---(((....(((.......)))....)))...(((...((.((((.....((.(((((((((((...........)))))))))))))...)))).))..))).. ( -38.80, z-score =  -2.46, R)
>droSec1.super_0 4307240 103 - 21120651
CACAUCAUUAUCUAAAUUCAAGAGUGAGCCACUAUAAACUGGUGGCUAGCUGCAGCAGCUGGAAGAUCCAGUUCAUAUUU---CCUCGCUCCAGUGACACCUUCUC
.................(((.(((((((....(((.((((((...(((((((...))))))).....)))))).)))...---.)))))))...)))......... ( -29.20, z-score =  -2.25, R)
>droSim1.chr3L 11493387 102 - 22553184
CACAUCAUUAUCUAAAUUCAAGAGUGAGCCACUAGAAACUGGUGGUUAGCUGCAGCAGCUGGAAGAUCCAGUUCAGAUUU---CCUCGCUCCAGAGACACUUCUA-
.....................((((((((((((((...)))))))))..(((.(((((((((.....))))))..((...---..))))).)))...)))))...- ( -28.70, z-score =  -1.44, R)
>consensus
CACAUCAUUAUCUAAAUUCAAGAGUGAGCCACUAGAAACUGGUGGUUAGCUGCAGCAGCUGGAAGAUCCAGUUAAGAUUU___CCUCGCUCCAGAGACACCUCCUC
.....................(((((((.....(((((((((...(((((((...))))))).....))))))....)))....)))))))............... (-18.67 = -18.43 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:20:21 2011