Locus 1984

Sequence ID dm3.chr2L
Location 15,377,460 – 15,377,558
Length 98
Max. P 0.996385
window2731 window2732

overview

Window 1

Location 15,377,460 – 15,377,558
Length 98
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 88.93
Shannon entropy 0.20056
G+C content 0.46143
Mean single sequence MFE -24.87
Consensus MFE -20.19
Energy contribution -21.05
Covariance contribution 0.86
Combinations/Pair 1.05
Mean z-score -1.60
Structure conservation index 0.81
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.28
SVM RNA-class probability 0.627072
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 15377460 98 + 23011544
---CAGUUCUGUGACAAUAUUUCUGCCGCUGCAACUGUUGCAACUUCUGCUGUUGCAUUUGCUGCGUUGCAGCCGCAAAA-GCCCCUCUAUAUCAUUUAUCA
---....................(((.((((((((.((.((((....(((....))).)))).)))))))))).)))...-..................... ( -25.30, z-score =  -1.60, R)
>droSim1.chr2L 15136058 98 + 22036055
---CAGUUCUGUGACAAUAUUUCUGCCGCUGCAACUGUUGCAACUUCUGCUGUUGCAUUUGCUGCGUUGCAGCCGCAAAA-GCCCCUCUAUAUCAUUUAUCA
---....................(((.((((((((.((.((((....(((....))).)))).)))))))))).)))...-..................... ( -25.30, z-score =  -1.60, R)
>droSec1.super_3 1637592 98 + 7220098
---CAGUUCUGUGACAAUAUUUCUGCCGCUGCAACUGUUGCAACUUCUGCUGUUGCAUUUGCUGCGUUGCAGCCGCAAAA-GCCCCUCUAUAUCAUUUAUCA
---....................(((.((((((((.((.((((....(((....))).)))).)))))))))).)))...-..................... ( -25.30, z-score =  -1.60, R)
>droYak2.chr2L 2375310 86 - 22324452
---CAGUUCUGUGACAAUAUUCCUGCCGCUGCAACUGUUGCAACUU------------UUGCUGCGUUGCAGCCGCAAAA-GCCCCUCUAUAUCAUUUAUCA
---....................(((.((((((((.((.(((....------------.))).)))))))))).)))...-..................... ( -21.90, z-score =  -2.26, R)
>droEre2.scaffold_4929 7126881 98 + 26641161
---CAGUUCUGUGACAAUAUUUCUGCCGCUGCAACUGUUGCAACUUCUGCUGCUGCAUUUGCUGCGUUGCAGCCGCAAAA-GCCCCUCUAUAUCAUUUAUCA
---....................(((.((((((((.((.((((....(((....))).)))).)))))))))).)))...-..................... ( -25.30, z-score =  -1.40, R)
>droAna3.scaffold_12916 7684131 92 + 16180835
CGCGGGUUUUGUGACAAUAUUUCUGCCACUGCAG-UGGUGCAACUUCAG---------UUGCUGCGUUGCAGCCGCAAAAAGCUCUUCUAUAUCAUUUAUCA
.((((...(((..((.........(((((....)-))))(((((....)---------))))...))..))))))).......................... ( -26.10, z-score =  -1.15, R)
>consensus
___CAGUUCUGUGACAAUAUUUCUGCCGCUGCAACUGUUGCAACUUCUGCUGUUGCAUUUGCUGCGUUGCAGCCGCAAAA_GCCCCUCUAUAUCAUUUAUCA
.......................(((.((((((((.((.((((....(((....))).)))).)))))))))).)))......................... (-20.19 = -21.05 +   0.86)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 15,377,460 – 15,377,558
Length 98
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 88.93
Shannon entropy 0.20056
G+C content 0.46143
Mean single sequence MFE -31.62
Consensus MFE -29.90
Energy contribution -30.32
Covariance contribution 0.42
Combinations/Pair 1.12
Mean z-score -2.83
Structure conservation index 0.95
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.92
SVM RNA-class probability 0.996385
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 15377460 98 - 23011544
UGAUAAAUGAUAUAGAGGGGC-UUUUGCGGCUGCAACGCAGCAAAUGCAACAGCAGAAGUUGCAACAGUUGCAGCGGCAGAAAUAUUGUCACAGAACUG---
..............((.((..-((((((.(((((((((((((...(((....)))...)))))....)))))))).))))))...)).)).........--- ( -33.30, z-score =  -3.07, R)
>droSim1.chr2L 15136058 98 - 22036055
UGAUAAAUGAUAUAGAGGGGC-UUUUGCGGCUGCAACGCAGCAAAUGCAACAGCAGAAGUUGCAACAGUUGCAGCGGCAGAAAUAUUGUCACAGAACUG---
..............((.((..-((((((.(((((((((((((...(((....)))...)))))....)))))))).))))))...)).)).........--- ( -33.30, z-score =  -3.07, R)
>droSec1.super_3 1637592 98 - 7220098
UGAUAAAUGAUAUAGAGGGGC-UUUUGCGGCUGCAACGCAGCAAAUGCAACAGCAGAAGUUGCAACAGUUGCAGCGGCAGAAAUAUUGUCACAGAACUG---
..............((.((..-((((((.(((((((((((((...(((....)))...)))))....)))))))).))))))...)).)).........--- ( -33.30, z-score =  -3.07, R)
>droYak2.chr2L 2375310 86 + 22324452
UGAUAAAUGAUAUAGAGGGGC-UUUUGCGGCUGCAACGCAGCAA------------AAGUUGCAACAGUUGCAGCGGCAGGAAUAUUGUCACAGAACUG---
..............((.((..-((((((.(((((((((((((..------------..)))))....)))))))).))))))...)).)).........--- ( -29.00, z-score =  -3.05, R)
>droEre2.scaffold_4929 7126881 98 - 26641161
UGAUAAAUGAUAUAGAGGGGC-UUUUGCGGCUGCAACGCAGCAAAUGCAGCAGCAGAAGUUGCAACAGUUGCAGCGGCAGAAAUAUUGUCACAGAACUG---
..............((.((..-((((((.(((((((((((.....))).(((((....)))))....)))))))).))))))...)).)).........--- ( -35.20, z-score =  -3.23, R)
>droAna3.scaffold_12916 7684131 92 - 16180835
UGAUAAAUGAUAUAGAAGAGCUUUUUGCGGCUGCAACGCAGCAA---------CUGAAGUUGCACCA-CUGCAGUGGCAGAAAUAUUGUCACAAAACCCGCG
..............((.((..(((((((.((((((.....((((---------(....)))))....-.)))))).)))))))..)).))............ ( -25.60, z-score =  -1.49, R)
>consensus
UGAUAAAUGAUAUAGAGGGGC_UUUUGCGGCUGCAACGCAGCAAAUGCAACAGCAGAAGUUGCAACAGUUGCAGCGGCAGAAAUAUUGUCACAGAACUG___
..............((.((...((((((.(((((((((((((...(((....)))...)))))....)))))))).))))))...)).))............ (-29.90 = -30.32 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:42:35 2011