Locus 745

Sequence ID dm3.chr2L
Location 5,254,133 – 5,254,231
Length 98
Max. P 0.943006
window993 window994

overview

Window 3

Location 5,254,133 – 5,254,231
Length 98
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 75.83
Shannon entropy 0.46873
G+C content 0.53353
Mean single sequence MFE -29.42
Consensus MFE -18.79
Energy contribution -19.27
Covariance contribution 0.48
Combinations/Pair 1.32
Mean z-score -1.65
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.49
SVM RNA-class probability 0.943006
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 5254133 98 + 23011544
GGGCUUAAAUGCCCCAACUCGUUAUGCUUACCACAGCAGCAGC-AGCAACAGCAGUUGCAGAUAAGCAACGAGCAGUUGCAACCACCUAUUCACUUCCC---
((((......))))......(((.((((......))))..)))-.(((((.((.(((((......)))))..)).)))))...................--- ( -29.20, z-score =  -3.00, R)
>droSim1.chr2L 5052631 95 + 22036055
GGGCUUAAAUGCCCCAACUCGUUAUGCUUACCACAGCAGCAGC-AGCAGCA---GUUGCAGAUAAGCAACGAGCAGUUGCAAGAGCCUGUUCACUACCC---
((((......))))...(((((..((((......)))))).((-(((.((.---(((((......)))))..)).)))))..)))..............--- ( -29.60, z-score =  -1.75, R)
>droSec1.super_5 3334328 95 + 5866729
GGGCUUAAAUGCCCCAACUCGUUAUGCUUACCACAGCAGCAGC-AGCAGCA---GUUGCAGAUAAGCAACGAGCAGUUGCAAGAGCCUAUUCACUACCC---
((((......))))...(((((..((((......)))))).((-(((.((.---(((((......)))))..)).)))))..)))..............--- ( -29.60, z-score =  -2.39, R)
>droYak2.chr2L 8379798 92 - 22324452
GGGCUUAAAUGCCCCAACUCGUUAUGCUUACCACAGCAACAGC-AGCA------GUUGCAGAUAAGCAACGAGCAGUUGGAACAGUCUAUUCACUGGCC---
((((......))))(((((.(((.((((((.(...(((((...-....------))))).).))))))...))))))))...((((......))))...--- ( -27.80, z-score =  -1.72, R)
>droEre2.scaffold_4929 5332572 85 + 26641161
GGGCUUAAAUGCCCCAACUCGUUAUGCUCACCACAGCAGCAGC-AGCAGCGGCAGUUGCAGAUAAGCAGCGAGCAGUU-CACUUGCC---------------
((((......))))......(...(((((.........((.((-....)).)).(((((......))))))))))...-).......--------------- ( -26.70, z-score =  -0.59, R)
>droGri2.scaffold_15126 999364 101 + 8399593
CAGCUUAAAUGCUUCG-CUCGUUAUGUUUACCACAGCGGCAGCCAGCCGCAGAUAAGCAGCACAGGCGACGUGCAGCUCGAGCUGCCACUGCCACACUGCAC
..((......((.(((-(..((..((((((.(...(((((.....))))).).))))))..))..)))).(((((((....)))).))).))......)).. ( -33.60, z-score =  -0.43, R)
>consensus
GGGCUUAAAUGCCCCAACUCGUUAUGCUUACCACAGCAGCAGC_AGCAGCA___GUUGCAGAUAAGCAACGAGCAGUUGCAACAGCCUAUUCACUACCC___
((((......))))...(((((..((((((.....((....))..(((((....)))))...)))))))))))............................. (-18.79 = -19.27 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 5,254,133 – 5,254,231
Length 98
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 75.83
Shannon entropy 0.46873
G+C content 0.53353
Mean single sequence MFE -35.60
Consensus MFE -19.51
Energy contribution -20.35
Covariance contribution 0.84
Combinations/Pair 1.17
Mean z-score -1.35
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.29
SVM RNA-class probability 0.628889
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 5254133 98 - 23011544
---GGGAAGUGAAUAGGUGGUUGCAACUGCUCGUUGCUUAUCUGCAACUGCUGUUGCU-GCUGCUGCUGUGGUAAGCAUAACGAGUUGGGGCAUUUAAGCCC
---............(((...(((..(.((((((((((((((.(((((....))))).-((....))...))))))))..)))))).)..))).....))). ( -34.20, z-score =  -1.11, R)
>droSim1.chr2L 5052631 95 - 22036055
---GGGUAGUGAACAGGCUCUUGCAACUGCUCGUUGCUUAUCUGCAAC---UGCUGCU-GCUGCUGCUGUGGUAAGCAUAACGAGUUGGGGCAUUUAAGCCC
---............((((..(((..(.((((((((((((((.(((.(---.((....-)).).)))...))))))))..)))))).)..)))....)))). ( -35.10, z-score =  -1.24, R)
>droSec1.super_5 3334328 95 - 5866729
---GGGUAGUGAAUAGGCUCUUGCAACUGCUCGUUGCUUAUCUGCAAC---UGCUGCU-GCUGCUGCUGUGGUAAGCAUAACGAGUUGGGGCAUUUAAGCCC
---............((((..(((..(.((((((((((((((.(((.(---.((....-)).).)))...))))))))..)))))).)..)))....)))). ( -35.10, z-score =  -1.48, R)
>droYak2.chr2L 8379798 92 + 22324452
---GGCCAGUGAAUAGACUGUUCCAACUGCUCGUUGCUUAUCUGCAAC------UGCU-GCUGUUGCUGUGGUAAGCAUAACGAGUUGGGGCAUUUAAGCCC
---(((.(((......)))((((((...((((((((((((((.(((((------....-...)))))...))))))))..))))))))))))......))). ( -35.30, z-score =  -2.84, R)
>droEre2.scaffold_4929 5332572 85 - 26641161
---------------GGCAAGUG-AACUGCUCGCUGCUUAUCUGCAACUGCCGCUGCU-GCUGCUGCUGUGGUGAGCAUAACGAGUUGGGGCAUUUAAGCCC
---------------((((((((-..(((((((.((((((((.(((.(.((.((....-)).)).).)))))))))))...)))).)))..)))))..))). ( -31.40, z-score =  -0.76, R)
>droGri2.scaffold_15126 999364 101 - 8399593
GUGCAGUGUGGCAGUGGCAGCUCGAGCUGCACGUCGCCUGUGCUGCUUAUCUGCGGCUGGCUGCCGCUGUGGUAAACAUAACGAG-CGAAGCAUUUAAGCUG
(..(((.(((((.(((.((((....)))))))))))))))..).(((((..((((((.....)))((((((.....)))....))-)...)))..))))).. ( -42.50, z-score =  -0.64, R)
>consensus
___GGGUAGUGAAUAGGCUGUUGCAACUGCUCGUUGCUUAUCUGCAAC___UGCUGCU_GCUGCUGCUGUGGUAAGCAUAACGAGUUGGGGCAUUUAAGCCC
..........................(.((((((((((((((.(((........)))..((....))...))))))))..)))))).)((((......)))) (-19.51 = -20.35 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:18:32 2011