Locus 1485

Sequence ID dm3.chr2L
Location 11,480,282 – 11,480,372
Length 90
Max. P 0.753158
window2022 window2023

overview

Window 2

Location 11,480,282 – 11,480,372
Length 90
Sequences 5
Columns 94
Reading direction forward
Mean pairwise identity 61.58
Shannon entropy 0.68902
G+C content 0.32013
Mean single sequence MFE -14.54
Consensus MFE -6.22
Energy contribution -7.26
Covariance contribution 1.04
Combinations/Pair 1.20
Mean z-score -1.01
Structure conservation index 0.43
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.56
SVM RNA-class probability 0.742344
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 11480282 90 + 23011544
AUUCGAACAAUGAAAUAAAUGAACUAUCGUUUUCCAUGUUCAUCUGAUUUUUUGGCUAUUUUAAUAAG---UGGAUCUACUAAUCUACUAAUU-
....(((((.((....((((((....))))))..))))))).........................((---(((((......)))))))....- ( -13.90, z-score =  -1.49, R)
>droSim1.chr2L 11293463 90 + 22036055
AGUUGAACAAUGGAAUAAAUGAACUAUCGUUUUCCAUGUUCACCUGAUUUUUUGGCUAUUCUAAUAAG---CGGAUCUACUAAUCUAAUAAUU-
((.((((((.(((((..(((((....)))))))))))))))).))((((..((.(((.........))---).))......))))........- ( -17.10, z-score =  -1.91, R)
>droSec1.super_3 6875285 84 + 7220098
AGUUGAACAAUGGAAUAAAUGAACUAUCGUUUUCCAUGUUCACCUGAUUUUUUGGCUAUUCUAAGAUAUAAUGAUAAGAUAUAU----------
((.((((((.(((((..(((((....)))))))))))))))).))....((((((.....))))))..................---------- ( -15.00, z-score =  -1.19, R)
>droEre2.scaffold_4929 12688256 86 - 26641161
CGCUGAACAAUGGAAUAAAUGAACUAUCGUUUUUCAUGUUCAUCGGCUUUUCUGGCACUUUUAAUAGGCGGUGGAUCUACUAGUUU--------
(((((((((.(((((..(((((....)))))))))))))))....(((.....)))..........))))................-------- ( -16.90, z-score =  -0.79, R)
>droAna3.scaffold_12916 12182921 85 - 16180835
-GUUAGACAAUAGGAAACAUU-----UCGACUCCUACGAACAC--AAUAUUACGUAUACGC-AAUGGGUACUCACACAAUGGGAUUAGAAAUCA
-...........(....)(((-----((...(((((.......--..((((.((....)).-)))).((......))..)))))...))))).. (  -9.80, z-score =   0.34, R)
>consensus
AGUUGAACAAUGGAAUAAAUGAACUAUCGUUUUCCAUGUUCACCUGAUUUUUUGGCUAUUCUAAUAAG___UGGAUCUACUAAUCUA__AAU__
....(((((.(((((..(((((....)))))))))))))))..................................................... ( -6.22 =  -7.26 +   1.04)

alignment

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secondary structure

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dotplot

Postscript

Window 3

Location 11,480,282 – 11,480,372
Length 90
Sequences 5
Columns 94
Reading direction reverse
Mean pairwise identity 61.58
Shannon entropy 0.68902
G+C content 0.32013
Mean single sequence MFE -11.58
Consensus MFE -6.89
Energy contribution -6.25
Covariance contribution -0.64
Combinations/Pair 1.55
Mean z-score -0.31
Structure conservation index 0.59
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.59
SVM RNA-class probability 0.753158
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 11480282 90 - 23011544
-AAUUAGUAGAUUAGUAGAUCCA---CUUAUUAAAAUAGCCAAAAAAUCAGAUGAACAUGGAAAACGAUAGUUCAUUUAUUUCAUUGUUCGAAU
-(((.(((.((((....)))).)---)).)))........(((..((..((((((((((.(....).)).))))))))..))..)))....... ( -10.60, z-score =  -0.09, R)
>droSim1.chr2L 11293463 90 - 22036055
-AAUUAUUAGAUUAGUAGAUCCG---CUUAUUAGAAUAGCCAAAAAAUCAGGUGAACAUGGAAAACGAUAGUUCAUUUAUUCCAUUGUUCAACU
-..........(((((((.....---.)))))))....(((.........)))(((((((((((((....)))......))))).))))).... ( -12.50, z-score =  -0.36, R)
>droSec1.super_3 6875285 84 - 7220098
----------AUAUAUCUUAUCAUUAUAUCUUAGAAUAGCCAAAAAAUCAGGUGAACAUGGAAAACGAUAGUUCAUUUAUUCCAUUGUUCAACU
----------............................(((.........)))(((((((((((((....)))......))))).))))).... ( -11.00, z-score =  -0.59, R)
>droEre2.scaffold_4929 12688256 86 + 26641161
--------AAACUAGUAGAUCCACCGCCUAUUAAAAGUGCCAGAAAAGCCGAUGAACAUGAAAAACGAUAGUUCAUUUAUUCCAUUGUUCAGCG
--------....((((((.........))))))..............((...((((((.((((((.((....)).))).)))...)))))))). (  -9.80, z-score =  -0.15, R)
>droAna3.scaffold_12916 12182921 85 + 16180835
UGAUUUCUAAUCCCAUUGUGUGAGUACCCAUU-GCGUAUACGUAAUAUU--GUGUUCGUAGGAGUCGA-----AAUGUUUCCUAUUGUCUAAC-
.((((((((....(((.((((..(((..(...-..)..)))...)))).--)))....))))))))..-----....................- ( -14.00, z-score =  -0.36, R)
>consensus
__AUU__UAAAUUAGUAGAUCCA___CCUAUUAGAAUAGCCAAAAAAUCAGGUGAACAUGGAAAACGAUAGUUCAUUUAUUCCAUUGUUCAACU
....................................................(((((((((((................))))).))))))... ( -6.89 =  -6.25 +  -0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:32:47 2011