Locus 11606

Sequence ID dm3.chr3R
Location 22,392,834 – 22,392,924
Length 90
Max. P 0.987196
window15943 window15944

overview

Window 3

Location 22,392,834 – 22,392,924
Length 90
Sequences 6
Columns 93
Reading direction forward
Mean pairwise identity 81.10
Shannon entropy 0.35880
G+C content 0.56664
Mean single sequence MFE -36.75
Consensus MFE -25.75
Energy contribution -27.87
Covariance contribution 2.11
Combinations/Pair 1.12
Mean z-score -2.49
Structure conservation index 0.70
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.27
SVM RNA-class probability 0.987196
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 22392834 90 + 27905053
AGCUCCACGGCCAACAAUGUAAAGGCAGCAACA---GCAGCUGUGGUGGCUGAGUUAGCAGCCACUGUUGGUGGAAGUGAUGAGGUCCAGGAU
...(((...((((((.........(((((....---...)))))((((((((......))))))))))))))(((..(....)..))).))). ( -33.50, z-score =  -1.36, R)
>droAna3.scaffold_13340 6747872 79 - 23697760
-----------UAAUAACUUGAAGGCGACUCCGCCCGCAGUUGUGGCCACUGAGCUGGCCACCACUGUGCCUGCUGAUGA--AAAUCCAGAA-
-----------............((((....))))((((((.(((((((......))))))).)))))).(((..(((..--..))))))..- ( -30.70, z-score =  -4.42, R)
>droEre2.scaffold_4820 4807107 90 - 10470090
AGCUCCACCGCCAACAAUGUGAAGGCGGCAACA---GCAGCUGUGGUGGCUGAACUAGCAGCCACUGUUGGUGGUGGUGAUGAGGUCCAGGAU
..(.(((((((((((.........(((((....---...)))))((((((((......))))))))))))))))))).).............. ( -41.20, z-score =  -2.68, R)
>droYak2.chr3R 4723927 90 - 28832112
AGCUCCACCGCCAACAAUGUGAAGGCGGCAACG---GCAGCUGUGGUGGCUGAAUUAGCAGCCACUGUUGGUGGCGGUGAUGAGGUCCAGGAU
..(((((((((((.((((.....(.((....))---.)......((((((((......)))))))))))).))))))))..)))......... ( -40.40, z-score =  -2.44, R)
>droSec1.super_13 1167994 90 + 2104621
AGCUCCACCGCCAACAAUGUGAAGGCGGCAACA---GCAGCUGUGGUGGCUGAAUUAGCAGCCACUGUUGGUGGAGGUGAUGAGGUCCAGGAC
...(((.((((((((.........(((((....---...)))))((((((((......)))))))))))))))).((.........)).))). ( -37.00, z-score =  -1.96, R)
>droSim1.chr3R 22220478 90 + 27517382
AGCUCCACCGCCAACAAUGUGAAGGCGGCAACA---GCAGCUGUGGUGGCUGAAUUAGCAGCCACUGUUGGUGGAGGUGAUGAGGUCCUGGAU
...(((.((((((((.........(((((....---...)))))((((((((......))))))))))))))))(((.........)))))). ( -37.70, z-score =  -2.07, R)
>consensus
AGCUCCACCGCCAACAAUGUGAAGGCGGCAACA___GCAGCUGUGGUGGCUGAAUUAGCAGCCACUGUUGGUGGAGGUGAUGAGGUCCAGGAU
..(.((.((((((((.........(((((..........)))))((((((((......)))))))))))))))).)).).............. (-25.75 = -27.87 +   2.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 22,392,834 – 22,392,924
Length 90
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 81.10
Shannon entropy 0.35880
G+C content 0.56664
Mean single sequence MFE -30.95
Consensus MFE -18.54
Energy contribution -19.24
Covariance contribution 0.70
Combinations/Pair 1.24
Mean z-score -1.76
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.36
SVM RNA-class probability 0.661753
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 22392834 90 - 27905053
AUCCUGGACCUCAUCACUUCCACCAACAGUGGCUGCUAACUCAGCCACCACAGCUGC---UGUUGCUGCCUUUACAUUGUUGGCCGUGGAGCU
.(((((((..........))))(((((((((((((......)))))))..((((...---....)))).........))))))....)))... ( -27.80, z-score =  -1.25, R)
>droAna3.scaffold_13340 6747872 79 + 23697760
-UUCUGGAUUU--UCAUCAGCAGGCACAGUGGUGGCCAGCUCAGUGGCCACAACUGCGGGCGGAGUCGCCUUCAAGUUAUUA-----------
-.(((((((..--..)))..))))(.((((.(((((((......))))))).)))).)((((....))))............----------- ( -25.40, z-score =  -0.83, R)
>droEre2.scaffold_4820 4807107 90 + 10470090
AUCCUGGACCUCAUCACCACCACCAACAGUGGCUGCUAGUUCAGCCACCACAGCUGC---UGUUGCCGCCUUCACAUUGUUGGCGGUGGAGCU
................(((((.(((((((((((((......)))))))....((.((---....)).))........)))))).))))).... ( -34.50, z-score =  -2.21, R)
>droYak2.chr3R 4723927 90 + 28832112
AUCCUGGACCUCAUCACCGCCACCAACAGUGGCUGCUAAUUCAGCCACCACAGCUGC---CGUUGCCGCCUUCACAUUGUUGGCGGUGGAGCU
................(((((.(((((((((((((......)))))))....((.((---....)).))........)))))).))))).... ( -32.90, z-score =  -2.08, R)
>droSec1.super_13 1167994 90 - 2104621
GUCCUGGACCUCAUCACCUCCACCAACAGUGGCUGCUAAUUCAGCCACCACAGCUGC---UGUUGCCGCCUUCACAUUGUUGGCGGUGGAGCU
.................((((((((((((..((((...............))))..)---))))((((.(........).))))))))))).. ( -32.56, z-score =  -1.97, R)
>droSim1.chr3R 22220478 90 - 27517382
AUCCAGGACCUCAUCACCUCCACCAACAGUGGCUGCUAAUUCAGCCACCACAGCUGC---UGUUGCCGCCUUCACAUUGUUGGCGGUGGAGCU
.................((((((((((((..((((...............))))..)---))))((((.(........).))))))))))).. ( -32.56, z-score =  -2.21, R)
>consensus
AUCCUGGACCUCAUCACCUCCACCAACAGUGGCUGCUAAUUCAGCCACCACAGCUGC___UGUUGCCGCCUUCACAUUGUUGGCGGUGGAGCU
................((.((.(((((((((((.((.....((((.......))))........)).))).....)))))))).)).)).... (-18.54 = -19.24 +   0.70)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:46:04 2011