Locus 12315

Sequence ID dm3.chr3R
Location 27,317,119 – 27,317,219
Length 100
Max. P 0.959378
window16929 window16930

overview

Window 9

Location 27,317,119 – 27,317,219
Length 100
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 90.19
Shannon entropy 0.17968
G+C content 0.49340
Mean single sequence MFE -34.17
Consensus MFE -27.92
Energy contribution -28.62
Covariance contribution 0.69
Combinations/Pair 1.03
Mean z-score -2.45
Structure conservation index 0.82
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.67
SVM RNA-class probability 0.959378
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 27317119 100 + 27905053
AAAGGUAGCACU-UGGCAGAAGUCAAUGGCUUGACCCAUAUCUGGGUCAGUCUGAUUGAGAAGCCGGCGGCCG-------UCGACUGCCAAAAAUGUUAAUUAAUUCG
.....(((((.(-((((((.(((((..((((.((((((....))))))))))))))).......((((....)-------))).)))))))...)))))......... ( -34.10, z-score =  -2.60, R)
>droSim1.chr3R 26948798 99 + 27517382
--AGGUAGCACUAUGGCAGAAGUCAAUGGCUUGACCCAAAACUGGGUCAGUCUGAUUGAGCAGCCGGCGGCCG-------CCGACUGCCAAAAAUGUUAAUUAAUUCG
--...(((((...((((((.(((((..((((.((((((....))))))))))))))).......((((....)-------))).))))))....)))))......... ( -36.10, z-score =  -2.76, R)
>droSec1.super_4 6116538 101 + 6179234
AAAGGUAGCACUAUGGCAGAAGUCAAUGUCUUGACCCAAAACUGGGUCAGUCUGAUUGAGCAGCCGGCGGCCG-------CCGACUGCCAAAAAUGUUAAUUAAUUCG
.....(((((...((((((...(((((...((((((((....))))))))....))))).....((((....)-------))).))))))....)))))......... ( -33.60, z-score =  -2.55, R)
>droYak2.chr3R 28250173 108 + 28832112
AAAGGUAGCACAAUGGCAGAAGUCAAUGGCUUGACCCAAAACUGGGUCAGUCUGAUUGAGAAGCCGGCGGCCGGUGGCCGUCGACUGCCAAAAAUGUUAAUUAAUUCG
.....(((((...((((((.(((((..((((.((((((....))))))))))))))).......((((((((...)))))))).))))))....)))))......... ( -43.70, z-score =  -4.23, R)
>droEre2.scaffold_4820 9802707 101 - 10470090
GAAGGUAGCACAAUGGCAGAAGUCAAUGGCUUGACCCAAAACUGGGUCAGUCUGAUUGAGAAGCCGGCGGCCG-------UCGACUGCCAAAAAUGUUAAUUAAUUCG
(((..(((((...((((((.(((((..((((.((((((....))))))))))))))).......((((....)-------))).))))))....))))).....))). ( -35.00, z-score =  -3.05, R)
>droAna3.scaffold_13340 16444513 99 + 23697760
GAAACCAGCAGA--AGCAGAAGUCAAUGGCUUGUCCCGAAACUGGGUCAGACUGAUUGAGGAGCCCGCGGCCG-------UCGACUGCCAAAAAUGUUAAUUAAUUCG
.......((((.--..(((((((.....))))(.((((....)))).)...))).((((.(.(((...)))).-------)))))))).................... ( -22.50, z-score =   0.50, R)
>consensus
AAAGGUAGCACAAUGGCAGAAGUCAAUGGCUUGACCCAAAACUGGGUCAGUCUGAUUGAGAAGCCGGCGGCCG_______UCGACUGCCAAAAAUGUUAAUUAAUUCG
.....(((((...((((((...(((((((.((((((((....)))))))).)).)))))...(((...))).............))))))....)))))......... (-27.92 = -28.62 +   0.69)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 0

Location 27,317,119 – 27,317,219
Length 100
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 90.19
Shannon entropy 0.17968
G+C content 0.49340
Mean single sequence MFE -30.62
Consensus MFE -24.47
Energy contribution -24.83
Covariance contribution 0.36
Combinations/Pair 1.04
Mean z-score -1.99
Structure conservation index 0.80
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.76
SVM RNA-class probability 0.810488
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 27317119 100 - 27905053
CGAAUUAAUUAACAUUUUUGGCAGUCGA-------CGGCCGCCGGCUUCUCAAUCAGACUGACCCAGAUAUGGGUCAAGCCAUUGACUUCUGCCA-AGUGCUACCUUU
................((((((((((((-------.(((........(((.....))).(((((((....))))))).))).)))))...)))))-)).......... ( -28.80, z-score =  -2.06, R)
>droSim1.chr3R 26948798 99 - 27517382
CGAAUUAAUUAACAUUUUUGGCAGUCGG-------CGGCCGCCGGCUGCUCAAUCAGACUGACCCAGUUUUGGGUCAAGCCAUUGACUUCUGCCAUAGUGCUACCU--
............((((..((((((..((-------(((((...))))))(((((..(..((((((......))))))..).))))))..)))))).))))......-- ( -33.90, z-score =  -2.53, R)
>droSec1.super_4 6116538 101 - 6179234
CGAAUUAAUUAACAUUUUUGGCAGUCGG-------CGGCCGCCGGCUGCUCAAUCAGACUGACCCAGUUUUGGGUCAAGACAUUGACUUCUGCCAUAGUGCUACCUUU
............((((..((((((..((-------(((((...))))))(((((.....((((((......))))))....))))))..)))))).))))........ ( -33.20, z-score =  -2.66, R)
>droYak2.chr3R 28250173 108 - 28832112
CGAAUUAAUUAACAUUUUUGGCAGUCGACGGCCACCGGCCGCCGGCUUCUCAAUCAGACUGACCCAGUUUUGGGUCAAGCCAUUGACUUCUGCCAUUGUGCUACCUUU
............(((...(((((((((.(((((...))))).))))...(((((..(..((((((......))))))..).)))))....)))))..)))........ ( -35.60, z-score =  -3.10, R)
>droEre2.scaffold_4820 9802707 101 + 10470090
CGAAUUAAUUAACAUUUUUGGCAGUCGA-------CGGCCGCCGGCUUCUCAAUCAGACUGACCCAGUUUUGGGUCAAGCCAUUGACUUCUGCCAUUGUGCUACCUUC
............(((...((((((((((-------.(((........(((.....))).((((((......)))))).))).)))))...)))))..)))........ ( -27.90, z-score =  -1.74, R)
>droAna3.scaffold_13340 16444513 99 - 23697760
CGAAUUAAUUAACAUUUUUGGCAGUCGA-------CGGCCGCGGGCUCCUCAAUCAGUCUGACCCAGUUUCGGGACAAGCCAUUGACUUCUGCU--UCUGCUGGUUUC
.((((((............((.((((((-------.(((..((((((........)))))).(((......)))....))).)))))).))((.--...)))))))). ( -24.30, z-score =   0.16, R)
>consensus
CGAAUUAAUUAACAUUUUUGGCAGUCGA_______CGGCCGCCGGCUUCUCAAUCAGACUGACCCAGUUUUGGGUCAAGCCAUUGACUUCUGCCAUAGUGCUACCUUU
............(((...((((((..(.........((((...))))..(((((.....((((((......))))))....))))))..))))))..)))........ (-24.47 = -24.83 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:59:48 2011