Locus 11445

Sequence ID dm3.chr3R
Location 21,244,905 – 21,245,019
Length 114
Max. P 0.779751
window15730 window15731

overview

Window 0

Location 21,244,905 – 21,245,019
Length 114
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 78.94
Shannon entropy 0.40194
G+C content 0.45687
Mean single sequence MFE -31.90
Consensus MFE -17.29
Energy contribution -19.68
Covariance contribution 2.39
Combinations/Pair 1.16
Mean z-score -1.92
Structure conservation index 0.54
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.67
SVM RNA-class probability 0.779751
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 21244905 114 + 27905053
---AUAAUUAUCUUUGAAAAUA--UAUUUUUUUAGUGUGAAAACUAAGGGU-AUCCCCCGCCGCAGCCACAACAUUGUCCUGUGGCACAGUUUUACAGCCACUGACGGACGACGAUGACG
---....(((((.(((((((..--...))))((((((((((((((..(((.-....)))(((((((..(((....))).)))))))..)))))).))..))))))....))).))))).. ( -28.50, z-score =  -2.04, R)
>droAna3.scaffold_13340 14467482 105 - 23697760
-------------UUGAUGGCCA-AUUCGGUUUAAAGUGUAGCCGAAGAGGCAUCCAUGGCCACAGCCGCAACAUUGUGCUGUGGCACAGUUUUGCAGCCACUGAAUG-GGACGUUGUCG
-------------..(((((((.-.(((((((........)))))))..))).(((((.((((((((.(((....))))))))))).((((.........)))).)))-)).)))).... ( -40.00, z-score =  -2.17, R)
>droEre2.scaffold_4820 3670086 114 - 10470090
AUUUUUAUAAUCUUUGUAAG----UCUUUUUUUAGUGUGAAAUCUA-GGGG-AUCCAACGCCGCAUCCACAACAUUGUACUGUGGCACAGUUUUACAGCCACUGACGGAGGACGAUGACG
...............((..(----(((((..((((((((((((...-((..-..))...((((((...(((....)))..))))))...)))))))....)))))..))))))....)). ( -26.60, z-score =  -0.70, R)
>droYak2.chr3R 3591298 111 - 28832112
------AUUAUCUUUGUAGACC--UUUUUUUAAAGUGUCCAAACUAGGAGG-AUCCACCGCCGCAUCCACAACAUUGUCCUGUGGCACAGUUUUACAGCCACUGACGGAGGACGAUGACG
------....((((.((.((((--(((....)))).)))...)).))))((-((.(......).))))....((((((((((((((...........)))))......)))))))))... ( -28.80, z-score =  -1.57, R)
>droSec1.super_13 18466 119 + 2104621
AUUAUAAUUAUCUUUGUGCAACCUUUUUUUUUUAGUGUGAACACUAAGGGG-AUCCCCCGCCGCAGCCACAACAUUGUCCUGUGGCACAGUUUUACAGCCACUGACGGAGGACGAUGACG
.............((((((............((((((....))))))((((-...))))......).)))))((((((((((((((...........)))))......)))))))))... ( -35.90, z-score =  -2.95, R)
>droSim1.chr3R 21072655 117 + 27517382
AUUAUAAUUAUCUUUGUAUAAC--AUUUUUUUUAGUGUGAAAACUAAGGGG-AUCCCCCGCCGCAGCCACAACAUUGUCCUGUGGCACAGUUUUACAGCCACUGACGGAGGACGAUGACG
.......(((((..((.....)--)((((..((((((((((((((..((((-...))))(((((((..(((....))).)))))))..)))))).))..))))))..))))..))))).. ( -31.60, z-score =  -2.06, R)
>consensus
___AUAAUUAUCUUUGUAAAAC__UUUUUUUUUAGUGUGAAAACUAAGGGG_AUCCACCGCCGCAGCCACAACAUUGUCCUGUGGCACAGUUUUACAGCCACUGACGGAGGACGAUGACG
.......(((((................((((((((......))))))))...(((.(((((((((..(((....))).))))))).((((.........))))..)).))).))))).. (-17.29 = -19.68 +   2.39)

alignment

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secondary structure

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dotplot

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Window 1

Location 21,244,905 – 21,245,019
Length 114
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.94
Shannon entropy 0.40194
G+C content 0.45687
Mean single sequence MFE -31.79
Consensus MFE -18.43
Energy contribution -19.32
Covariance contribution 0.89
Combinations/Pair 1.10
Mean z-score -1.49
Structure conservation index 0.58
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.11
SVM RNA-class probability 0.546557
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 21244905 114 - 27905053
CGUCAUCGUCGUCCGUCAGUGGCUGUAAAACUGUGCCACAGGACAAUGUUGUGGCUGCGGCGGGGGAU-ACCCUUAGUUUUCACACUAAAAAAAUA--UAUUUUCAAAGAUAAUUAU---
.(((...(((.((((((.(..((..(((...(((.(....).)))...)))..))..))))))).)))-....(((((......))))).......--..........)))......--- ( -29.50, z-score =  -1.15, R)
>droAna3.scaffold_13340 14467482 105 + 23697760
CGACAACGUCC-CAUUCAGUGGCUGCAAAACUGUGCCACAGCACAAUGUUGCGGCUGUGGCCAUGGAUGCCUCUUCGGCUACACUUUAAACCGAAU-UGGCCAUCAA-------------
.......(.((-.((((.((((((((((...(((((....)))))...))))))))((((((..(((....)))..)))))).......)).))))-.)).).....------------- ( -36.00, z-score =  -2.09, R)
>droEre2.scaffold_4820 3670086 114 + 10470090
CGUCAUCGUCCUCCGUCAGUGGCUGUAAAACUGUGCCACAGUACAAUGUUGUGGAUGCGGCGUUGGAU-CCCC-UAGAUUUCACACUAAAAAAAGA----CUUACAAAGAUUAUAAAAAU
.((.(((.......(((.(((((...........)))))(((.(((((((((....)))))))))(((-(...-..))))....))).......))----).......))).))...... ( -22.64, z-score =  -0.02, R)
>droYak2.chr3R 3591298 111 + 28832112
CGUCAUCGUCCUCCGUCAGUGGCUGUAAAACUGUGCCACAGGACAAUGUUGUGGAUGCGGCGGUGGAU-CCUCCUAGUUUGGACACUUUAAAAAAA--GGUCUACAAAGAUAAU------
.(((...((((.(((((.(((((...........)))))..)))...(((((....))))))).))))-..........(((((.((((....)))--))))))....)))...------ ( -30.90, z-score =  -1.04, R)
>droSec1.super_13 18466 119 - 2104621
CGUCAUCGUCCUCCGUCAGUGGCUGUAAAACUGUGCCACAGGACAAUGUUGUGGCUGCGGCGGGGGAU-CCCCUUAGUGUUCACACUAAAAAAAAAAGGUUGCACAAAGAUAAUUAUAAU
.((.(((((((((((((.(..((..(((...(((.(....).)))...)))..))..)))))))))))-....((((((....))))))........))).))................. ( -38.40, z-score =  -2.70, R)
>droSim1.chr3R 21072655 117 - 27517382
CGUCAUCGUCCUCCGUCAGUGGCUGUAAAACUGUGCCACAGGACAAUGUUGUGGCUGCGGCGGGGGAU-CCCCUUAGUUUUCACACUAAAAAAAAU--GUUAUACAAAGAUAAUUAUAAU
.(((...((((((((((.(..((..(((...(((.(....).)))...)))..))..)))))))))))-....(((((......))))).......--..........)))......... ( -33.30, z-score =  -1.94, R)
>consensus
CGUCAUCGUCCUCCGUCAGUGGCUGUAAAACUGUGCCACAGGACAAUGUUGUGGCUGCGGCGGGGGAU_CCCCUUAGUUUUCACACUAAAAAAAAA__GGUCUACAAAGAUAAUUAU___
.......((((.(((((.(((((..(((...(((.(....).)))...)))..)))))))))).)))).................................................... (-18.43 = -19.32 +   0.89)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:43:06 2011