Locus 7019

Sequence ID dm3.chr3L
Location 11,534,910 – 11,535,012
Length 102
Max. P 0.538391
window9662 window9663

overview

Window 2

Location 11,534,910 – 11,535,012
Length 102
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 79.17
Shannon entropy 0.38662
G+C content 0.56975
Mean single sequence MFE -37.38
Consensus MFE -22.17
Energy contribution -22.28
Covariance contribution 0.12
Combinations/Pair 1.30
Mean z-score -1.50
Structure conservation index 0.59
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.04
SVM RNA-class probability 0.516471
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 11534910 102 + 24543557
CCGCCGAUCAGGCGGAUCUUUCGAUGACAGGAAUCGAAGAGGGAGGUUCGGGUGGGCGCCUGUGAGGUGGGUGACAUGAU-GAUAUGG--CCACCACUGUGGUUG------
(((((.....)))))......((((.(((((((((.........))))).(((((.((((.....))))(....).....-.......--))))).)))).))))------ ( -37.80, z-score =  -1.27, R)
>droSim1.chr3L 10917798 102 + 22553184
CCGCCGAUCAGGCGGAUCUUUCGAUGACAGGAAUCGAAGAGGGAGGUUCGGGUGGGCGCCUGCGAGGUGGGUGACAUGAU-GAUAUGG--CCACCACUGUCGUUG------
(((((.....)))))......((((((((((((((.........))))).(((((.((((..(...)..)))).((((..-..)))).--))))).)))))))))------ ( -42.30, z-score =  -2.21, R)
>droSec1.super_0 3734266 102 + 21120651
CCGCCGAUCAGGCGGAUCUUUCGAUGACAGGAAUCGAAGAGGGAGGUUCGGGUGGGCGCCUGCGAGGUGGGUGACAUGAU-GAUAUGG--CCACCACUGUGGUUG------
(((((.....)))))......((((.(((((((((.........))))).(((((.((((..(...)..)))).((((..-..)))).--))))).)))).))))------ ( -38.90, z-score =  -1.42, R)
>droPer1.super_20 1803365 105 - 1872136
CCGCCUAUGAGGCGGAUCUUGCGGUGGCAGGAAUCGAAGAGCGAGGUUCGGGUGGGCGCCUGCGAUGUGGGUGACAUGAUCGAUGUGGGGCCACUGCUGCUGCUG------
(((((.....))))).....((((..(((((((((.........))))).....(((.((..((((...(....)...))))....)).))).))))..))))..------ ( -46.90, z-score =  -2.34, R)
>droWil1.scaffold_180698 2045540 108 + 11422946
CCGCCAAUGAGACGAAUCUUGCGAUGGCAAGAAUCGAAUAAAGAUGUUCGGGUGGGCGCUUGCGAAGUGGGAGACAUGAU-GAUGUGA--CCACUAGAAACAGUGUUGUUG
(((((........((.((((((....)))))).))(((((....))))).)))))(((((..(..(((((...((((...-.))))..--))))).)....)))))..... ( -33.30, z-score =  -2.37, R)
>droMoj3.scaffold_6680 18376062 93 + 24764193
CCGCCAAUCAGACGGAUCUUGCGAUGACAGGAAUCGAACAGCGAUGUACGUGUAGGCGCCUGCGAUGUGGGUGACAUGUU-GUUGUUU--AUGUUA---------------
(((.(.....).))).(((((......)))))...((((((((((((((((((((....)))).)))).(....))))))-)))))))--......--------------- ( -25.10, z-score =   0.59, R)
>consensus
CCGCCGAUCAGGCGGAUCUUGCGAUGACAGGAAUCGAAGAGGGAGGUUCGGGUGGGCGCCUGCGAGGUGGGUGACAUGAU_GAUAUGG__CCACCACUGUCGUUG______
(((((.....))))).((((.((((.......))))))))..........(((((.((((..(...)..)))).((((.....))))...)))))................ (-22.17 = -22.28 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 11,534,910 – 11,535,012
Length 102
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 79.17
Shannon entropy 0.38662
G+C content 0.56975
Mean single sequence MFE -25.20
Consensus MFE -18.55
Energy contribution -18.63
Covariance contribution 0.09
Combinations/Pair 1.27
Mean z-score -1.00
Structure conservation index 0.74
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.09
SVM RNA-class probability 0.538391
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 11534910 102 - 24543557
------CAACCACAGUGGUGG--CCAUAUC-AUCAUGUCACCCACCUCACAGGCGCCCACCCGAACCUCCCUCUUCGAUUCCUGUCAUCGAAAGAUCCGCCUGAUCGGCGG
------...((...(.(((((--..((((.-...))))...))))).).((((((......((((........)))).........(((....))).))))))...))... ( -25.40, z-score =  -0.78, R)
>droSim1.chr3L 10917798 102 - 22553184
------CAACGACAGUGGUGG--CCAUAUC-AUCAUGUCACCCACCUCGCAGGCGCCCACCCGAACCUCCCUCUUCGAUUCCUGUCAUCGAAAGAUCCGCCUGAUCGGCGG
------....((((.((((((--.....))-))))))))..((.((...((((((......((((........)))).........(((....))).))))))...)).)) ( -29.60, z-score =  -1.42, R)
>droSec1.super_0 3734266 102 - 21120651
------CAACCACAGUGGUGG--CCAUAUC-AUCAUGUCACCCACCUCGCAGGCGCCCACCCGAACCUCCCUCUUCGAUUCCUGUCAUCGAAAGAUCCGCCUGAUCGGCGG
------...((...(.(((((--(.((...-...))))))))).((...((((((......((((........)))).........(((....))).))))))...)).)) ( -25.90, z-score =  -0.62, R)
>droPer1.super_20 1803365 105 + 1872136
------CAGCAGCAGCAGUGGCCCCACAUCGAUCAUGUCACCCACAUCGCAGGCGCCCACCCGAACCUCGCUCUUCGAUUCCUGCCACCGCAAGAUCCGCCUCAUAGGCGG
------........((.(((((.....(((((..((((.....)))).(((((..(......)..))).))...)))))....))))).)).....(((((.....))))) ( -28.90, z-score =  -1.19, R)
>droWil1.scaffold_180698 2045540 108 - 11422946
CAACAACACUGUUUCUAGUGG--UCACAUC-AUCAUGUCUCCCACUUCGCAAGCGCCCACCCGAACAUCUUUAUUCGAUUCUUGCCAUCGCAAGAUUCGUCUCAUUGGCGG
.........(((....(((((--..((((.-...))))...)))))..)))..((((.....(((........)))((.((((((....)))))).))........)))). ( -23.90, z-score =  -2.30, R)
>droMoj3.scaffold_6680 18376062 93 - 24764193
---------------UAACAU--AAACAAC-AACAUGUCACCCACAUCGCAGGCGCCUACACGUACAUCGCUGUUCGAUUCCUGUCAUCGCAAGAUCCGUCUGAUUGGCGG
---------------......--.......-.................(((((..(..(((((.....)).)))..)...))))).(((....)))(((((.....))))) ( -17.50, z-score =   0.32, R)
>consensus
______CAACCACAGUAGUGG__CCACAUC_AUCAUGUCACCCACCUCGCAGGCGCCCACCCGAACCUCCCUCUUCGAUUCCUGUCAUCGAAAGAUCCGCCUGAUCGGCGG
................(((((....((((.....))))...)))))..(((((........((((........))))...))))).(((....)))(((((.....))))) (-18.55 = -18.63 +   0.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:18:55 2011