Locus 15122

Sequence ID dm3.chrX
Location 17,491,002 – 17,491,111
Length 109
Max. P 0.779859
window20837 window20838

overview

Window 7

Location 17,491,002 – 17,491,111
Length 109
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 76.06
Shannon entropy 0.43607
G+C content 0.60707
Mean single sequence MFE -41.22
Consensus MFE -26.52
Energy contribution -28.52
Covariance contribution 2.00
Combinations/Pair 1.21
Mean z-score -1.23
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.37
SVM RNA-class probability 0.664256
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17491002 109 + 22422827
CAUGGACCUGACCCACCGACCCACCACCACACGGCCGGUGGUAACCCCCAGUUAUGGUGGUGGCCCCCAAUUGGCCCAGGUCCAUGAUGUUGAACAGGCAGUGGAGCUG
((((((((((..((((((..(((((.((....))..)))))((((.....)))))))))).((((.......))))))))))))))..........(((......))). ( -45.00, z-score =  -1.28, R)
>droSim1.chrX 3580455 109 - 17042790
CAUGGACCUGACCCACCGACCCACCACCACCCGGCCGGUGGUGACCCCCAGUUAUGGUGGUAGCCCCGAAUUGGCGCAGGUCCAUGAUGUUGAACAGGCAGUGGAGCUG
((((((((((..((((((...(((((((........)))))))((.....))..))))))..(((.......))).))))))))))..........(((......))). ( -43.40, z-score =  -1.39, R)
>droSec1.super_17 1333839 109 + 1527944
CAUGGACCUGACCCACCGACCCACCACCACCCGGCCGGUGGUGACCCCCAGUUAUGGUGGUAGCCCCGAAUUGGCGCAGGUCCAUGAUGUUGAACAGGCAGUGGAGCUG
((((((((((..((((((...(((((((........)))))))((.....))..))))))..(((.......))).))))))))))..........(((......))). ( -43.40, z-score =  -1.39, R)
>droYak2.chrX 16118677 109 + 21770863
CAUGGACCUAACCCACCGACCCACCACCAGCCGGCCGGUGGUGACCCCCAGUUAUGGUGGUGGCCCCGAACUGGCGCAGGUCGCUGAUGUUGACCAGGCGGUGGAGCUG
..(((.......)))..(..(((((.((.(((((.(((.(((.(((.(((....))).))).))))))..)))))...((((((....).))))).)).)))))..).. ( -48.30, z-score =  -1.23, R)
>droWil1.scaffold_180702 45686 103 - 4511350
CAUGGAUUUGACUUUAAGGCCAACAACGG--CAGCCAGU--CGAUCUUCAAUGGUCACAACGUCGAUGGGAGAG-ACACUUUCA-GAUGUUGAUCACAAAGACGAGGAG
.......((((((.....(((......))--)....)))--)))(((((........(((((((..((..((..-...))..))-))))))).((.....)).))))). ( -26.00, z-score =  -0.84, R)
>consensus
CAUGGACCUGACCCACCGACCCACCACCACCCGGCCGGUGGUGACCCCCAGUUAUGGUGGUGGCCCCGAAUUGGCGCAGGUCCAUGAUGUUGAACAGGCAGUGGAGCUG
((((((((((..(((......(((((((........)))))))(((.(((....))).)))..........)))..))))))))))..........(((......))). (-26.52 = -28.52 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 17,491,002 – 17,491,111
Length 109
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 76.06
Shannon entropy 0.43607
G+C content 0.60707
Mean single sequence MFE -45.40
Consensus MFE -32.00
Energy contribution -34.08
Covariance contribution 2.08
Combinations/Pair 1.31
Mean z-score -1.19
Structure conservation index 0.70
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.67
SVM RNA-class probability 0.779859
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 17491002 109 - 22422827
CAGCUCCACUGCCUGUUCAACAUCAUGGACCUGGGCCAAUUGGGGGCCACCACCAUAACUGGGGGUUACCACCGGCCGUGUGGUGGUGGGUCGGUGGGUCAGGUCCAUG
..((......))...........(((((((((((.(((.....((.(((((((((((.((((((....)).))))...))))))))))).))..))).))))))))))) ( -56.00, z-score =  -2.38, R)
>droSim1.chrX 3580455 109 + 17042790
CAGCUCCACUGCCUGUUCAACAUCAUGGACCUGCGCCAAUUCGGGGCUACCACCAUAACUGGGGGUCACCACCGGCCGGGUGGUGGUGGGUCGGUGGGUCAGGUCCAUG
..((......))...........((((((((((.(((....(.((.((((((((((..((((((....)).))))....)))))))))).)).)..))))))))))))) ( -51.50, z-score =  -1.85, R)
>droSec1.super_17 1333839 109 - 1527944
CAGCUCCACUGCCUGUUCAACAUCAUGGACCUGCGCCAAUUCGGGGCUACCACCAUAACUGGGGGUCACCACCGGCCGGGUGGUGGUGGGUCGGUGGGUCAGGUCCAUG
..((......))...........((((((((((.(((....(.((.((((((((((..((((((....)).))))....)))))))))).)).)..))))))))))))) ( -51.50, z-score =  -1.85, R)
>droYak2.chrX 16118677 109 - 21770863
CAGCUCCACCGCCUGGUCAACAUCAGCGACCUGCGCCAGUUCGGGGCCACCACCAUAACUGGGGGUCACCACCGGCCGGCUGGUGGUGGGUCGGUGGGUUAGGUCCAUG
.(((.(((((((.((((....))))))((((..(.((((((..((.......))..)))))).)..(((((((((....)))))))))))))))))))))......... ( -49.90, z-score =  -0.72, R)
>droWil1.scaffold_180702 45686 103 + 4511350
CUCCUCGUCUUUGUGAUCAACAUC-UGAAAGUGU-CUCUCCCAUCGACGUUGUGACCAUUGAAGAUCG--ACUGGCUG--CCGUUGUUGGCCUUAAAGUCAAAUCCAUG
(.(..((((..((.((...((((.-.....))))-...)).))..))))..).).............(--(((....(--(((....)))).....))))......... ( -18.10, z-score =   0.84, R)
>consensus
CAGCUCCACUGCCUGUUCAACAUCAUGGACCUGCGCCAAUUCGGGGCCACCACCAUAACUGGGGGUCACCACCGGCCGGGUGGUGGUGGGUCGGUGGGUCAGGUCCAUG
.......................((((((((((.(((....(.((.((((((((((..((((((....)).))))....)))))))))).)).)..))))))))))))) (-32.00 = -34.08 +   2.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:53:25 2011