Locus 12685

Sequence ID dm3.chrX
Location 1,590,285 – 1,590,368
Length 83
Max. P 0.895976
window17444 window17445

overview

Window 4

Location 1,590,285 – 1,590,368
Length 83
Sequences 6
Columns 84
Reading direction forward
Mean pairwise identity 80.72
Shannon entropy 0.37597
G+C content 0.60958
Mean single sequence MFE -30.28
Consensus MFE -19.49
Energy contribution -21.43
Covariance contribution 1.95
Combinations/Pair 1.19
Mean z-score -1.52
Structure conservation index 0.64
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.35
SVM RNA-class probability 0.654534
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 1590285 83 + 22422827
AUCCGUACGAGGACCGGAACGAUAGG-GAAGACACCGACUCCAGCUGGAGUCAGUUGGCAGAUCGUCGCCUCCGGAUGCGGAUG
(((((((......(((((.((((.((-.......))(((((((((((....))))))).)).))))))..))))).))))))). ( -32.00, z-score =  -1.51, R)
>droSim1.chrX_random 1054247 83 + 5698898
AUCCGCACGAGGACCGGAACGAUAGG-GAGGACACCGACUCCAGCCGGAGUCAGUUGGCAGAUCGUCGCCUCCGGAUGCGGAUG
(((((((...(((..((.(((((...-(..(((...((((((....)))))).)))..)..)))))..)))))...))))))). ( -32.90, z-score =  -1.23, R)
>droSec1.super_10 1395665 83 + 3036183
AUCCGCACGAGGACCGGAACAAUAGG-GAGGACACCGACUCCAACCGGAGUCAGUUGGCAGAUCGUCGCCUCCGGAUGCGGAUG
(((((((((.....)).........(-((((.(...((((((....))))))....(((.....)))))))))...))))))). ( -32.40, z-score =  -1.77, R)
>droYak2.chrX 1443588 83 + 21770863
AUUCGCCCGAGGACCGGAACAAUAGG-GAAGACACCGACUCCAGCCGGAGUCAGUUGGUAGAUCGCCGCCUCCGGAUGCGGAUG
((((((((((((..(((..((((.((-.......))((((((....)))))).))))........)))))).)))..)))))). ( -28.70, z-score =  -0.65, R)
>droEre2.scaffold_4644 1577178 83 + 2521924
AUUCGCACGAGGACCGGAACAAUAGG-GAAGACACCGACUCCAGCCGGAGUCAGUUGGCAGAUCGUUGCCUCCGGAUGCGGAUG
(((((((......(((((......((-.......))((((((....))))))....(((((....)))))))))).))))))). ( -30.70, z-score =  -1.84, R)
>droAna3.scaffold_12929 1465209 72 + 3277472
------------CCCACAACCAUAUUUGGCGGCACGAGCUCCCGCCAAAGGCAGUUGGCCAUUCGUCGUCUUCUGCCACGGAUG
------------.......((...((((((((.........))))))))(((((..(((........)))..)))))..))... ( -25.00, z-score =  -2.09, R)
>consensus
AUCCGCACGAGGACCGGAACAAUAGG_GAAGACACCGACUCCAGCCGGAGUCAGUUGGCAGAUCGUCGCCUCCGGAUGCGGAUG
(((((((......(((((..................((((((....))))))....(((........)))))))).))))))). (-19.49 = -21.43 +   1.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 1,590,285 – 1,590,368
Length 83
Sequences 6
Columns 84
Reading direction reverse
Mean pairwise identity 80.72
Shannon entropy 0.37597
G+C content 0.60958
Mean single sequence MFE -32.23
Consensus MFE -21.83
Energy contribution -23.50
Covariance contribution 1.67
Combinations/Pair 1.22
Mean z-score -1.79
Structure conservation index 0.68
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.13
SVM RNA-class probability 0.895976
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chrX 1590285 83 - 22422827
CAUCCGCAUCCGGAGGCGACGAUCUGCCAACUGACUCCAGCUGGAGUCGGUGUCUUC-CCUAUCGUUCCGGUCCUCGUACGGAU
.(((((.(((((((((((......)))).(((((((((....)))))))))......-........))))).....)).))))) ( -32.00, z-score =  -1.83, R)
>droSim1.chrX_random 1054247 83 - 5698898
CAUCCGCAUCCGGAGGCGACGAUCUGCCAACUGACUCCGGCUGGAGUCGGUGUCCUC-CCUAUCGUUCCGGUCCUCGUGCGGAU
.(((((((((((((((((......)))).(((((((((....)))))))))......-........))))).....)))))))) ( -37.90, z-score =  -2.74, R)
>droSec1.super_10 1395665 83 - 3036183
CAUCCGCAUCCGGAGGCGACGAUCUGCCAACUGACUCCGGUUGGAGUCGGUGUCCUC-CCUAUUGUUCCGGUCCUCGUGCGGAU
.(((((((((((((((((......)))).(((((((((....)))))))))......-........))))).....)))))))) ( -37.90, z-score =  -3.13, R)
>droYak2.chrX 1443588 83 - 21770863
CAUCCGCAUCCGGAGGCGGCGAUCUACCAACUGACUCCGGCUGGAGUCGGUGUCUUC-CCUAUUGUUCCGGUCCUCGGGCGAAU
....(((....((((((((.......)).(((((((((....)))))))))))))))-.........(((.....))))))... ( -28.70, z-score =  -0.03, R)
>droEre2.scaffold_4644 1577178 83 - 2521924
CAUCCGCAUCCGGAGGCAACGAUCUGCCAACUGACUCCGGCUGGAGUCGGUGUCUUC-CCUAUUGUUCCGGUCCUCGUGCGAAU
....((((((((((((((......)))).(((((((((....)))))))))......-........))))).....)))))... ( -33.40, z-score =  -2.87, R)
>droAna3.scaffold_12929 1465209 72 - 3277472
CAUCCGUGGCAGAAGACGACGAAUGGCCAACUGCCUUUGGCGGGAGCUCGUGCCGCCAAAUAUGGUUGUGGG------------
(((.(((.((....).).))).))).(((...(((((((((((.(.....).))))))))...)))..))).------------ ( -23.50, z-score =  -0.14, R)
>consensus
CAUCCGCAUCCGGAGGCGACGAUCUGCCAACUGACUCCGGCUGGAGUCGGUGUCUUC_CCUAUUGUUCCGGUCCUCGUGCGGAU
....((((((((((((((......)))).(((((((((....)))))))))...............))))).....)))))... (-21.83 = -23.50 +   1.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 01:06:57 2011