Locus 4392

Sequence ID dm3.chr2R
Location 12,733,347 – 12,733,457
Length 110
Max. P 0.877870
window6020 window6021

overview

Window 0

Location 12,733,347 – 12,733,457
Length 110
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 90.36
Shannon entropy 0.17587
G+C content 0.42733
Mean single sequence MFE -30.86
Consensus MFE -23.92
Energy contribution -23.96
Covariance contribution 0.04
Combinations/Pair 1.04
Mean z-score -1.76
Structure conservation index 0.78
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.14
SVM RNA-class probability 0.564299
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 12733347 110 + 21146708
ACGAUGGAUUUGUAUGGAUGAUGAAUGGCGAGGGCAGCAAUUGUGCAACCAUUUCCACACCAUCAGCGGGAAAUCCAUCAGGUUGGAUUAGAAUAAUAUUUCUACCAUAA
..(((((((((.(.....(((((..(((.((.((..(((....)))..)).)).)))...)))))...).))))))))).(((.(((.((......)).))).))).... ( -30.60, z-score =  -1.36, R)
>droSim1.chr2R 11468608 110 + 19596830
ACGAUGGAUUUGUAUGGAAGAUGAAUGGCGAGAGCAGCAAUUGUGCAACCAUUUCCACACCAUCAGCGGGAAAUCCAUCAAGUUGGAUUAGAAUAAUAUUUCUACCAUAA
..(((((((((...((((.((((....((....)).(((....)))...))))))))..((......)).)))))))))....(((..(((((......))))))))... ( -30.20, z-score =  -2.33, R)
>droSec1.super_1 10237737 97 + 14215200
ACGGUGGAUUUGUAUGGAUGAUGAAUGGCGAGAGCAGCAAUUGUGCAACCAUUUCCACGCCAUCAGUGGGAAAUCCAUCAGGUUGGAUUACCAUAAC-------------
...(((((..((..((.(..((.....((....))....))..).))..))..))))).......((((..((((((......)))))).))))...------------- ( -30.00, z-score =  -1.62, R)
>droYak2.chr2R 4896592 110 - 21139217
ACGAUGGAUUUGUAUGGAUGAUGAAUGGCGAGAGCAGCAAUUGUGCAACGAUUUCCACACCAUCCGCGGGAAAUCCAUCAGGUUGGAUUAGAAUAAUAUUUCCACCAUAA
..(((((((((.(.((((((.((....((....)).(((....)))...........)).))))))..).))))))))).(((.(((.............)))))).... ( -33.32, z-score =  -2.28, R)
>droEre2.scaffold_4845 9470734 110 - 22589142
ACGAUGGAUUUGUAUGGAUGAUGAAUGGCGAGAGCAGCAAUUGUGCAACCAUUUCCACACCAUCAGCGGGAAAUCCAUCAGGUUGGAUUAGAAUAGUAUUUCUACCAUGA
..(((((((((...((((.((((....((....)).(((....)))...))))))))..((......)).)))))))))....(((..(((((......))))))))... ( -30.20, z-score =  -1.21, R)
>consensus
ACGAUGGAUUUGUAUGGAUGAUGAAUGGCGAGAGCAGCAAUUGUGCAACCAUUUCCACACCAUCAGCGGGAAAUCCAUCAGGUUGGAUUAGAAUAAUAUUUCUACCAUAA
..(((((((((...((((.((((....((....)).(((....)))...))))))))..((......)).)))))))))............................... (-23.92 = -23.96 +   0.04)

alignment

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secondary structure

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dotplot

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Window 1

Location 12,733,347 – 12,733,457
Length 110
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 90.36
Shannon entropy 0.17587
G+C content 0.42733
Mean single sequence MFE -29.86
Consensus MFE -23.75
Energy contribution -25.24
Covariance contribution 1.49
Combinations/Pair 1.10
Mean z-score -2.16
Structure conservation index 0.80
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.03
SVM RNA-class probability 0.877870
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 12733347 110 - 21146708
UUAUGGUAGAAAUAUUAUUCUAAUCCAACCUGAUGGAUUUCCCGCUGAUGGUGUGGAAAUGGUUGCACAAUUGCUGCCCUCGCCAUUCAUCAUCCAUACAAAUCCAUCGU
...((((((((......)))))..)))....(((((((((......((((((((((....(((.(((....))).)))....)))..))))))).....))))))))).. ( -32.70, z-score =  -2.92, R)
>droSim1.chr2R 11468608 110 - 19596830
UUAUGGUAGAAAUAUUAUUCUAAUCCAACUUGAUGGAUUUCCCGCUGAUGGUGUGGAAAUGGUUGCACAAUUGCUGCUCUCGCCAUUCAUCUUCCAUACAAAUCCAUCGU
...((((((((......)))))..)))....(((((((((....(....)(((((((((((((.((((....).)))....))))).....))))))))))))))))).. ( -29.20, z-score =  -2.27, R)
>droSec1.super_1 10237737 97 - 14215200
-------------GUUAUGGUAAUCCAACCUGAUGGAUUUCCCACUGAUGGCGUGGAAAUGGUUGCACAAUUGCUGCUCUCGCCAUUCAUCAUCCAUACAAAUCCACCGU
-------------..(((((.((((((......))))))......((((((.((((....(((.(((....))).)))....)))))))))).)))))............ ( -23.20, z-score =  -0.40, R)
>droYak2.chr2R 4896592 110 + 21139217
UUAUGGUGGAAAUAUUAUUCUAAUCCAACCUGAUGGAUUUCCCGCGGAUGGUGUGGAAAUCGUUGCACAAUUGCUGCUCUCGCCAUUCAUCAUCCAUACAAAUCCAUCGU
....((((((.............))).))).(((((((((.....(((((((((((.....((.(((....))).)).....)))..))))))))....))))))))).. ( -32.62, z-score =  -2.52, R)
>droEre2.scaffold_4845 9470734 110 + 22589142
UCAUGGUAGAAAUACUAUUCUAAUCCAACCUGAUGGAUUUCCCGCUGAUGGUGUGGAAAUGGUUGCACAAUUGCUGCUCUCGCCAUUCAUCAUCCAUACAAAUCCAUCGU
..((((((....)))))).............(((((((((......((((((((((....(((.(((....))).)))....)))..))))))).....))))))))).. ( -31.60, z-score =  -2.69, R)
>consensus
UUAUGGUAGAAAUAUUAUUCUAAUCCAACCUGAUGGAUUUCCCGCUGAUGGUGUGGAAAUGGUUGCACAAUUGCUGCUCUCGCCAUUCAUCAUCCAUACAAAUCCAUCGU
..((((((....)))))).............(((((((((......((((((((((....(((.(((....))).)))....)))..))))))).....))))))))).. (-23.75 = -25.24 +   1.49)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:28:19 2011