Locus 2865

Sequence ID dm3.chr2RHet
Location 1,077,178 – 1,077,316
Length 138
Max. P 0.992933
window3950 window3951

overview

Window 0

Location 1,077,178 – 1,077,295
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 77.75
Shannon entropy 0.38798
G+C content 0.55373
Mean single sequence MFE -42.13
Consensus MFE -29.16
Energy contribution -31.16
Covariance contribution 2.00
Combinations/Pair 1.29
Mean z-score -2.58
Structure conservation index 0.69
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.58
SVM RNA-class probability 0.992933
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2RHet 1077178 117 - 3288761
-UAGUCACCGAUCGUGGCCACCACCUGGUCCUGAUCCACACUCUGUACCACACCACAGCUACAGAGGCG-ACAACGAGGUGACUGUGUUGUGGGCAGCACCUCGCCGCAACA-CACUUCA
-.((((((((((((.(((((.....))))).)))))....(((((((.(........).)))))))...-.......)))))))(((((((((.(........)))))))))-)...... ( -46.00, z-score =  -2.92, R)
>droSim1.chrU 15620837 117 + 15797150
-UAUUCACCGAUUGGGGCCACCACUUGGUCCUGAUCCGCACUCUGUACCACACCACAGCAACAGAGACG-UCAACGAGGUGACUGUGUUGUGGGCAGCAACUCGCCGCAACA-CACUUCA
-...((((((((..((((((.....))))))..)))....((((((..............))))))...-.......))))).((((((((((.(........)))))))))-))..... ( -43.44, z-score =  -2.83, R)
>droSec1.super_94 86368 117 - 93855
-UAGUCGCCGAUCGGGGCCACCACCUGGUCCUGAUCUGCACUCUGUACCACACCACAGCUACAGAGACG-UCAACGAAGCGACUGUGUUGUGGGCAGCAACUCGCCGCAACA-CACUUCA
-.((((((.(((((((((((.....)))))))))))....(((((((.(........).)))))))...-........))))))(((((((((.(........)))))))))-)...... ( -50.00, z-score =  -4.24, R)
>droYak2.chrU 2674141 118 - 28119190
-CAGUCACCUAUCGGGGCCACCACCUCGACCCGAUCCGCACUCAGUACCACACCAGAGCCACGGAUACG-ACAACAAGGUGGCUGUGUUGUGGGCAGAAACGUAUCUUAACACCAAUGCA
-.((((((((.((((((......))))))..(((((((..(((............)))...))))).))-......))))))))((((((((...(((......)))...)).)))))). ( -35.10, z-score =  -0.77, R)
>droAna3.scaffold_13417 3988922 116 - 6960332
AUCACCAUUGAUUGUGGCCAUCACCUGGACCCGAUCCGCACUCUGAAUCACUCUACAGUUGCAGAGGCAUUCAACAUAGUGACC--GAUGUGGGCAGCAACGAGCUGU-CCA-AAAUUAA
.((((....(((((.(((((.....))).))))))).((.(((((....(((....)))..)))))))..........))))..--....((((((((.....)))))-)))-....... ( -36.10, z-score =  -2.12, R)
>consensus
_UAGUCACCGAUCGGGGCCACCACCUGGUCCUGAUCCGCACUCUGUACCACACCACAGCUACAGAGACG_UCAACGAGGUGACUGUGUUGUGGGCAGCAACUCGCCGCAACA_CACUUCA
.(((((((((((((((((((.....)))))))))))....(((((((.(........).)))))))...........)))))))).(((((((...........)))))))......... (-29.16 = -31.16 +   2.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 1,077,217 – 1,077,316
Length 99
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 67.97
Shannon entropy 0.51063
G+C content 0.54571
Mean single sequence MFE -26.51
Consensus MFE -17.16
Energy contribution -18.36
Covariance contribution 1.20
Combinations/Pair 1.23
Mean z-score -1.30
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.29
SVM RNA-class probability 0.921535
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2RHet 1077217 99 - 3288761
--------------------ACCACUUGGUCACUUCAGCUAUAGUCACCGAUCGUGGCCACCACCUGGUCCUGAUCCACACUCUGUACCACACCACAGCUACAGAGGCG-ACAACGAGGU
--------------------(((....(((.(((........))).)))(((((.(((((.....))))).)))))....(((((((.(........).)))))))...-.......))) ( -27.00, z-score =  -0.77, R)
>droSim1.chrU 15620876 99 + 15797150
--------------------ACCCCUUGAUCACUUCAGCUUUAUUCACCGAUUGGGGCCACCACUUGGUCCUGAUCCGCACUCUGUACCACACCACAGCAACAGAGACG-UCAACGAGGU
--------------------...(((((.....................(((..((((((.....))))))..)))....((((((..............))))))...-....))))). ( -27.54, z-score =  -2.02, R)
>droSec1.super_94 86407 99 - 93855
--------------------ACCACUUGACCACUCCAGCCAUAGUCGCCGAUCGGGGCCACCACCUGGUCCUGAUCUGCACUCUGUACCACACCACAGCUACAGAGACG-UCAACGAAGC
--------------------.....(((((................((.(((((((((((.....))))))))))).)).(((((((.(........).)))))))..)-))))...... ( -34.50, z-score =  -3.67, R)
>droYak2.chrU 2674181 94 - 28119190
-------------------------UUGGUCACCUGAGCUACAGUCACCUAUCGGGGCCACCACCUCGACCCGAUCCGCACUCAGUACCACACCAGAGCCACGGAUACG-ACAACAAGGU
-------------------------..(.((....)).).......((((.((((((......))))))..(((((((..(((............)))...))))).))-......)))) ( -20.40, z-score =   0.56, R)
>droAna3.scaffold_13417 3988958 120 - 6960332
ACACCUUUAUUAUAACAGCUAAGACCCUGCUAUCAGCACCAUCACCAUUGAUUGUGGCCAUCACCUGGACCCGAUCCGCACUCUGAAUCACUCUACAGUUGCAGAGGCAUUCAACAUAGU
.................((((.((...(((.....)))...))......(((((.(((((.....))).))))))).((.(((((....(((....)))..)))))))........)))) ( -23.10, z-score =  -0.57, R)
>consensus
____________________ACCACUUGGUCACUUCAGCUAUAGUCACCGAUCGGGGCCACCACCUGGUCCUGAUCCGCACUCUGUACCACACCACAGCUACAGAGACG_UCAACGAGGU
..............................................((((((((((((((.....)))))))))))....(((((((.(........).)))))))...........))) (-17.16 = -18.36 +   1.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:59:29 2011