Locus 11690

Sequence ID dm3.chr3R
Location 23,119,083 – 23,119,177
Length 94
Max. P 0.789439
window16060 window16061

overview

Window 0

Location 23,119,083 – 23,119,177
Length 94
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 71.97
Shannon entropy 0.49232
G+C content 0.49166
Mean single sequence MFE -28.14
Consensus MFE -17.30
Energy contribution -18.14
Covariance contribution 0.84
Combinations/Pair 1.22
Mean z-score -1.21
Structure conservation index 0.61
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.69
SVM RNA-class probability 0.789439
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 23119083 94 + 27905053
UCGGUCUGGCGAUCGAGACGUGCUCGAUGUGAGGUAUGUGUGUCUAUAAAAAAAAA------UCAUGAUCGUGUGGGGGAUCGCCGCCAGUGGACUUCAA
..(((..(((((((.(((((..(..............)..)))))...........------((((......))))..))))))))))............ ( -24.84, z-score =   0.14, R)
>droAna3.scaffold_13340 4125516 93 - 23697760
CCAGUCUGGCGAGCGAGACGUGCCCGCAUGGAGGUAUUUCUAUAAAAGUGCCAUGAUCGA----CCAGUUUUCUGAUAGUUCGUC---ACUUGACUCAUG
..((((((((((((((..((((....))))..(((((((......)))))))....))..----.(((....)))...)))))))---)...)))).... ( -26.00, z-score =  -0.95, R)
>droEre2.scaffold_4820 5555409 95 - 10470090
CCGGUCUGGCGAUCGAGACGUGCUCGAUGUGAGGUAUGUUCGAGUUUGUCUAAUAA--AAAAUCACGAUCGAGUGGGGGAUCGUC---AGUGGACUUGGG
((((((((((((((.(((((.((((((............)))))).))))).....--....((((......))))..)))))))---...)))).))). ( -33.10, z-score =  -2.24, R)
>droSec1.super_13 1873113 95 + 2104621
UCGGUCUGGCGAUCGAGACGUGCUCGAUGUGAGUUAUGUGUGUCUAUAAAAAAAAA--GAAAUCACGAUCGUGUGGGGGAUCGCC---AGUGGACUUCAA
((.(.(((((((((.(((((..(..(((....)))..)..)))))...........--....(((((....)))))..)))))))---))).))...... ( -29.80, z-score =  -2.05, R)
>droSim1.chr3R 22889802 97 + 27517382
UCGGUCUGGCGAUCGAGACGUGCUCGAUGUGACUUAUGUGUGUCUAUAAAAAAAAAAAGAAAUCACGAUCGUGUGGGGGAUCGCC---CGUGGACUUCAA
..((((((((((((.(((((..(..............)..))))).................(((((....)))))..)))))))---...))))).... ( -26.94, z-score =  -0.96, R)
>consensus
UCGGUCUGGCGAUCGAGACGUGCUCGAUGUGAGGUAUGUGUGUCUAUAAAAAAAAA__GAAAUCACGAUCGUGUGGGGGAUCGCC___AGUGGACUUCAA
..((((((((((((...(((((((........))))))).......................((((......))))..)))))))......))))).... (-17.30 = -18.14 +   0.84)

alignment

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secondary structure

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dotplot

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Window 1

Location 23,119,083 – 23,119,177
Length 94
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 71.97
Shannon entropy 0.49232
G+C content 0.49166
Mean single sequence MFE -21.15
Consensus MFE -10.18
Energy contribution -10.42
Covariance contribution 0.24
Combinations/Pair 1.29
Mean z-score -1.57
Structure conservation index 0.48
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.38
SVM RNA-class probability 0.666490
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 23119083 94 - 27905053
UUGAAGUCCACUGGCGGCGAUCCCCCACACGAUCAUGA------UUUUUUUUUAUAGACACACAUACCUCACAUCGAGCACGUCUCGAUCGCCAGACCGA
..........((((((..((((........))))....------............................((((((.....))))))))))))..... ( -20.10, z-score =  -1.56, R)
>droAna3.scaffold_13340 4125516 93 + 23697760
CAUGAGUCAAGU---GACGAACUAUCAGAAAACUGG----UCGAUCAUGGCACUUUUAUAGAAAUACCUCCAUGCGGGCACGUCUCGCUCGCCAGACUGG
....((((((((---(..((.(.(((((....))))----).).))....)))))..................((((((.......))))))..)))).. ( -21.90, z-score =  -0.20, R)
>droEre2.scaffold_4820 5555409 95 + 10470090
CCCAAGUCCACU---GACGAUCCCCCACUCGAUCGUGAUUUU--UUAUUAGACAAACUCGAACAUACCUCACAUCGAGCACGUCUCGAUCGCCAGACCGG
..........((---(.(((((...(((......))).....--.....((((...(((((............)))))...)))).))))).)))..... ( -19.30, z-score =  -1.66, R)
>droSec1.super_13 1873113 95 - 2104621
UUGAAGUCCACU---GGCGAUCCCCCACACGAUCGUGAUUUC--UUUUUUUUUAUAGACACACAUAACUCACAUCGAGCACGUCUCGAUCGCCAGACCGA
..........((---(((((((........(((.((((....--........................)))))))(((.....))))))))))))..... ( -21.89, z-score =  -2.52, R)
>droSim1.chr3R 22889802 97 - 27517382
UUGAAGUCCACG---GGCGAUCCCCCACACGAUCGUGAUUUCUUUUUUUUUUUAUAGACACACAUAAGUCACAUCGAGCACGUCUCGAUCGCCAGACCGA
.....(((....---(((((((........(((.(((((((.......(((....))).......))))))))))(((.....)))))))))).)))... ( -22.54, z-score =  -1.91, R)
>consensus
UUGAAGUCCACU___GGCGAUCCCCCACACGAUCGUGAUUUC__UUUUUUUUUAUAGACACACAUACCUCACAUCGAGCACGUCUCGAUCGCCAGACCGA
.....(((........((((((........)))))).....................................(((((.....)))))......)))... (-10.18 = -10.42 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:47:42 2011