Locus 7081

Sequence ID dm3.chr3L
Location 12,023,496 – 12,023,609
Length 113
Max. P 0.987952
window9755 window9756

overview

Window 5

Location 12,023,496 – 12,023,609
Length 113
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 72.74
Shannon entropy 0.52432
G+C content 0.56423
Mean single sequence MFE -37.59
Consensus MFE -16.39
Energy contribution -18.57
Covariance contribution 2.17
Combinations/Pair 1.28
Mean z-score -2.61
Structure conservation index 0.44
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.30
SVM RNA-class probability 0.987952
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 12023496 113 + 24543557
AUGUGGGCUGUGCUCUGUGA-UUACCUACUCCGCCUCAUCAUCCUUCUUUUUCCAACAGUCUCCUAGCAGAAUCCUCUUCGAUUCGGAGGACUGGCAGCUGCGACGUCCCACGC
..(((((.(((((.((((((-(...............)))................((((((((.....(((((......)))))))).)))))))))..)).))).))))).. ( -29.26, z-score =  -0.27, R)
>droSim1.chr3L 11393223 114 + 22553184
AUGUGGGCUGUGCUCUGUGGGUUACCUACUCCUCCUCGAAAUCCUCCUAUUUCCAAAAGCCUUCCUGCAGAAUCCUCUUCGAUUCGGAGGACUGGCAGCUGCGACGGCCCACGC
..(((((((((((.((((((((.....))))..........((((((...........((......)).(((((......)))))))))))...))))..)).))))))))).. ( -42.00, z-score =  -3.13, R)
>droSec1.super_0 4209474 113 + 21120651
AUGUGGGCUGUGCUCUGUGG-UUACCUACUCCUCCUCGAAAUCCUCCUAUUCCCAAAAGCCUUCCUGCAGAAUCCUCUUCGAUUCGGAGGACUGGCAGCUGCGACGGCCCACGC
..(((((((((....((..(-((.((...((((((.......................((......)).(((((......)))))))))))..)).)))..))))))))))).. ( -41.20, z-score =  -3.46, R)
>droYak2.chr3L 12069738 112 + 24197627
AUGUGGGCUGUGCUCUGUGG-UGAGCUACUCCUCCUCAUCGUCCUCCUUCAUCCAA-AGCCUCCUUGCUGAAUCCUCUUCGAUUCGGAGGACUAGCAGCUGCGACGACCCACGC
..(((((.(((((.((((((-((((.........))))))(((((((.........-(((......)))(((((......))))))))))))..))))..)).))).))))).. ( -42.90, z-score =  -3.71, R)
>droEre2.scaffold_4784 12011313 111 + 25762168
AUGUGGGCUGUGCUCUGUGG-UUGCCUACUCCUUCUCAUCAUCCUCC--UUUCCCAAAGCCUCCUUGCUGAAUCCUCUUCGAUUCAGAGGCCUGGCAGCUGCGACGGCCCACGC
..(((((((((....((..(-(((((....((((.............--........(((......)))(((((......))))).))))...))))))..))))))))))).. ( -40.20, z-score =  -3.21, R)
>droAna3.scaffold_13337 11401613 86 - 23293914
--------------AUGUGGGCUGGAAACAUUGGAGGGUAAGUCCUCC----------ACCUCCUUAU----UCCUUUGCCACUCCAGACUCUGGCAGCUGCUCCGACCCACGC
--------------..(((((.((((.....(((((((....))))))----------).........----......((..((((((...)))).))..)))))).))))).. ( -30.00, z-score =  -1.86, R)
>consensus
AUGUGGGCUGUGCUCUGUGG_UUACCUACUCCUCCUCAUAAUCCUCCU_UUUCCAAAAGCCUCCUUGCAGAAUCCUCUUCGAUUCGGAGGACUGGCAGCUGCGACGGCCCACGC
..(((((.(((((.((((((..........)).........((((((...........((......)).(((((......)))))))))))...))))..)).))).))))).. (-16.39 = -18.57 +   2.17)

alignment

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secondary structure

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dotplot

Postscript

Window 6

Location 12,023,496 – 12,023,609
Length 113
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 72.74
Shannon entropy 0.52432
G+C content 0.56423
Mean single sequence MFE -39.07
Consensus MFE -18.35
Energy contribution -20.17
Covariance contribution 1.81
Combinations/Pair 1.33
Mean z-score -1.75
Structure conservation index 0.47
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.97
SVM RNA-class probability 0.864481
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 12023496 113 - 24543557
GCGUGGGACGUCGCAGCUGCCAGUCCUCCGAAUCGAAGAGGAUUCUGCUAGGAGACUGUUGGAAAAAGAAGGAUGAUGAGGCGGAGUAGGUAA-UCACAGAGCACAGCCCACAU
..(((((..((.((..(((((.(((.((((((((......)))))...(((....)))............))).)))..))))).((......-..))...))))..))))).. ( -35.40, z-score =  -0.86, R)
>droSim1.chr3L 11393223 114 - 22553184
GCGUGGGCCGUCGCAGCUGCCAGUCCUCCGAAUCGAAGAGGAUUCUGCAGGAAGGCUUUUGGAAAUAGGAGGAUUUCGAGGAGGAGUAGGUAACCCACAGAGCACAGCCCACAU
..((((((.((.((...(((((.(((((((((((......)))))....((((..((((((....))))))..))))..)))))).).)))).(.....).)))).)))))).. ( -41.20, z-score =  -1.83, R)
>droSec1.super_0 4209474 113 - 21120651
GCGUGGGCCGUCGCAGCUGCCAGUCCUCCGAAUCGAAGAGGAUUCUGCAGGAAGGCUUUUGGGAAUAGGAGGAUUUCGAGGAGGAGUAGGUAA-CCACAGAGCACAGCCCACAU
..((((((.((.((...(((((.(((((((((((......)))))....((((..((((((....))))))..))))..)))))).).)))).-(....).)))).)))))).. ( -41.20, z-score =  -1.81, R)
>droYak2.chr3L 12069738 112 - 24197627
GCGUGGGUCGUCGCAGCUGCUAGUCCUCCGAAUCGAAGAGGAUUCAGCAAGGAGGCU-UUGGAUGAAGGAGGACGAUGAGGAGGAGUAGCUCA-CCACAGAGCACAGCCCACAU
..((((((((((((....))..((((((((((((......)))))..(((((...))-)))......))))))))))))......((.((((.-.....))))))..))))).. ( -43.50, z-score =  -2.53, R)
>droEre2.scaffold_4784 12011313 111 - 25762168
GCGUGGGCCGUCGCAGCUGCCAGGCCUCUGAAUCGAAGAGGAUUCAGCAAGGAGGCUUUGGGAAA--GGAGGAUGAUGAGAAGGAGUAGGCAA-CCACAGAGCACAGCCCACAU
..((((((((((((..((.((.((((((((((((......))))).....)))))))...))...--))..).))))).......((.(....-).))........)))))).. ( -38.20, z-score =  -1.26, R)
>droAna3.scaffold_13337 11401613 86 + 23293914
GCGUGGGUCGGAGCAGCUGCCAGAGUCUGGAGUGGCAAAGGA----AUAAGGAGGU----------GGAGGACUUACCCUCCAAUGUUUCCAGCCCACAU--------------
..((((((.(((((.(((.((((...))))))).))......----.........(----------(((((......)))))).....))).))))))..-------------- ( -34.90, z-score =  -2.23, R)
>consensus
GCGUGGGCCGUCGCAGCUGCCAGUCCUCCGAAUCGAAGAGGAUUCUGCAAGGAGGCUUUUGGAAA_AGGAGGAUGACGAGGAGGAGUAGGUAA_CCACAGAGCACAGCCCACAU
..((((((.((.((....))..((((((((((((......))))).((......))...........))))))).............................)).)))))).. (-18.35 = -20.17 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:20:12 2011