Locus 10783

Sequence ID dm3.chr3R
Location 16,405,565 – 16,405,701
Length 136
Max. P 0.962285
window14814 window14815

overview

Window 4

Location 16,405,565 – 16,405,701
Length 136
Sequences 5
Columns 136
Reading direction forward
Mean pairwise identity 85.29
Shannon entropy 0.26264
G+C content 0.46369
Mean single sequence MFE -42.22
Consensus MFE -31.56
Energy contribution -32.52
Covariance contribution 0.96
Combinations/Pair 1.14
Mean z-score -2.39
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.67
SVM RNA-class probability 0.959363
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 16405565 136 + 27905053
UCAAACCAUCGAUGGUCGCAUCGAUAGUGAGCUAUCGAUAGUUCAGGGUCAGCGGCCUUCGUUGUCUAAUGCCAUCGCUAAUCCGAUAUUAUUGCAGGGCUUUUAGCAAGGGAUUGUCUAAAGCCUUGGUGAAUUC
(((...((.(((.((((((...(((..(((((((....)))))))..))).)))))).))).))..(((((..((((......))))..)))))(((((((((..((((....))))..))))))))).))).... ( -44.10, z-score =  -2.24, R)
>droSim1.chr3R 22454056 136 - 27517382
UCAAACCAUCGAUGGUCGCAUCGAUAGUGUGCUAUCGAUAGUUCAGGGUCAGCGGCCUUCGUAGUCUAGUGCCAUCGCUAGUCCGAUAUUAUUGCAGCGCUUUUAGCAAGGGAUUGUCUAAAGCGUAGGUAAAUUG
....((((((((.((((((((((((((....)))))))).(........).)))))).))...(.((((((....)))))).).))).........(((((((..((((....))))..))))))).)))...... ( -44.30, z-score =  -2.63, R)
>droSec1.super_27 468480 136 - 799419
UCAAACCAUCGAUGGUCGCAUCGAUAGUGUGCUAUCGAUAGUUCAGGGUCAGCGGCCUUCGUAGUCUAGUGCCAUCGCUAGUCCGAUAUUAUUGCAGCGCUUUUAGCAAGGGAUUGUAUAAAGCGUAGGUAAAUUG
....((((((((.((((((((((((((....)))))))).(........).)))))).))...(.((((((....)))))).).))).........(((((((..((((....))))..))))))).)))...... ( -42.90, z-score =  -2.28, R)
>droYak2.chr3R 5191648 133 + 28832112
UCAAACCAUCGAUGGUCGCACCGAUAGUAUUGUAUCGAUAGUUCAGGGUCAGCGUCCUUCAUUGUCUAGACCCAUCGCUAUUCCGAUACUACUGCACAGCUUUUAACACAGAAGUGUUUAAAGCAUUGGCAAU---
....((((....))))....(((((.(((..(((((((((((...(((((((((........)).)).)))))...)))))..))))))...)))...(((((.(((((....))))).))))))))))....--- ( -38.40, z-score =  -3.29, R)
>droEre2.scaffold_4770 12479140 136 - 17746568
UCAUACCAUCGAUGGUCGCAUCGAUAGUAUUGUAUCGAUAGUUCAGGGUCAGCGGCCGUCAUGAUCUGGCCCCAUCGCUAUUCCGAUACCAUUGCACAGCUCUCAGCAAGGAAUUGCCUAAAGCAUUGGUAAUUGG
......(((.((((((((((((((((......))))))).(........).))))))))))))...((((......))))..(((((((((.(((...((.....)).(((.....)))...))).)))).))))) ( -41.40, z-score =  -1.50, R)
>consensus
UCAAACCAUCGAUGGUCGCAUCGAUAGUGUGCUAUCGAUAGUUCAGGGUCAGCGGCCUUCGUAGUCUAGUGCCAUCGCUAGUCCGAUAUUAUUGCAGAGCUUUUAGCAAGGGAUUGUCUAAAGCAUUGGUAAAUUG
....((.(((((((....))))))).)).......(((((((...(((..((((.....................))))..)))...)))))))(((((((((..((((....))))..)))))))))........ (-31.56 = -32.52 +   0.96)

alignment

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secondary structure

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dotplot

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Window 5

Location 16,405,565 – 16,405,701
Length 136
Sequences 5
Columns 136
Reading direction reverse
Mean pairwise identity 85.29
Shannon entropy 0.26264
G+C content 0.46369
Mean single sequence MFE -38.30
Consensus MFE -28.18
Energy contribution -28.70
Covariance contribution 0.52
Combinations/Pair 1.19
Mean z-score -2.45
Structure conservation index 0.74
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.71
SVM RNA-class probability 0.962285
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 16405565 136 - 27905053
GAAUUCACCAAGGCUUUAGACAAUCCCUUGCUAAAAGCCCUGCAAUAAUAUCGGAUUAGCGAUGGCAUUAGACAACGAAGGCCGCUGACCCUGAACUAUCGAUAGCUCACUAUCGAUGCGACCAUCGAUGGUUUGA
........((.((((((((.(((....))))).)))))).))........((((((((.(((((((.((((....(....)...))))........(((((((((....))))))))).).)))))).)))))))) ( -35.70, z-score =  -1.88, R)
>droSim1.chr3R 22454056 136 + 27517382
CAAUUUACCUACGCUUUAGACAAUCCCUUGCUAAAAGCGCUGCAAUAAUAUCGGACUAGCGAUGGCACUAGACUACGAAGGCCGCUGACCCUGAACUAUCGAUAGCACACUAUCGAUGCGACCAUCGAUGGUUUGA
...........((((((((.(((....))))).))))))...........((((((((.(((((((............(((........)))....(((((((((....))))))))).).)))))).)))))))) ( -35.80, z-score =  -2.71, R)
>droSec1.super_27 468480 136 + 799419
CAAUUUACCUACGCUUUAUACAAUCCCUUGCUAAAAGCGCUGCAAUAAUAUCGGACUAGCGAUGGCACUAGACUACGAAGGCCGCUGACCCUGAACUAUCGAUAGCACACUAUCGAUGCGACCAUCGAUGGUUUGA
...........((((((...(((....)))...))))))...........((((((((.(((((((............(((........)))....(((((((((....))))))))).).)))))).)))))))) ( -33.90, z-score =  -2.34, R)
>droYak2.chr3R 5191648 133 - 28832112
---AUUGCCAAUGCUUUAAACACUUCUGUGUUAAAAGCUGUGCAGUAGUAUCGGAAUAGCGAUGGGUCUAGACAAUGAAGGACGCUGACCCUGAACUAUCGAUACAAUACUAUCGGUGCGACCAUCGAUGGUUUGA
---(((((((..(((((.(((((....))))).))))))).))))).((((((..((((....(((((.((.(......)....)))))))....))))))))))...((((((((((....)))))))))).... ( -44.00, z-score =  -3.57, R)
>droEre2.scaffold_4770 12479140 136 + 17746568
CCAAUUACCAAUGCUUUAGGCAAUUCCUUGCUGAGAGCUGUGCAAUGGUAUCGGAAUAGCGAUGGGGCCAGAUCAUGACGGCCGCUGACCCUGAACUAUCGAUACAAUACUAUCGAUGCGACCAUCGAUGGUAUGA
............(((((.(((((....))))).)))))(((((.(((((.((((..((((.....((((..........))))))))...))))))))).).))))((((((((((((....)))))))))))).. ( -42.10, z-score =  -1.75, R)
>consensus
CAAUUUACCAACGCUUUAGACAAUCCCUUGCUAAAAGCGCUGCAAUAAUAUCGGAAUAGCGAUGGCACUAGACAACGAAGGCCGCUGACCCUGAACUAUCGAUAGCACACUAUCGAUGCGACCAUCGAUGGUUUGA
...........((((((((.(((....)))))))).)))...........((((((((.((((((.............(((........)))....(((((((((....)))))))))...)))))).)))))))) (-28.18 = -28.70 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:30:20 2011