Locus 8276

Sequence ID dm3.chr3L
Location 21,594,778 – 21,594,948
Length 170
Max. P 0.988782
window11372 window11373

overview

Window 2

Location 21,594,778 – 21,594,948
Length 170
Sequences 5
Columns 170
Reading direction forward
Mean pairwise identity 93.38
Shannon entropy 0.11278
G+C content 0.45689
Mean single sequence MFE -52.88
Consensus MFE -47.36
Energy contribution -47.80
Covariance contribution 0.44
Combinations/Pair 1.06
Mean z-score -2.39
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.82
SVM RNA-class probability 0.969799
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 21594778 170 + 24543557
UAGGAUCAGAGUGUAAGACCGAUCCGUGUUCAUAUUUGCAUAUUCGCAUAUCAUAUUUAUUAUUUCGCCAGUGCGGGCGAGAUAAUUCCGAGUCCUUUGCAUCCGCUGGAAGGCAUUUCCGCUUCCACAGACAUGCAGAUACAUCCUCGGAGGAAACUGGAAUUGCAUAU
..(((((.(.((.....))))))))...........((((.((((.((..........(((((((((((......)))))))))))((((((...(((((((...((((.((((......)))).).)))..)))))))......))))))(....)))))))))))... ( -49.50, z-score =  -1.39, R)
>droSim1.chr3L 20931419 170 + 22553184
UAGGAUCAGAGUGUAAGACCGAUCCGUGUGCAUAUUUGCAUACUCGCAUAUCAUAUUUAUUAUUUCGCCAGUGCGGGCGAGAUAAUUCCGAGUCCUUUGCAUCCGCUGGAAGGCAUUUCCGCUUCCACAGACAUGCAGAUACAUCCUCGGAGGAAACUCGAAUUGCAUAU
..(((((.(.((.....))))))))(((((((....)))))))..(((..((......(((((((((((......)))))))))))..((((...(((((((...((((.((((......)))).).)))..)))))))......))))(((....)))))..))).... ( -56.90, z-score =  -3.18, R)
>droSec1.super_11 1514940 170 + 2888827
UAGGAUCAGAGUGUAAGACCGAUCCGUGUGCAUAUUUGCAUACUCGCAUAUCAUAUUUAUUAUUUCGCCAGUGCGGGCGAGAUAAUUCCGAGUCCUUUGCAUCCGCUGGAAGGCAUUUCCGCUUCCACAGACAUGCAGAUACAUCCUCGGAGGAAACUCGAAUUGCAUAU
..(((((.(.((.....))))))))(((((((....)))))))..(((..((......(((((((((((......)))))))))))..((((...(((((((...((((.((((......)))).).)))..)))))))......))))(((....)))))..))).... ( -56.90, z-score =  -3.18, R)
>droYak2.chr3L 5280571 162 - 24197627
UUGGAUCACAGUAUAAGAGCGAUCCGUGUGCAUAUUUGCAUA--------UCAUAUUUAUUAGUCCGCCAGUGCGGGCGAAAUAAUUUCGAGUCCUUUGCAUCCGCUGGAAGGCAUUUCCGCUUCCACAGACGUGCAGAUGAAUCCUCGGAGGAAACUCGAAUUGCAUAU
..(((((.(.........).)))))(((((((.((((.....--------...(((((....((((((....)))))).)))))....((((((.(((((((...((((.((((......)))).).)))..))))))).))...))))(((....)))))))))))))) ( -50.50, z-score =  -1.81, R)
>droEre2.scaffold_4784 21249859 162 + 25762168
UAGGAUCACAGUAUAAGACCGAUCCGUGCGCAUAUUUGCAUA--------UCAUAUUUAUUAUUUCGCCAGUGCGGGCGAGAUAAUUCCGAGUCCUUUGCAUCCGCUGGAAGGCAUUUCCGCUUCCACAGACGUGCAGAUACAUCCUCGGAGGAAACUCGAAUUGCAUAU
..(((((.............)))))(((((((....)))...--------((......(((((((((((......)))))))))))..((((...(((((((...((((.((((......)))).).)))..)))))))......))))(((....)))))...)))).. ( -50.62, z-score =  -2.38, R)
>consensus
UAGGAUCAGAGUGUAAGACCGAUCCGUGUGCAUAUUUGCAUA_UCGCAUAUCAUAUUUAUUAUUUCGCCAGUGCGGGCGAGAUAAUUCCGAGUCCUUUGCAUCCGCUGGAAGGCAUUUCCGCUUCCACAGACAUGCAGAUACAUCCUCGGAGGAAACUCGAAUUGCAUAU
..(((((.............)))))((((((((((((((((.................(((((((((((......))))))))))).....(((....((....))((((((.(......)))))))..))))))))))))........(((....)))....))))))) (-47.36 = -47.80 +   0.44)

alignment

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secondary structure

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dotplot

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Window 3

Location 21,594,778 – 21,594,948
Length 170
Sequences 5
Columns 170
Reading direction reverse
Mean pairwise identity 93.38
Shannon entropy 0.11278
G+C content 0.45689
Mean single sequence MFE -54.67
Consensus MFE -51.03
Energy contribution -51.11
Covariance contribution 0.08
Combinations/Pair 1.08
Mean z-score -2.62
Structure conservation index 0.93
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.34
SVM RNA-class probability 0.988782
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 21594778 170 - 24543557
AUAUGCAAUUCCAGUUUCCUCCGAGGAUGUAUCUGCAUGUCUGUGGAAGCGGAAAUGCCUUCCAGCGGAUGCAAAGGACUCGGAAUUAUCUCGCCCGCACUGGCGAAAUAAUAAAUAUGAUAUGCGAAUAUGCAAAUAUGAACACGGAUCGGUCUUACACUCUGAUCCUA
...((((((((((...((.((((((..(((((((((.......((((((((....)).))))))))))))))).....))))))(((((.(((((......))))).)))))......))..)).)))).))))...........(((((((.........))))))).. ( -55.11, z-score =  -2.96, R)
>droSim1.chr3L 20931419 170 - 22553184
AUAUGCAAUUCGAGUUUCCUCCGAGGAUGUAUCUGCAUGUCUGUGGAAGCGGAAAUGCCUUCCAGCGGAUGCAAAGGACUCGGAAUUAUCUCGCCCGCACUGGCGAAAUAAUAAAUAUGAUAUGCGAGUAUGCAAAUAUGCACACGGAUCGGUCUUACACUCUGAUCCUA
...((((.(((((((((((.....)))(((((((((.......((((((((....)).)))))))))))))))...))))))))(((((.(((((......))))).)))))..........)))).((.((((....)))).))(((((((.........))))))).. ( -57.51, z-score =  -2.90, R)
>droSec1.super_11 1514940 170 - 2888827
AUAUGCAAUUCGAGUUUCCUCCGAGGAUGUAUCUGCAUGUCUGUGGAAGCGGAAAUGCCUUCCAGCGGAUGCAAAGGACUCGGAAUUAUCUCGCCCGCACUGGCGAAAUAAUAAAUAUGAUAUGCGAGUAUGCAAAUAUGCACACGGAUCGGUCUUACACUCUGAUCCUA
...((((.(((((((((((.....)))(((((((((.......((((((((....)).)))))))))))))))...))))))))(((((.(((((......))))).)))))..........)))).((.((((....)))).))(((((((.........))))))).. ( -57.51, z-score =  -2.90, R)
>droYak2.chr3L 5280571 162 + 24197627
AUAUGCAAUUCGAGUUUCCUCCGAGGAUUCAUCUGCACGUCUGUGGAAGCGGAAAUGCCUUCCAGCGGAUGCAAAGGACUCGAAAUUAUUUCGCCCGCACUGGCGGACUAAUAAAUAUGA--------UAUGCAAAUAUGCACACGGAUCGCUCUUAUACUGUGAUCCAA
...((((.(((((((((((.....))).....((...((((((((((((((....)).)))))).))))))...))))))))))((((.((((((......)))))).))))........--------..))))...........(((((((.........))))))).. ( -52.20, z-score =  -2.67, R)
>droEre2.scaffold_4784 21249859 162 - 25762168
AUAUGCAAUUCGAGUUUCCUCCGAGGAUGUAUCUGCACGUCUGUGGAAGCGGAAAUGCCUUCCAGCGGAUGCAAAGGACUCGGAAUUAUCUCGCCCGCACUGGCGAAAUAAUAAAUAUGA--------UAUGCAAAUAUGCGCACGGAUCGGUCUUAUACUGUGAUCCUA
...(((..(((((((((((.....)))(((((((((((....))(((((((....)).))))).)))))))))...))))))))(((((.(((((......))))).)))))........--------...(((....)))))).((((((((.....)))..))))).. ( -51.00, z-score =  -1.68, R)
>consensus
AUAUGCAAUUCGAGUUUCCUCCGAGGAUGUAUCUGCAUGUCUGUGGAAGCGGAAAUGCCUUCCAGCGGAUGCAAAGGACUCGGAAUUAUCUCGCCCGCACUGGCGAAAUAAUAAAUAUGAUAUGCGA_UAUGCAAAUAUGCACACGGAUCGGUCUUACACUCUGAUCCUA
...((((.(((((((((((.....)))(((((((((.......((((((((....)).)))))))))))))))...))))))))(((((.(((((......))))).)))))..................))))...........(((((((.........))))))).. (-51.03 = -51.11 +   0.08)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:42:37 2011