Locus 8366

Sequence ID dm3.chr3L
Location 22,305,678 – 22,305,812
Length 134
Max. P 0.868161
window11492 window11493

overview

Window 2

Location 22,305,678 – 22,305,812
Length 134
Sequences 5
Columns 134
Reading direction forward
Mean pairwise identity 86.12
Shannon entropy 0.24377
G+C content 0.59676
Mean single sequence MFE -57.02
Consensus MFE -42.98
Energy contribution -43.46
Covariance contribution 0.48
Combinations/Pair 1.25
Mean z-score -2.07
Structure conservation index 0.75
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.99
SVM RNA-class probability 0.868161
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 22305678 134 + 24543557
AGUCGUGGCGUUAAGACUGGAUCCGGAUUGGCAUUCCGGGUUCCGGGUGCCGUGUUCCGGACUCUGGAUUCCGUGCGCCGUAGUUCGUAUGCCGGAAUCCGGAGGCUUAAUAGCACAGCCGAGAUGAGUGUCAC
.(((.((((............((((((.((((((.((((...))))))))))...))))))((((((((((((.(((.((.....))..)))))))))))))))(((....)))...)))).)))......... ( -59.50, z-score =  -3.03, R)
>droEre2.scaffold_4784 21976542 132 + 25762168
AGUCGCGGCUUUGGGACUGGAUCCGGAUUGG--AUCCGUGUUCCGGGCUCUGGGUUCCAAGCUGCGCGCUCCGCGCUCCGUGCUCCGUAUGCCGGAAUCCGGAGGCUUAAAAGCACAGCCGAGCUGAGUGUCAC
.(.(((.(((((((((((((((((.....))--))))).)))))((.(((((((((((..(..(((((...)))))..)(.((.......)))))))))))))).))..))))).((((...)))).))).).. ( -60.70, z-score =  -1.92, R)
>droYak2.chr3L 22706848 133 + 24197627
AGUCGCGGCUUUAAGAAUGGAUCCGGAUUGGCAUUC-GGGUUCCGUGUUCCGUGUUCGGGGUUUUGGGUUCCGGGCUUCGUGGUCCGUACGCCGGGAUCCGGAGGCUUAAAAGCACAGUCGAGAUGAGUGUCAC
.(((.(((((......((((((((((((....))))-))).))))).....(((((..(((((((.((.(((.(((..((.....))...))).))).)).)))))))...)))))))))).)))......... ( -48.00, z-score =  -0.48, R)
>droSec1.super_11 2241310 134 + 2888827
AGUCGCGGCGCUAAGAAUGAAUCCGGAUUGGCAUUCCGGGUUCCGGGUGCCGUGUUCCGGACUCUGGGCUCCGUGCGCCGUAGUCCGUAUGCCGGAAUCCAGAGGCUUAAAAGCACAGCCGAGAUGAGUGUCAC
.(((.((((............((((((.((((((.((((...))))))))))...))))))((((((..((((.(((.((.....))..)))))))..))))))(((....)))...)))).)))......... ( -57.80, z-score =  -2.45, R)
>droSim1.chr3L 21635994 134 + 22553184
AGUCGCGGCGCUAAGAAUGAAUCCGGAUUGGCAUUCCGGGUUCCGGGUGCCGUGUUCCGGACUCUGGGCUCCGUGCGCCGUAGUCCGUAUGCCGGAAUCCAGAGGCUUAAAAGCACAGCCGAGAUGAGUGUCGC
....((((((((.........((((((.((((((.((((...))))))))))...))))))((((((..((((.(((.((.....))..)))))))..))))))(((....)))............)))))))) ( -59.10, z-score =  -2.47, R)
>consensus
AGUCGCGGCGUUAAGAAUGGAUCCGGAUUGGCAUUCCGGGUUCCGGGUGCCGUGUUCCGGACUCUGGGCUCCGUGCGCCGUAGUCCGUAUGCCGGAAUCCGGAGGCUUAAAAGCACAGCCGAGAUGAGUGUCAC
.(((.((((............((((((.(((((.((((.....)))))))))...))))))(((((((.((((.((..((.....))...)))))).)))))))(((....)))...)))).)))......... (-42.98 = -43.46 +   0.48)

alignment

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secondary structure

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dotplot

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Window 3

Location 22,305,678 – 22,305,812
Length 134
Sequences 5
Columns 134
Reading direction reverse
Mean pairwise identity 86.12
Shannon entropy 0.24377
G+C content 0.59676
Mean single sequence MFE -47.80
Consensus MFE -31.10
Energy contribution -32.98
Covariance contribution 1.88
Combinations/Pair 1.16
Mean z-score -2.00
Structure conservation index 0.65
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.11
SVM RNA-class probability 0.549350
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 22305678 134 - 24543557
GUGACACUCAUCUCGGCUGUGCUAUUAAGCCUCCGGAUUCCGGCAUACGAACUACGGCGCACGGAAUCCAGAGUCCGGAACACGGCACCCGGAACCCGGAAUGCCAAUCCGGAUCCAGUCUUAACGCCACGACU
..(((.(((.....((((.........))))...((((((((((...((.....))..)).)))))))).)))((((((....((((.((((...))))..))))..))))))....))).............. ( -48.10, z-score =  -2.60, R)
>droEre2.scaffold_4784 21976542 132 - 25762168
GUGACACUCAGCUCGGCUGUGCUUUUAAGCCUCCGGAUUCCGGCAUACGGAGCACGGAGCGCGGAGCGCGCAGCUUGGAACCCAGAGCCCGGAACACGGAU--CCAAUCCGGAUCCAGUCCCAAAGCCGCGACU
(((...((..((((((((((((.(((..(((((((..(((((.....)))))..))))).)).))).))))))))(((...)))))))..))..)))((((--((.....))))))((((.(......).)))) ( -55.70, z-score =  -2.42, R)
>droYak2.chr3L 22706848 133 - 24197627
GUGACACUCAUCUCGACUGUGCUUUUAAGCCUCCGGAUCCCGGCGUACGGACCACGAAGCCCGGAACCCAAAACCCCGAACACGGAACACGGAACCC-GAAUGCCAAUCCGGAUCCAUUCUUAAAGCCGCGACU
((((((.((.....)).)))(((((.(((..(((((((...(((((.(((.((.((.....))............(((....))).....))...))-).))))).)))))))......))))))))))).... ( -33.80, z-score =  -0.51, R)
>droSec1.super_11 2241310 134 - 2888827
GUGACACUCAUCUCGGCUGUGCUUUUAAGCCUCUGGAUUCCGGCAUACGGACUACGGCGCACGGAGCCCAGAGUCCGGAACACGGCACCCGGAACCCGGAAUGCCAAUCCGGAUUCAUUCUUAGCGCCGCGACU
..........((.((((.(((((....)))((((((..((((((...((.....))..)).))))..))))))((((((....((((.((((...))))..))))..))))))..........)))))).)).. ( -50.30, z-score =  -2.12, R)
>droSim1.chr3L 21635994 134 - 22553184
GCGACACUCAUCUCGGCUGUGCUUUUAAGCCUCUGGAUUCCGGCAUACGGACUACGGCGCACGGAGCCCAGAGUCCGGAACACGGCACCCGGAACCCGGAAUGCCAAUCCGGAUUCAUUCUUAGCGCCGCGACU
.(((........)))((.(((((.......((((((..((((((...((.....))..)).))))..))))))((((((....((((.((((...))))..))))..)))))).........))))).)).... ( -51.10, z-score =  -2.37, R)
>consensus
GUGACACUCAUCUCGGCUGUGCUUUUAAGCCUCCGGAUUCCGGCAUACGGACUACGGCGCACGGAGCCCAGAGUCCGGAACACGGCACCCGGAACCCGGAAUGCCAAUCCGGAUCCAUUCUUAACGCCGCGACU
..........((.((((.((((((((..(.((((((.(((((((...((.....))..)).))))).)))))).)..)))...)))))..(((..(((((.......))))).))).........)))).)).. (-31.10 = -32.98 +   1.88)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:44:18 2011