Locus 12270

Sequence ID dm3.chr3R
Location 26,987,244 – 26,987,335
Length 91
Max. P 0.626264
window16872 window16873

overview

Window 2

Location 26,987,244 – 26,987,335
Length 91
Sequences 7
Columns 95
Reading direction reverse
Mean pairwise identity 74.88
Shannon entropy 0.48504
G+C content 0.46635
Mean single sequence MFE -26.74
Consensus MFE -12.87
Energy contribution -12.86
Covariance contribution -0.01
Combinations/Pair 1.45
Mean z-score -1.56
Structure conservation index 0.48
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.28
SVM RNA-class probability 0.626264
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 26987244 91 - 27905053
UUUUUCUCAGUG--UACAUGUGUACAUCUCUGCUCCUGUGC--GUGUGUGCUAGUGUGCAACUGACACAACCGCGAGUCGUGUCUGUUCAUUAUU
...........(--((((..((((((..........)))))--)..)))))(((((.(((...(((((...(....)..)))))))).))))).. ( -25.20, z-score =  -1.12, R)
>dp4.chr2 30647730 79 + 30794189
----------------UUUCUCUCUGGUUUUGUGUGUGUGUUAGUGUGUGUAUGUGUGCAAGUGACACAACCGCGAGCCAUGUCUGUUCAUUAUU
----------------........((((((.(((..(((((((.((..(......)..))..)))))))..)))))))))............... ( -20.30, z-score =  -1.39, R)
>droAna3.scaffold_13340 14370325 73 - 23697760
----------------------UGCACUCGUGUGUCAAUAUGGGUGUGUGUCUGUGUGCAACGGACACAACCGCGAGGCAUGUCUGUUCAUUAUU
----------------------.((((((((((....))))))))))((((((((.....))))))))..((....))................. ( -27.20, z-score =  -1.94, R)
>droEre2.scaffold_4820 9471769 91 + 10470090
UCUUUCUCAGUG--CACAUGUGUACAUCUCUGCUGCUAUGC--GUGUGUGCAUGUGUGCAACUGACACAACCGCGAGUCGUGUCUGUUCAUUAUU
......((((((--(((((((((((((...(((......))--).)))))))))))))).))))).(((..((((...))))..)))........ ( -32.20, z-score =  -2.44, R)
>droYak2.chr3R 27921349 95 - 28832112
UCUCUCUCAGUGCACACAUGUGCACAUUUCUGCUUCUGUGCGUGUGUGUGCUCGUGUGCAAGUGACACAACCGCGAGUCGUGUCUGAUCAUUAUU
......(((.(((((((..(..(((((...(((......))).)))))..)..)))))))...(((((...(....)..))))))))........ ( -31.90, z-score =  -1.31, R)
>droSec1.super_4 5805479 91 - 6179234
UUUUUCUCAGUG--UACAUGUGUACAUCUCUGCUCCUGUGC--GUGUGUACUAGUGUGCAACUGACACAACCGCGAGUCGUGUCUGUUCAUUAUU
...........(--((((..((((((..........)))))--)..)))))(((((.(((...(((((...(....)..)))))))).))))).. ( -25.20, z-score =  -1.41, R)
>droSim1.chr3R 26627979 91 - 27517382
UCUUUCUCAGUG--UACAUGUGUACAUCUCUGCUCCUGUGC--GUGUGUACUAGUGUGCAACUGACACAACCGCGAGUCGUGUCUGUUCAUUAUU
...........(--((((..((((((..........)))))--)..)))))(((((.(((...(((((...(....)..)))))))).))))).. ( -25.20, z-score =  -1.33, R)
>consensus
UCUUUCUCAGUG__UACAUGUGUACAUCUCUGCUCCUGUGC__GUGUGUGCUAGUGUGCAACUGACACAACCGCGAGUCGUGUCUGUUCAUUAUU
.....................((((((....((......))....))))))....(((.(((.(((((...(....)..))))).)))))).... (-12.87 = -12.86 +  -0.01)

alignment

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secondary structure

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dotplot

Postscript

Window 3

Location 26,987,245 – 26,987,335
Length 90
Sequences 7
Columns 94
Reading direction reverse
Mean pairwise identity 74.61
Shannon entropy 0.49020
G+C content 0.47179
Mean single sequence MFE -26.74
Consensus MFE -12.87
Energy contribution -12.86
Covariance contribution -0.01
Combinations/Pair 1.45
Mean z-score -1.49
Structure conservation index 0.48
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.19
SVM RNA-class probability 0.585326
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 26987245 90 - 27905053
UUUUUCUCAGUG--UACAUGUGUACAUCUCUGCUCCUGUGC--GUGUGUGCUAGUGUGCAACUGACACAACCGCGAGUCGUGUCUGUUCAUUAU
...........(--((((..((((((..........)))))--)..)))))(((((.(((...(((((...(....)..)))))))).))))). ( -25.20, z-score =  -1.05, R)
>dp4.chr2 30647731 78 + 30794189
----------------UUUCUCUCUGGUUUUGUGUGUGUGUUAGUGUGUGUAUGUGUGCAAGUGACACAACCGCGAGCCAUGUCUGUUCAUUAU
----------------........((((((.(((..(((((((.((..(......)..))..)))))))..))))))))).............. ( -20.30, z-score =  -1.32, R)
>droAna3.scaffold_13340 14370326 72 - 23697760
----------------------UGCACUCGUGUGUCAAUAUGGGUGUGUGUCUGUGUGCAACGGACACAACCGCGAGGCAUGUCUGUUCAUUAU
----------------------.((((((((((....))))))))))((((((((.....))))))))..((....))................ ( -27.20, z-score =  -1.91, R)
>droEre2.scaffold_4820 9471770 90 + 10470090
UCUUUCUCAGUG--CACAUGUGUACAUCUCUGCUGCUAUGC--GUGUGUGCAUGUGUGCAACUGACACAACCGCGAGUCGUGUCUGUUCAUUAU
......((((((--(((((((((((((...(((......))--).)))))))))))))).))))).(((..((((...))))..)))....... ( -32.20, z-score =  -2.33, R)
>droYak2.chr3R 27921350 94 - 28832112
UCUCUCUCAGUGCACACAUGUGCACAUUUCUGCUUCUGUGCGUGUGUGUGCUCGUGUGCAAGUGACACAACCGCGAGUCGUGUCUGAUCAUUAU
......(((.(((((((..(..(((((...(((......))).)))))..)..)))))))...(((((...(....)..))))))))....... ( -31.90, z-score =  -1.27, R)
>droSec1.super_4 5805480 90 - 6179234
UUUUUCUCAGUG--UACAUGUGUACAUCUCUGCUCCUGUGC--GUGUGUACUAGUGUGCAACUGACACAACCGCGAGUCGUGUCUGUUCAUUAU
...........(--((((..((((((..........)))))--)..)))))(((((.(((...(((((...(....)..)))))))).))))). ( -25.20, z-score =  -1.31, R)
>droSim1.chr3R 26627980 90 - 27517382
UCUUUCUCAGUG--UACAUGUGUACAUCUCUGCUCCUGUGC--GUGUGUACUAGUGUGCAACUGACACAACCGCGAGUCGUGUCUGUUCAUUAU
...........(--((((..((((((..........)))))--)..)))))(((((.(((...(((((...(....)..)))))))).))))). ( -25.20, z-score =  -1.21, R)
>consensus
UCUUUCUCAGUG__UACAUGUGUACAUCUCUGCUCCUGUGC__GUGUGUGCUAGUGUGCAACUGACACAACCGCGAGUCGUGUCUGUUCAUUAU
.....................((((((....((......))....))))))....(((.(((.(((((...(....)..))))).))))))... (-12.87 = -12.86 +  -0.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:59:00 2011