Locus 2160

Sequence ID dm3.chr2L
Location 16,680,400 – 16,680,510
Length 110
Max. P 0.997547
window2977 window2978

overview

Window 7

Location 16,680,400 – 16,680,510
Length 110
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 88.73
Shannon entropy 0.19899
G+C content 0.43785
Mean single sequence MFE -28.70
Consensus MFE -25.72
Energy contribution -25.32
Covariance contribution -0.40
Combinations/Pair 1.24
Mean z-score -3.29
Structure conservation index 0.90
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.12
SVM RNA-class probability 0.997547
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 16680400 110 + 23011544
CUUUUUGGCGCAAUAUUAUUCACCUUGACCACGCACCGGUGUGCAAAAGAUUCACCGCACACCGGUGCACUUAAAUUCACCACAGCCUUAAUAAUUCUUACGGCAUUUCC
.....(((.(.(((.....((.....))....((((((((((((............))))))))))))......)))).)))..(((.(((......))).)))...... ( -31.40, z-score =  -4.59, R)
>droSim1.chr2L 16368501 110 + 22036055
CUUUUUGGCGCAAUAUUAUUCACCUUGACCACGCACCGGUGUGCAAAAGAUUCACCGCACAUCGGUGCAUUUAAAUUCACCACAGCCCUAAUAAUUCCUACGGCAUUUCU
.....(((.(.(((.....((.....))....((((((((((((............))))))))))))......)))).)))..(((.((........)).)))...... ( -27.90, z-score =  -3.25, R)
>droSec1.super_7 327380 110 + 3727775
CUUUUUGGCGCAAUAUUAUUCACCUUGACCACGCACCGGUGUGCAAAAGAUUAACCGCACAUCGGUGCAUUUAAAUUCACCACAGCCGUAAUAAUUCCUACGGCAUUUCU
.....(((.(.(((.....((.....))....((((((((((((............))))))))))))......)))).)))..((((((........))))))...... ( -33.60, z-score =  -4.71, R)
>droYak2.chr2R 16716057 108 - 21139217
CUUUUUGGCGCAAUAUUAUUCACCUUGACCACACACCGGUGUGCAAAAA-UUCACCGCACACCGGUAUAUUGAAAUUCACCACAGUCCUAAUGAUUCU-AUGAGGUUUUU
..........................((((....((((((((((.....-......))))))))))..........(((....((((.....))))..-.)))))))... ( -23.00, z-score =  -1.46, R)
>droEre2.scaffold_4845 19749944 110 + 22589142
CUUUUUGGCGCAAUAAUAUUCACCUUGACCAUACACCGGUGUGCAAAAAAUUCACCGCACGCCGGUGCAUACAAAUUCACCACCGCCGUAAUGAUUCUUACGCGAUUUUU
......((((.........((.....)).....(((((((((((............)))))))))))................))))((((......))))......... ( -27.60, z-score =  -2.43, R)
>consensus
CUUUUUGGCGCAAUAUUAUUCACCUUGACCACGCACCGGUGUGCAAAAGAUUCACCGCACACCGGUGCAUUUAAAUUCACCACAGCCCUAAUAAUUCUUACGGCAUUUCU
......(((..........((.....))....((((((((((((............))))))))))))................)))....................... (-25.72 = -25.32 +  -0.40)

alignment

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secondary structure

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dotplot

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Window 8

Location 16,680,400 – 16,680,510
Length 110
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 88.73
Shannon entropy 0.19899
G+C content 0.43785
Mean single sequence MFE -37.02
Consensus MFE -32.04
Energy contribution -31.96
Covariance contribution -0.08
Combinations/Pair 1.20
Mean z-score -3.06
Structure conservation index 0.87
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.81
SVM RNA-class probability 0.995457
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 16680400 110 - 23011544
GGAAAUGCCGUAAGAAUUAUUAAGGCUGUGGUGAAUUUAAGUGCACCGGUGUGCGGUGAAUCUUUUGCACACCGGUGCGUGGUCAAGGUGAAUAAUAUUGCGCCAAAAAG
.....((.(((((..((((((...(((....(((......((((((((((((((((........))))))))))))))))..))).))).)))))).))))).))..... ( -38.20, z-score =  -3.27, R)
>droSim1.chr2L 16368501 110 - 22036055
AGAAAUGCCGUAGGAAUUAUUAGGGCUGUGGUGAAUUUAAAUGCACCGAUGUGCGGUGAAUCUUUUGCACACCGGUGCGUGGUCAAGGUGAAUAAUAUUGCGCCAAAAAG
......(((.(((......))).)))..(((((.......((((((((.(((((((........))))))).))))))))..((.....)).........)))))..... ( -34.70, z-score =  -2.26, R)
>droSec1.super_7 327380 110 - 3727775
AGAAAUGCCGUAGGAAUUAUUACGGCUGUGGUGAAUUUAAAUGCACCGAUGUGCGGUUAAUCUUUUGCACACCGGUGCGUGGUCAAGGUGAAUAAUAUUGCGCCAAAAAG
......(((((((......)))))))..(((((.......((((((((.(((((((........))))))).))))))))..((.....)).........)))))..... ( -38.30, z-score =  -3.33, R)
>droYak2.chr2R 16716057 108 + 21139217
AAAAACCUCAU-AGAAUCAUUAGGACUGUGGUGAAUUUCAAUAUACCGGUGUGCGGUGAA-UUUUUGCACACCGGUGUGUGGUCAAGGUGAAUAAUAUUGCGCCAAAAAG
....(((....-.(((((((((......))))))..))).((((((((((((((((....-...)))))))))))))))))))...((((..........))))...... ( -35.10, z-score =  -3.42, R)
>droEre2.scaffold_4845 19749944 110 - 22589142
AAAAAUCGCGUAAGAAUCAUUACGGCGGUGGUGAAUUUGUAUGCACCGGCGUGCGGUGAAUUUUUUGCACACCGGUGUAUGGUCAAGGUGAAUAUUAUUGCGCCAAAAAG
.......((((((...(((((((....))))))).((((((((((((((.((((((........)))))).))))))))))..))))..........))))))....... ( -38.80, z-score =  -3.02, R)
>consensus
AGAAAUGCCGUAAGAAUUAUUACGGCUGUGGUGAAUUUAAAUGCACCGGUGUGCGGUGAAUCUUUUGCACACCGGUGCGUGGUCAAGGUGAAUAAUAUUGCGCCAAAAAG
.......................(((.(..(((.......((((((((((((((((........))))))))))))))))..((.....))....)))..))))...... (-32.04 = -31.96 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:45:58 2011