Locus 7368

Sequence ID dm3.chr3L
Location 14,350,118 – 14,350,214
Length 96
Max. P 0.977504
window10148 window10149

overview

Window 8

Location 14,350,118 – 14,350,214
Length 96
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 97.40
Shannon entropy 0.04225
G+C content 0.51823
Mean single sequence MFE -23.39
Consensus MFE -22.78
Energy contribution -23.04
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.08
Structure conservation index 0.97
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.73
SVM RNA-class probability 0.963892
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 14350118 96 + 24543557
UUCCGCAGUACAAAUUGCAUUCACUUGUUGCGGUGCUUCUUCUUUCUCUUAUCCUGCACUGCUUGGCCGCACUGCUUCGCCCUCAGUGCAUCUUCU
..(((((((....)))))...........(((((((...................)))))))..))..((((((.........))))))....... ( -23.91, z-score =  -2.43, R)
>droSim1.chr3L 13697493 96 + 22553184
UCCCGCAGUACAAAUUGCAUUCACUUGUUGCGGUGCUUCUUCUUUCUCUUAUCCUGCACUGCUUGGCCGCACUGCUUCGCCCUCAGUGCAUCUUCU
..(((((((....)))))...........(((((((...................)))))))..))..((((((.........))))))....... ( -24.11, z-score =  -2.49, R)
>droSec1.super_0 6487036 96 + 21120651
UCCCGCAGUACAAAUUGCAUUCACUUGUUGCGGUGCUUCUUCUUUCUCUUAUCCUGCACUGCUUGGCCGCACUGCUUCGCCCUCAGUGCAUCUUCU
..(((((((....)))))...........(((((((...................)))))))..))..((((((.........))))))....... ( -24.11, z-score =  -2.49, R)
>droEre2.scaffold_4784 14332505 96 + 25762168
UCCCGCAGUACAAAUUGCAUUCACUUGUUGCGGCGCUUCUUCUUUCCCGUAUCCUGCACUGCUUGGCCGCACUGCUUCGCCCCCAGUGCAUCUUCU
....(((((....)))))..........(((((.............)))))...(((((((...(((.((...))...)))..)))))))...... ( -21.42, z-score =  -0.91, R)
>consensus
UCCCGCAGUACAAAUUGCAUUCACUUGUUGCGGUGCUUCUUCUUUCUCUUAUCCUGCACUGCUUGGCCGCACUGCUUCGCCCUCAGUGCAUCUUCU
..(((((((....)))))...........(((((((...................)))))))..))..((((((.........))))))....... (-22.78 = -23.04 +   0.25)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 9

Location 14,350,118 – 14,350,214
Length 96
Sequences 4
Columns 96
Reading direction reverse
Mean pairwise identity 97.40
Shannon entropy 0.04225
G+C content 0.51823
Mean single sequence MFE -28.88
Consensus MFE -28.80
Energy contribution -28.80
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.04
Structure conservation index 1.00
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.98
SVM RNA-class probability 0.977504
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 14350118 96 - 24543557
AGAAGAUGCACUGAGGGCGAAGCAGUGCGGCCAAGCAGUGCAGGAUAAGAGAAAGAAGAAGCACCGCAACAAGUGAAUGCAAUUUGUACUGCGGAA
......(((((((..(((...((...)).)))...))))))).....................(((((((((((.......))))))..))))).. ( -29.00, z-score =  -2.55, R)
>droSim1.chr3L 13697493 96 - 22553184
AGAAGAUGCACUGAGGGCGAAGCAGUGCGGCCAAGCAGUGCAGGAUAAGAGAAAGAAGAAGCACCGCAACAAGUGAAUGCAAUUUGUACUGCGGGA
......(((((((..(((...((...)).)))...))))))).....................(((((((((((.......))))))..))))).. ( -29.20, z-score =  -2.42, R)
>droSec1.super_0 6487036 96 - 21120651
AGAAGAUGCACUGAGGGCGAAGCAGUGCGGCCAAGCAGUGCAGGAUAAGAGAAAGAAGAAGCACCGCAACAAGUGAAUGCAAUUUGUACUGCGGGA
......(((((((..(((...((...)).)))...))))))).....................(((((((((((.......))))))..))))).. ( -29.20, z-score =  -2.42, R)
>droEre2.scaffold_4784 14332505 96 - 25762168
AGAAGAUGCACUGGGGGCGAAGCAGUGCGGCCAAGCAGUGCAGGAUACGGGAAAGAAGAAGCGCCGCAACAAGUGAAUGCAAUUUGUACUGCGGGA
......(((((((.((.((........)).))...))))))).....................(((((((((((.......))))))..))))).. ( -28.10, z-score =  -0.77, R)
>consensus
AGAAGAUGCACUGAGGGCGAAGCAGUGCGGCCAAGCAGUGCAGGAUAAGAGAAAGAAGAAGCACCGCAACAAGUGAAUGCAAUUUGUACUGCGGGA
......(((((((..(((...((...)).)))...))))))).....................(((((((((((.......))))))..))))).. (-28.80 = -28.80 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 23:25:38 2011