Locus 5699

Sequence ID dm3.chr3L
Location 559,419 – 559,533
Length 114
Max. P 0.656892
window7828 window7829

overview

Window 8

Location 559,419 – 559,533
Length 114
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 99.65
Shannon entropy 0.00633
G+C content 0.47544
Mean single sequence MFE -30.20
Consensus MFE -30.20
Energy contribution -30.20
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -0.84
Structure conservation index 1.00
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.05
SVM RNA-class probability 0.521680
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 559419 114 + 24543557
UGGAAUUGGCUUAUUUUCGUUUUCCACGAGGUUGGGCGUCUAAAAACGAGGCUAAACUAAUCGGGGGCGGGGUGAAUAAUUCAUCACUCAAGUGUCGCACUCACGACCCAUAAC
(((.....((((.....(((..(((.(((((((.(((.((.......)).))).))))..)))))))))((((((........))))))))))((((......))))))).... ( -30.20, z-score =  -0.91, R)
>droSim1.chr2R 8780971 114 + 19596830
UGGAAUUGGCUUAUUUUCGUUUUCCACGAGGUUGGGCGUCUAAAAACGAGGCUAAACUAAUCGGGGGCGGGGUGAAUAAUUCAUCACUCAAGUGUCGCACUCACGACCCAUAAC
(((.....((((.....(((..(((.(((((((.(((.((.......)).))).))))..)))))))))((((((........))))))))))((((......))))))).... ( -30.20, z-score =  -0.91, R)
>droSec1.super_2 579912 114 + 7591821
UGGAAUUGGCUUAUUUUCGUUUUCCACGAGGUUGGGCGUCUAAAAACGAGGCUAAACUAAUCGGGGGCGGGGUGAAUAAUUCAUCACUCAAGUGUCGCACUCACGACCCAUAAC
(((.....((((.....(((..(((.(((((((.(((.((.......)).))).))))..)))))))))((((((........))))))))))((((......))))))).... ( -30.20, z-score =  -0.91, R)
>droYak2.chr3L 541070 114 + 24197627
UGGAAUUGGCUUAUUUUCGUUUUCCACGAGGUUGGGCGUCUAGAAACGAGGCUAAACUAAUCGGGGGCGGGGUGAAUAAUUCAUCACUCAAGUGUCGCACUCACGACCCAUAAC
(((.....((((.....(((..(((.(((((((.(((.((.......)).))).))))..)))))))))((((((........))))))))))((((......))))))).... ( -30.20, z-score =  -0.58, R)
>droEre2.scaffold_4784 558201 114 + 25762168
UGGAAUUGGCUUAUUUUCGUUUUCCACGAGGUUGGGCGUCUAAAAACGAGGCUAAACUAAUCGGGGGCGGGGUGAAUAAUUCAUCACUCAAGUGUCGCACUCACGACCCAUAAC
(((.....((((.....(((..(((.(((((((.(((.((.......)).))).))))..)))))))))((((((........))))))))))((((......))))))).... ( -30.20, z-score =  -0.91, R)
>consensus
UGGAAUUGGCUUAUUUUCGUUUUCCACGAGGUUGGGCGUCUAAAAACGAGGCUAAACUAAUCGGGGGCGGGGUGAAUAAUUCAUCACUCAAGUGUCGCACUCACGACCCAUAAC
(((.....((((.....(((..(((.(((((((.(((.((.......)).))).))))..)))))))))((((((........))))))))))((((......))))))).... (-30.20 = -30.20 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 559,419 – 559,533
Length 114
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 99.65
Shannon entropy 0.00633
G+C content 0.47544
Mean single sequence MFE -25.98
Consensus MFE -25.86
Energy contribution -26.06
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.02
Structure conservation index 1.00
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.35
SVM RNA-class probability 0.656892
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3L 559419 114 - 24543557
GUUAUGGGUCGUGAGUGCGACACUUGAGUGAUGAAUUAUUCACCCCGCCCCCGAUUAGUUUAGCCUCGUUUUUAGACGCCCAACCUCGUGGAAAACGAAAAUAAGCCAAUUCCA
.....((((.(((((((((.(((....))).))...)))))))...))))..((((.(((((...((((((((..(((........))).))))))))...))))).))))... ( -26.50, z-score =  -1.21, R)
>droSim1.chr2R 8780971 114 - 19596830
GUUAUGGGUCGUGAGUGCGACACUUGAGUGAUGAAUUAUUCACCCCGCCCCCGAUUAGUUUAGCCUCGUUUUUAGACGCCCAACCUCGUGGAAAACGAAAAUAAGCCAAUUCCA
.....((((.(((((((((.(((....))).))...)))))))...))))..((((.(((((...((((((((..(((........))).))))))))...))))).))))... ( -26.50, z-score =  -1.21, R)
>droSec1.super_2 579912 114 - 7591821
GUUAUGGGUCGUGAGUGCGACACUUGAGUGAUGAAUUAUUCACCCCGCCCCCGAUUAGUUUAGCCUCGUUUUUAGACGCCCAACCUCGUGGAAAACGAAAAUAAGCCAAUUCCA
.....((((.(((((((((.(((....))).))...)))))))...))))..((((.(((((...((((((((..(((........))).))))))))...))))).))))... ( -26.50, z-score =  -1.21, R)
>droYak2.chr3L 541070 114 - 24197627
GUUAUGGGUCGUGAGUGCGACACUUGAGUGAUGAAUUAUUCACCCCGCCCCCGAUUAGUUUAGCCUCGUUUCUAGACGCCCAACCUCGUGGAAAACGAAAAUAAGCCAAUUCCA
.....((((.(((((((((.(((....))).))...)))))))...))))..((((.(((((...(((((((((((.(.....).)).))).))))))...))))).))))... ( -23.90, z-score =  -0.24, R)
>droEre2.scaffold_4784 558201 114 - 25762168
GUUAUGGGUCGUGAGUGCGACACUUGAGUGAUGAAUUAUUCACCCCGCCCCCGAUUAGUUUAGCCUCGUUUUUAGACGCCCAACCUCGUGGAAAACGAAAAUAAGCCAAUUCCA
.....((((.(((((((((.(((....))).))...)))))))...))))..((((.(((((...((((((((..(((........))).))))))))...))))).))))... ( -26.50, z-score =  -1.21, R)
>consensus
GUUAUGGGUCGUGAGUGCGACACUUGAGUGAUGAAUUAUUCACCCCGCCCCCGAUUAGUUUAGCCUCGUUUUUAGACGCCCAACCUCGUGGAAAACGAAAAUAAGCCAAUUCCA
.....((((.(((((((((.(((....))).))...)))))))...))))..((((.(((((...((((((((..(((........))).))))))))...))))).))))... (-25.86 = -26.06 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:53:24 2011