Locus 135

Sequence ID dm3.chr2L
Location 906,015 – 906,107
Length 92
Max. P 0.999307
window192 window193

overview

Window 2

Location 906,015 – 906,107
Length 92
Sequences 9
Columns 93
Reading direction forward
Mean pairwise identity 76.25
Shannon entropy 0.50095
G+C content 0.41343
Mean single sequence MFE -23.67
Consensus MFE -13.09
Energy contribution -12.72
Covariance contribution -0.37
Combinations/Pair 1.47
Mean z-score -1.96
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.79
SVM RNA-class probability 0.968045
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 906015 92 + 23011544
ACAUAUUAGUGCACAUUUUAAUUCGUUUUUAUUAAAAUGCGCGCAGUCUGUCGAAAGCGGCAAGGUUUUCCCGGGAAAAUGCCAAA-UGGGAG
........((((.(((((((((........))))))))).))))....(((((....)))))......((((.((......))...-.)))). ( -25.10, z-score =  -1.77, R)
>droAna3.scaffold_12916 2627508 80 + 16180835
ACAUAUUAGUGCACAUUUUAAUUCGUUUUUAUUAAAAUGCGCGCAGCAUGUCAAGAGCAUGAGGUGGAAAAAGGGGGUGG-------------
.(((....((((.(((((((((........))))))))).))))..(((.(((......))).)))..........))).------------- ( -20.10, z-score =  -2.37, R)
>droEre2.scaffold_4929 968750 91 + 26641161
ACAUAUUAGUGCACAUUUUAAUUCGUUUUUAUUAAAAUGCGCGCAGUCUGUCGAAAGCGGGAAGGUUUUCC-CGGAAAAUGCCAAA-UGGGAG
(((.(((.((((.(((((((((........))))))))).))))))).)))(....)((((((....))))-)).....(.((...-.)).). ( -23.80, z-score =  -1.54, R)
>droYak2.chr2L 892724 92 + 22324452
ACAUAUUAGUGCACAUUUUAAUUCGUUUUUAUUAAAAAGCGCGCAGUCUGUCGAAAGCGGCAAGGUUUUCCCCGGAAAAUGCCAAA-UGGGAG
.(((....((((...(((((((........))))))).))))(((.((((..((((((......))))))..))))...)))...)-)).... ( -21.70, z-score =  -0.87, R)
>droSec1.super_14 877552 91 + 2068291
ACAUAUUAGUGCACAUUUUAAUUCGUUUUUAUUAAAAUGCGCGCAGUCUGUCGAAA-UGGCAAGGUUUUCCCGGGGAAAUGCCAAA-UGGGAG
........((((.(((((((((........))))))))).))))....((((....-.))))......(((((.((.....))...-))))). ( -24.70, z-score =  -1.74, R)
>droSim1.chr2L 895185 92 + 22036055
ACAUAUUAGUGCACAUUUUAAUUCGUUUUUAUUAAAAAGCGCGCAGUCUGUCGAAAGCGGCAAGGUUUUCCCGGGGAAAUGCCAAA-UGGGAG
........((((.(.(((((((........))))))).).))))....(((((....)))))......(((((.((.....))...-))))). ( -23.00, z-score =  -1.03, R)
>dp4.chr4_group2 801172 89 - 1235136
ACAUAUUAGUGCACAUUUUAAUUCGUUUUUAUUAAAAUGCGCGCAGUCUCCCGGAAGGGAGGGGAAAU----GGGAAAAUGCGAAAAUGGGAG
.(((....((((.(((((((((........))))))))).))))..((((((....))))))....))----).................... ( -27.60, z-score =  -3.64, R)
>droPer1.super_8 3454957 89 + 3966273
ACAUAUUAGUGCACAUUUUAAUUCGUUUUUAUUAAAAUGCGCGCAGUCUCCCGGAAGGGAGGGGAAAU----GGGAAAAUGCAAAAAUGGGAG
.(((....((((.(((((((((........))))))))).))))..((((((....))))))....))----).................... ( -27.60, z-score =  -3.88, R)
>droVir3.scaffold_12963 19466805 80 + 20206255
GCAUAUUAGUGUACAUUUUAAUUCGUUUUUAUUAAAAUGCGCGCAGGUAAAAAGCGUUGCCAGGUGGGCGUGGAUGGGGG-------------
((.((((.(((..(((((((((........)))))))))..))).(((((......))))).)))).))...........------------- ( -19.40, z-score =  -0.81, R)
>consensus
ACAUAUUAGUGCACAUUUUAAUUCGUUUUUAUUAAAAUGCGCGCAGUCUGUCGAAAGCGGCAAGGUUUUCCCGGGAAAAUGCCAAA_UGGGAG
........((((.(((((((((........))))))))).))))...((((.....))))................................. (-13.09 = -12.72 +  -0.37)

alignment

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secondary structure

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dotplot

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Window 3

Location 906,015 – 906,107
Length 92
Sequences 9
Columns 93
Reading direction reverse
Mean pairwise identity 76.25
Shannon entropy 0.50095
G+C content 0.41343
Mean single sequence MFE -21.40
Consensus MFE -11.82
Energy contribution -12.16
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -3.26
Structure conservation index 0.55
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.78
SVM RNA-class probability 0.999307
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 906015 92 - 23011544
CUCCCA-UUUGGCAUUUUCCCGGGAAAACCUUGCCGCUUUCGACAGACUGCGCGCAUUUUAAUAAAAACGAAUUAAAAUGUGCACUAAUAUGU
......-...(((((((((....)))))...))))((..((....))..))((((((((((((........)))))))))))).......... ( -25.60, z-score =  -3.42, R)
>droAna3.scaffold_12916 2627508 80 - 16180835
-------------CCACCCCCUUUUUCCACCUCAUGCUCUUGACAUGCUGCGCGCAUUUUAAUAAAAACGAAUUAAAAUGUGCACUAAUAUGU
-------------.............................(((((..(.((((((((((((........)))))))))))).)...))))) ( -15.80, z-score =  -3.75, R)
>droEre2.scaffold_4929 968750 91 - 26641161
CUCCCA-UUUGGCAUUUUCCG-GGAAAACCUUCCCGCUUUCGACAGACUGCGCGCAUUUUAAUAAAAACGAAUUAAAAUGUGCACUAAUAUGU
....((-(((((........(-((((....)))))((..((....))..))((((((((((((........)))))))))))).)))).))). ( -24.80, z-score =  -3.65, R)
>droYak2.chr2L 892724 92 - 22324452
CUCCCA-UUUGGCAUUUUCCGGGGAAAACCUUGCCGCUUUCGACAGACUGCGCGCUUUUUAAUAAAAACGAAUUAAAAUGUGCACUAAUAUGU
......-...(((((((((....)))))...))))((..((....))..))((((.(((((((........))))))).)))).......... ( -21.30, z-score =  -1.51, R)
>droSec1.super_14 877552 91 - 2068291
CUCCCA-UUUGGCAUUUCCCCGGGAAAACCUUGCCA-UUUCGACAGACUGCGCGCAUUUUAAUAAAAACGAAUUAAAAUGUGCACUAAUAUGU
......-..((((((((((...)))))....)))))-.....(((....(.((((((((((((........)))))))))))).).....))) ( -22.60, z-score =  -2.78, R)
>droSim1.chr2L 895185 92 - 22036055
CUCCCA-UUUGGCAUUUCCCCGGGAAAACCUUGCCGCUUUCGACAGACUGCGCGCUUUUUAAUAAAAACGAAUUAAAAUGUGCACUAAUAUGU
......-...(((((((((...)))))....))))((..((....))..))((((.(((((((........))))))).)))).......... ( -20.30, z-score =  -1.67, R)
>dp4.chr4_group2 801172 89 + 1235136
CUCCCAUUUUCGCAUUUUCCC----AUUUCCCCUCCCUUCCGGGAGACUGCGCGCAUUUUAAUAAAAACGAAUUAAAAUGUGCACUAAUAUGU
...........(((.((((((----................)))))).)))((((((((((((........)))))))))))).......... ( -24.59, z-score =  -5.38, R)
>droPer1.super_8 3454957 89 - 3966273
CUCCCAUUUUUGCAUUUUCCC----AUUUCCCCUCCCUUCCGGGAGACUGCGCGCAUUUUAAUAAAAACGAAUUAAAAUGUGCACUAAUAUGU
...........(((.((((((----................)))))).)))((((((((((((........)))))))))))).......... ( -24.29, z-score =  -5.21, R)
>droVir3.scaffold_12963 19466805 80 - 20206255
-------------CCCCCAUCCACGCCCACCUGGCAACGCUUUUUACCUGCGCGCAUUUUAAUAAAAACGAAUUAAAAUGUACACUAAUAUGC
-------------...........(((.....)))..(((.........))).((((((((((........))))))))))............ ( -13.30, z-score =  -2.02, R)
>consensus
CUCCCA_UUUGGCAUUUUCCCGGGAAAACCUUGCCGCUUUCGACAGACUGCGCGCAUUUUAAUAAAAACGAAUUAAAAUGUGCACUAAUAUGU
...................................................((((((((((((........)))))))))))).......... (-11.82 = -12.16 +   0.33)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:07:20 2011