Locus 386

Sequence ID dm3.chr2L
Location 2,649,547 – 2,649,705
Length 158
Max. P 0.998978
window525 window526 window527

overview

Window 5

Location 2,649,547 – 2,649,665
Length 118
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 75.89
Shannon entropy 0.45938
G+C content 0.44319
Mean single sequence MFE -31.57
Consensus MFE -19.00
Energy contribution -20.92
Covariance contribution 1.92
Combinations/Pair 1.30
Mean z-score -3.12
Structure conservation index 0.60
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.50
SVM RNA-class probability 0.998817
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 2649547 118 - 23011544
AAAGUGCUAGUGGUGAAAACCAAUUCAAGAAUGUCAGGUUUUCCCCCUCGCACUUUACCCACAAUAGUUGUUCCUCCGCCCAAAGCAGCUCCGAAAGCAAUUCUUCAAGAAUUCAAAC-
(((((((.((.((.(((((((....((....))...))))))).)))).))))))).........(((((((...........)))))))......(.(((((.....))))))....- ( -26.20, z-score =  -2.91, R)
>droSim1.chr2L 2609082 118 - 22036055
AAAGUGCUAGUGGGGAAAACCAAUUCAAGAAUGUCAGGUUUUCCUCCUCGCACUUUACCCACAAUAGUUGUUCCUCCACUCAAAGCAGCUCCGAAAGCAAUUCUUCAAGAAUUCAAAC-
(((((((.((.((((((((((....((....))...)))))))))))).))))))).........(((((((...........)))))))......(.(((((.....))))))....- ( -30.30, z-score =  -3.38, R)
>droSec1.super_5 817967 118 - 5866729
AAAGUGCUAGUGGGGAAAACCAAUUCAAGAAUGUCAGGUUUUCCUCCUCGCACUUUACCCACAAUAGUUGUUCCUCCACUCAAAGCAGCUCCGAAAGCAAUUCUUCGAGAAUUCAAAC-
(((((((.((.((((((((((....((....))...)))))))))))).)))))))..........((((((...........))))))((((((........)))).))........- ( -30.80, z-score =  -3.03, R)
>droYak2.chr2L 2640676 118 - 22324452
AAAGUGCUAGUGGGGAAAAUCAAUUCAGAAAUGUCAGGUUUUCCCCCUCGCACUUUGACCACAAAAGUGGUUCCUCUACCGAAAACAGCUCCGCAAGCAGUUUGUCAAGAAUUCAAGC-
(((((((.((.((((((((((....((....))...)))))))))))).)))))))((((((....))))))........((....((((.(....).))))..))............- ( -39.40, z-score =  -4.38, R)
>droEre2.scaffold_4929 2694603 118 - 26641161
AAAGUGCUAGUGGGGAAAACCAAUUCAGAAAUGUCAGGUUUUCCCCCUCGCACUUUGGCCACAAAAGUUGUUCCUCUACCCAAAACAGCUCCGAAGGCAGUUCUUCAAGAGUUCCAGC-
(((((((.((.((((((((((....((....))...)))))))))))).))))))).(((.....(((((((...........))))))).....)))....................- ( -39.60, z-score =  -4.01, R)
>droAna3.scaffold_12984 57676 98 - 754457
AGAGUGACAGCGAUG----CC--UUUAGAAGUGUGCGAUUCUCCAC---------------AACUAGUUGCUCUUCUAGAUCCAACAGUUCCCAAAAUUGUUCGUUCAUGGCUGAAAAC
.......((((.(((----..--((((((((...((((((......---------------....)))))).))))))))...(((((((.....)))))))....))).))))..... ( -23.10, z-score =  -1.00, R)
>consensus
AAAGUGCUAGUGGGGAAAACCAAUUCAAAAAUGUCAGGUUUUCCCCCUCGCACUUUACCCACAAUAGUUGUUCCUCCACCCAAAACAGCUCCGAAAGCAAUUCUUCAAGAAUUCAAAC_
(((((((.((.((((((((((....((....))...)))))))))))).))))))).........(((((((...........)))))))........(((((.....)))))...... (-19.00 = -20.92 +   1.92)

alignment

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secondary structure

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dotplot

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Window 6

Location 2,649,586 – 2,649,705
Length 119
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 90.92
Shannon entropy 0.15714
G+C content 0.43361
Mean single sequence MFE -39.27
Consensus MFE -33.26
Energy contribution -34.62
Covariance contribution 1.36
Combinations/Pair 1.03
Mean z-score -3.49
Structure conservation index 0.85
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.97
SVM RNA-class probability 0.996723
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 2649586 119 + 23011544
GCGGAGGAACAACUAUUGUGGGUAAAGUGCGAGGGGGAAAACCUGACAUUCUUGAAUUGGUUUUCACCACUAGCACUUUCAAAUAUUGUGCUUCCACUACUUUGUCUCGAUACUGAACG
..(((((.((((.((((....(.(((((((.((((.(((((((...((....))....))))))).)).)).)))))))).)))))))).)))))........................ ( -33.10, z-score =  -2.04, R)
>droSim1.chr2L 2609121 119 + 22036055
GUGGAGGAACAACUAUUGUGGGUAAAGUGCGAGGAGGAAAACCUGACAUUCUUGAAUUGGUUUUCCCCACUAGCACUUUCACAAAUUGUGCUUCCACUACUUUGUCUCGGUUCUAAACG
(((((((.((((...((((((...((((((..((.((((((((...((....))....))))))))))....)))))))))))).)))).)))))))...................... ( -39.60, z-score =  -3.39, R)
>droSec1.super_5 818006 119 + 5866729
GUGGAGGAACAACUAUUGUGGGUAAAGUGCGAGGAGGAAAACCUGACAUUCUUGAAUUGGUUUUCCCCACUAGCACUUUCACAAAUUAUGCUUCCACUACUUUGUCUCGGUUCUGAACG
(((((((........((((((...((((((..((.((((((((...((....))....))))))))))....))))))))))))......)))))))......((.(((....))))). ( -36.44, z-score =  -2.54, R)
>droYak2.chr2L 2640715 119 + 22324452
GUAGAGGAACCACUUUUGUGGUCAAAGUGCGAGGGGGAAAACCUGACAUUUCUGAAUUGAUUUUCCCCACUAGCACUUUCACAAAUUGUGCUUCCACUACUUUGUCUCAAUUCUGAUAG
((((.((((.(((.(((((((...((((((.((((((((((.(...............).)))))))).)).)))))))))))))..))).)))).))))..((((........)))). ( -41.56, z-score =  -4.55, R)
>droEre2.scaffold_4929 2694642 119 + 26641161
GUAGAGGAACAACUUUUGUGGCCAAAGUGCGAGGGGGAAAACCUGACAUUUCUGAAUUGGUUUUCCCCACUAGCACUUUCACAAAUUGUGCUUCCACUACUUUGUCUCAAUGCAGAAAG
((((.((((((...(((((((...((((((.((((((((((((...............)))))))))).)).)))))))))))))...)).)))).))))(((((......)))))... ( -45.66, z-score =  -4.93, R)
>consensus
GUGGAGGAACAACUAUUGUGGGUAAAGUGCGAGGGGGAAAACCUGACAUUCUUGAAUUGGUUUUCCCCACUAGCACUUUCACAAAUUGUGCUUCCACUACUUUGUCUCGAUUCUGAACG
((((.((((((....((((((...((((((.((((((((((((...((....))....)))))))))).)).))))))))))))....)).)))).))))................... (-33.26 = -34.62 +   1.36)

alignment

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secondary structure

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dotplot

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Window 7

Location 2,649,586 – 2,649,705
Length 119
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 90.92
Shannon entropy 0.15714
G+C content 0.43361
Mean single sequence MFE -39.92
Consensus MFE -37.02
Energy contribution -36.86
Covariance contribution -0.16
Combinations/Pair 1.14
Mean z-score -4.19
Structure conservation index 0.93
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.58
SVM RNA-class probability 0.998978
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 2649586 119 - 23011544
CGUUCAGUAUCGAGACAAAGUAGUGGAAGCACAAUAUUUGAAAGUGCUAGUGGUGAAAACCAAUUCAAGAAUGUCAGGUUUUCCCCCUCGCACUUUACCCACAAUAGUUGUUCCUCCGC
......................(((((.(.(((((..((((((((((.((.((.(((((((....((....))...))))))).)))).))))))).....)))..))))).).))))) ( -30.30, z-score =  -2.51, R)
>droSim1.chr2L 2609121 119 - 22036055
CGUUUAGAACCGAGACAAAGUAGUGGAAGCACAAUUUGUGAAAGUGCUAGUGGGGAAAACCAAUUCAAGAAUGUCAGGUUUUCCUCCUCGCACUUUACCCACAAUAGUUGUUCCUCCAC
.((((.......))))......(((((.(.(((((((((((((((((.((.((((((((((....((....))...)))))))))))).)))))))...)))))..))))).).))))) ( -39.60, z-score =  -4.13, R)
>droSec1.super_5 818006 119 - 5866729
CGUUCAGAACCGAGACAAAGUAGUGGAAGCAUAAUUUGUGAAAGUGCUAGUGGGGAAAACCAAUUCAAGAAUGUCAGGUUUUCCUCCUCGCACUUUACCCACAAUAGUUGUUCCUCCAC
......................(((((((((....((((((((((((.((.((((((((((....((....))...)))))))))))).)))))))...)))))....))))..))))) ( -37.30, z-score =  -3.57, R)
>droYak2.chr2L 2640715 119 - 22324452
CUAUCAGAAUUGAGACAAAGUAGUGGAAGCACAAUUUGUGAAAGUGCUAGUGGGGAAAAUCAAUUCAGAAAUGUCAGGUUUUCCCCCUCGCACUUUGACCACAAAAGUGGUUCCUCUAC
...................((((.((((.(((..(((((((((((((.((.((((((((((....((....))...)))))))))))).)))))))...)))))).))).)))).)))) ( -46.90, z-score =  -5.90, R)
>droEre2.scaffold_4929 2694642 119 - 26641161
CUUUCUGCAUUGAGACAAAGUAGUGGAAGCACAAUUUGUGAAAGUGCUAGUGGGGAAAACCAAUUCAGAAAUGUCAGGUUUUCCCCCUCGCACUUUGGCCACAAAAGUUGUUCCUCUAC
.((((......))))....((((.((((.((...(((((((((((((.((.((((((((((....((....))...)))))))))))).)))))))...))))))...)))))).)))) ( -45.50, z-score =  -4.83, R)
>consensus
CGUUCAGAAUCGAGACAAAGUAGUGGAAGCACAAUUUGUGAAAGUGCUAGUGGGGAAAACCAAUUCAAGAAUGUCAGGUUUUCCCCCUCGCACUUUACCCACAAUAGUUGUUCCUCCAC
......................(((((.(.(((((((((((((((((.((.((((((((((....((....))...)))))))))))).)))))))...)))))..))))).).))))) (-37.02 = -36.86 +  -0.16)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:11:58 2011