Locus 1904

Sequence ID dm3.chr2L
Location 14,621,410 – 14,621,518
Length 108
Max. P 0.877699
window2623 window2624

overview

Window 3

Location 14,621,410 – 14,621,518
Length 108
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 93.89
Shannon entropy 0.10511
G+C content 0.51852
Mean single sequence MFE -37.68
Consensus MFE -30.14
Energy contribution -31.30
Covariance contribution 1.16
Combinations/Pair 1.09
Mean z-score -2.41
Structure conservation index 0.80
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 0.99
SVM RNA-class probability 0.868671
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 14621410 108 + 23011544
GAAAGCCAAGUCCCAUUUGUAUGGCCGACUUGUUGUCUCGGGCCAGAGACUAUAUAACUCUCGGCCUGCGAUUCAGAUUUUGACUGAGACACCGAUGUGGAGCUUGGA
.....(((((..(((((((((.((((((.((((.(((((......)))))...))))...)))))))))))(((((.......)))))........))))..))))). ( -39.40, z-score =  -3.19, R)
>droSim1.chr2L 14377990 108 + 22036055
GAAAGCCAAGUCCCAUUUGUAUGGCCGACUCGUUGUCUCGGGCCUGAGACUAUACAACUCUCGGCCUGCGAUUCAGAUUUUGACUGAGACACCGAUGUGGAGCUUGGA
.....(((((..(((((((((.((((((...((.((((((....))))))...)).....)))))))))))(((((.......)))))........))))..))))). ( -38.50, z-score =  -2.64, R)
>droSec1.super_3 894825 108 + 7220098
GAAAGCCAAGUCCCAUUUGUAUGGCCGACUCGUUGUCUCGGGCCUGAGACUAUACAACUCUCGGCCUGCGAUUCAGAUUUUGACUGAGACACCGAUGUGGAGCUUGGA
.....(((((..(((((((((.((((((...((.((((((....))))))...)).....)))))))))))(((((.......)))))........))))..))))). ( -38.50, z-score =  -2.64, R)
>droYak2.chr2L 14735534 108 + 22324452
GAAAGCCAAGUCCCAUUUGUAUGGCCGACUCGUUGUCUCGGGCCUGAAACUAUAUAACUCUGGGCCCGCGAUUCAGAUUUUGACUGAGACACCGAUGCGGAGCUUGGA
.....((((((.((((....))))(((..(((.((((((((((((((...........)).)))))).(((........)))...)))))).)))..))).)))))). ( -38.30, z-score =  -2.77, R)
>droEre2.scaffold_4929 6378000 108 + 26641161
GUAAGCCAAGUCCCAUUUGUAUGGCCGACCCGUUGUCUCGGGCCUGAAACUAUAUAACUCGGGGACCGAGAUUCCGAUUUUGACUGAGACACCGAUGCGGAGCUCGGA
......((((((((((....))))..))).((..(((((((.(((((...........)))))..)))))))..))...))).(((((.(.(((...))).)))))). ( -33.70, z-score =  -0.80, R)
>consensus
GAAAGCCAAGUCCCAUUUGUAUGGCCGACUCGUUGUCUCGGGCCUGAGACUAUAUAACUCUCGGCCUGCGAUUCAGAUUUUGACUGAGACACCGAUGUGGAGCUUGGA
.....((((((.((((....))))(((..(((.(((((((((((.((((.........))))))))).(((........)))...)))))).)))..))).)))))). (-30.14 = -31.30 +   1.16)

alignment

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secondary structure

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dotplot

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Window 4

Location 14,621,410 – 14,621,518
Length 108
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 93.89
Shannon entropy 0.10511
G+C content 0.51852
Mean single sequence MFE -36.10
Consensus MFE -30.04
Energy contribution -30.64
Covariance contribution 0.60
Combinations/Pair 1.06
Mean z-score -2.28
Structure conservation index 0.83
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.03
SVM RNA-class probability 0.877699
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2L 14621410 108 - 23011544
UCCAAGCUCCACAUCGGUGUCUCAGUCAAAAUCUGAAUCGCAGGCCGAGAGUUAUAUAGUCUCUGGCCCGAGACAACAAGUCGGCCAUACAAAUGGGACUUGGCUUUC
.(((((..(((.....(((..((((.......))))..))).((((((..(((.....(((((......))))))))...)))))).......)))..)))))..... ( -35.70, z-score =  -2.77, R)
>droSim1.chr2L 14377990 108 - 22036055
UCCAAGCUCCACAUCGGUGUCUCAGUCAAAAUCUGAAUCGCAGGCCGAGAGUUGUAUAGUCUCAGGCCCGAGACAACGAGUCGGCCAUACAAAUGGGACUUGGCUUUC
.(((((..(((.....(((..((((.......))))..))).((((((...((((...(((((......))))).)))).)))))).......)))..)))))..... ( -37.60, z-score =  -2.76, R)
>droSec1.super_3 894825 108 - 7220098
UCCAAGCUCCACAUCGGUGUCUCAGUCAAAAUCUGAAUCGCAGGCCGAGAGUUGUAUAGUCUCAGGCCCGAGACAACGAGUCGGCCAUACAAAUGGGACUUGGCUUUC
.(((((..(((.....(((..((((.......))))..))).((((((...((((...(((((......))))).)))).)))))).......)))..)))))..... ( -37.60, z-score =  -2.76, R)
>droYak2.chr2L 14735534 108 - 22324452
UCCAAGCUCCGCAUCGGUGUCUCAGUCAAAAUCUGAAUCGCGGGCCCAGAGUUAUAUAGUUUCAGGCCCGAGACAACGAGUCGGCCAUACAAAUGGGACUUGGCUUUC
.(((((..(((..(((.((((((..(((.....))).....(((((..(((.........))).))))))))))).)))..)))((((....))))..)))))..... ( -35.70, z-score =  -2.20, R)
>droEre2.scaffold_4929 6378000 108 - 26641161
UCCGAGCUCCGCAUCGGUGUCUCAGUCAAAAUCGGAAUCUCGGUCCCCGAGUUAUAUAGUUUCAGGCCCGAGACAACGGGUCGGCCAUACAAAUGGGACUUGGCUUAC
.(((((.(((.(((..((((....(((......((((((((((...))))).......))))).((((((......))))))))).))))..)))))))))))..... ( -33.91, z-score =  -0.90, R)
>consensus
UCCAAGCUCCACAUCGGUGUCUCAGUCAAAAUCUGAAUCGCAGGCCGAGAGUUAUAUAGUCUCAGGCCCGAGACAACGAGUCGGCCAUACAAAUGGGACUUGGCUUUC
.(((((.(((.(((..((((.((((.......))))......((((((..(((.....(((((......))))))))...))))))))))..)))))))))))..... (-30.04 = -30.64 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 21:41:05 2011