Locus 10590

Sequence ID dm3.chr3R
Location 14,895,400 – 14,895,505
Length 105
Max. P 0.997580
window14558 window14559

overview

Window 8

Location 14,895,400 – 14,895,505
Length 105
Sequences 7
Columns 117
Reading direction forward
Mean pairwise identity 69.56
Shannon entropy 0.60449
G+C content 0.55910
Mean single sequence MFE -40.56
Consensus MFE -15.62
Energy contribution -17.90
Covariance contribution 2.28
Combinations/Pair 1.09
Mean z-score -2.68
Structure conservation index 0.39
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.63
SVM RNA-class probability 0.993674
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 14895400 105 + 27905053
CAAGCCGAUCCAAUCAAGACGACUUGGGUCGCUUCGGAUCG--GA-----UUG-----GAUCGGUGUCCGUUGCAUGGUGACCAUUAAAGGGUCACUGGCAUGCUGCUGGCGAUUAG
...((((((((((((....((((....))))(....)....--))-----)))-----)))))))(((.((.(((((((((((.......))))))...))))).)).)))...... ( -46.00, z-score =  -3.91, R)
>droSim1.chr3R 20935916 98 - 27517382
CAAGCCGAUCCAAUCAAGACGACUUGGGUCGCUUCGGAUCG--GA-----UUG-----GAUCG-------UUGCAUGGUGACCAUAAAAGGGUCACUGGCAUGCUGCUGGCGAUUAG
...((((((((((((....((((....))))(....)....--))-----)))-----))))(-------(.(((((((((((.......))))))...))))).)).)))...... ( -41.20, z-score =  -3.91, R)
>droSec1.super_77 73978 110 - 117255
CAAGCCGAUCCAAUCAAGACGACUUGGGUCGCUUCGGAUCG--GAGCGGAUUG-----GAUCGGUGCCCGUUGCAUGGUGACCAUAAAAGGGUCACUGGCAUGCUGCUGGCGAUUAG
...((((((((((((.....(((....)))((((((...))--)))).)))))-----)))))))(((.((.(((((((((((.......))))))...))))).)).)))...... ( -53.90, z-score =  -5.15, R)
>droYak2.chr3R 3578860 100 + 28832112
CAAGCCGAUCCAAUCAAGACGACUUGGGUCUCUUCGGAUAG--GA---------------UCGGUGCCCGUUGCAUGGCGACCAUAAAAGGGUCACUGGCAUGCUGCUGGCGAUUAG
...((((((((.(((.(((.(((....))))))...))).)--))---------------)))))(((.((.(((((.(((((.......))))...).))))).)).)))...... ( -42.00, z-score =  -3.40, R)
>droEre2.scaffold_4770 11012134 112 - 17746568
CAAGCCGAUCCAAUCAAGCCGACUUGGGUCGCUUCGGAUCG--UAUCGGAGCGCU---GCCCGGUGCCCGUUGCAUGGCGACCAUAAAAGGGUCACUGGCAUGCUGCUGGCGAUUAG
...((((((((((((.....)).)))))))(((((((....--..)))))))(((---(((.(((((((.((..((((...)))).)).))).)))))))).))....)))...... ( -43.80, z-score =  -1.05, R)
>droAna3.scaffold_13340 17530618 79 + 23697760
------------------------------------AAACC-CGAUCCAAUCAAGGCGCUCCGGUACCAGUGGCAUGUUGCCCAUAAA-GGGUCACUGGCAUGCUAGUGGCGAUUAG
------------------------------------..(((-.((.((......))...)).))).(((.(((((((((((((.....-))))....))))))))).)))....... ( -25.90, z-score =  -0.99, R)
>droPer1.super_0 665680 113 + 11822988
CAACCCAACCCAACCCAGCCGCCGCGCUCCGCACCAAAACAGCGAUCCAAUCAAGACGGCUC----CCCGUUGCAUGUUGCCCAUAAAAGGGUCAGAGGCAUGUUGGUGGCGAUUAG
.................((((((.((((............))))..........(((((...----.)))))(((((((((((......))))....))))))).))))))...... ( -31.10, z-score =  -0.34, R)
>consensus
CAAGCCGAUCCAAUCAAGACGACUUGGGUCGCUUCGGAUCG__GA_C__AUCG_____GAUCGGUGCCCGUUGCAUGGUGACCAUAAAAGGGUCACUGGCAUGCUGCUGGCGAUUAG
...((((((((((((.....)).)))))))..........................................(((((((((((.......))))))...)))))....)))...... (-15.62 = -17.90 +   2.28)

alignment

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secondary structure

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dotplot

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Window 9

Location 14,895,400 – 14,895,505
Length 105
Sequences 7
Columns 117
Reading direction reverse
Mean pairwise identity 69.56
Shannon entropy 0.60449
G+C content 0.55910
Mean single sequence MFE -37.16
Consensus MFE -17.61
Energy contribution -19.96
Covariance contribution 2.35
Combinations/Pair 1.22
Mean z-score -2.56
Structure conservation index 0.47
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 3.13
SVM RNA-class probability 0.997580
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr3R 14895400 105 - 27905053
CUAAUCGCCAGCAGCAUGCCAGUGACCCUUUAAUGGUCACCAUGCAACGGACACCGAUC-----CAA-----UC--CGAUCCGAAGCGACCCAAGUCGUCUUGAUUGGAUCGGCUUG
......(((....(((((...((((((.......)))))))))))..........((((-----(((-----((--......((..((((....))))..))))))))))))))... ( -37.80, z-score =  -4.02, R)
>droSim1.chr3R 20935916 98 + 27517382
CUAAUCGCCAGCAGCAUGCCAGUGACCCUUUUAUGGUCACCAUGCAA-------CGAUC-----CAA-----UC--CGAUCCGAAGCGACCCAAGUCGUCUUGAUUGGAUCGGCUUG
......(((....(((((...((((((.......)))))))))))..-------.((((-----(((-----((--......((..((((....))))..))))))))))))))... ( -37.80, z-score =  -5.00, R)
>droSec1.super_77 73978 110 + 117255
CUAAUCGCCAGCAGCAUGCCAGUGACCCUUUUAUGGUCACCAUGCAACGGGCACCGAUC-----CAAUCCGCUC--CGAUCCGAAGCGACCCAAGUCGUCUUGAUUGGAUCGGCUUG
......(((....(((((...((((((.......)))))))))))....))).((((((-----(((((.(((.--((...)).)))(((....))).....))))))))))).... ( -43.70, z-score =  -4.47, R)
>droYak2.chr3R 3578860 100 - 28832112
CUAAUCGCCAGCAGCAUGCCAGUGACCCUUUUAUGGUCGCCAUGCAACGGGCACCGA---------------UC--CUAUCCGAAGAGACCCAAGUCGUCUUGAUUGGAUCGGCUUG
......(((....(((((...((((((.......)))))))))))....))).((((---------------((--(.(((..(((((((....))).))))))).))))))).... ( -38.30, z-score =  -3.60, R)
>droEre2.scaffold_4770 11012134 112 + 17746568
CUAAUCGCCAGCAGCAUGCCAGUGACCCUUUUAUGGUCGCCAUGCAACGGGCACCGGGC---AGCGCUCCGAUA--CGAUCCGAAGCGACCCAAGUCGGCUUGAUUGGAUCGGCUUG
......((((((.((.((((.(((.(((((.(((((...))))).)).))))))..)))---))))))......--.(((((((((((((....))).)))...))))))))))... ( -42.10, z-score =  -1.45, R)
>droAna3.scaffold_13340 17530618 79 - 23697760
CUAAUCGCCACUAGCAUGCCAGUGACCC-UUUAUGGGCAACAUGCCACUGGUACCGGAGCGCCUUGAUUGGAUCG-GGUUU------------------------------------
......((((...(((((....((.(((-.....))))).)))))...))))(((.((...((......)).)).-)))..------------------------------------ ( -24.00, z-score =  -0.44, R)
>droPer1.super_0 665680 113 - 11822988
CUAAUCGCCACCAACAUGCCUCUGACCCUUUUAUGGGCAACAUGCAACGGG----GAGCCGUCUUGAUUGGAUCGCUGUUUUGGUGCGGAGCGCGGCGGCUGGGUUGGGUUGGGUUG
......(((.(((((..(((..((.(((......)))))....(((((((.----((.(((.......))).)).)))))...((((...)))).)))))...)))))....))).. ( -36.40, z-score =   1.05, R)
>consensus
CUAAUCGCCAGCAGCAUGCCAGUGACCCUUUUAUGGUCACCAUGCAACGGGCACCGAUC_____CAAU__G_UC__CGAUCCGAAGCGACCCAAGUCGUCUUGAUUGGAUCGGCUUG
......(((....(((((...((((((.......)))))))))))................................(((((((((((((....)))).))...))))))))))... (-17.61 = -19.96 +   2.35)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Wed Apr 20 00:26:47 2011