AminoSee DNA Render Summary for Brown_Kiwi_NW_013982187v1.fa

Brown_Kiwi_NW_013982187v1

Reference image - all amino acids blended togetherAmberTryptophanMethionineOpalOchreAspartic acidTyrosineHistidineGlutamic acidAsparagineCysteineGlutamineProlineGlycineAlanineArginineThreonineValineIsoleucinePhenylalanineLysineSerineLeucine
  
    Canonical Filename: Brown_Kiwi_NW_013982187v1
    Source: Brown_Kiwi_NW_013982187v1.fa
    Run ID: 1557448213 Host: cheese
    AminoSee version: 1.7.3
    Highlight set: false none
    Highlights: none
    Your custom flags: FD      
    Science Mode
    Aspect Ratio: fix
    Input bytes: 1,554,873,886
    Output bytes: 4,194,304
    Estimated Codons by file size: 518,291,295
    Actual Codons matched: 419,524,425
    Estimate accuracy: 24%
    Non-Base Clock: 217,626,006
    Bases Clock: 1,532,925,470
    Codons per pixel linear image: 57.59
    Codons per pixel hilbert: 397.25
    Pixels linear: 7,233,179
    Pixels hilbert: 1,048,576
    Scale down factor:  6.9
    overSampleFactor: 3
    Amino acid blend opacity: 1.74%
    Users Max magnitude: 7/ 10  Max pix:9,000,000
    Hilbert Magnitude: 7 / 7
    Hilbert Curve Pixels: 1048576
    Darken Factor 1
    Highlight Factor 7.2
    Time used: 1,076,463 miliseconds
  

1D Linear Map Image

2D Hilbert Map Image

AminoSeeNoEvil

DNA/RNA Chromosome Viewer

A new way to view DNA that attributes a colour hue to each Amino acid codon triplet



Amino Acid Hue RGB Count Description Hilbert PNG
All amino acids combined =

n/a

n/a

419524425 n/a Reference Image Brown_Kiwi_NW_013982187v1
Non-coding NNN

120°

128,255,128

0 Expressed as NNN Codon Non-coding_NNN
Start Codons

120°

128,255,128

0 Count of Methionine Start_Codons
Stop Codons

120°

128,255,128

0 One of Opal, Ochre, or Amber Stop_Codons
Amber

47°

255,227,128

5,215,637 STOP Codon Amber
Tryptophan

188°

128,238,255

6,653,154 Group I: Nonpolar amino acids Tryptophan
Methionine

110°

149,255,128

7,538,596 START Codon Methionine
Opal

240°

128,128,255

8,073,922 STOP Codon Opal
Ochre

255,128,128

8,536,988 STOP Codon Ochre
Aspartic acid

31°

255,193,128

9,490,258 Group III: Acidic amino acids Aspartic_acid
Tyrosine

282°

217,128,255

12,588,615 Group II: Polar, uncharged amino acids Tyrosine
Histidine

329°

255,128,193

13,513,605 Group IV: Basic amino acids Histidine
Glutamic acid

16°

255,162,128

15,156,384 Group III: Acidic amino acids Glutamic_acid
Asparagine

266°

183,128,255

16,143,922 Group II: Polar, uncharged amino acids Asparagine
Cysteine

63°

249,255,128

16,443,155 Group II: Polar, uncharged amino acids Cysteine
Glutamine

250°

149,128,255

17,678,881 Group II: Polar, uncharged amino acids Glutamine
Proline

344°

255,128,162

19,930,029 Group I: Nonpolar amino acids Proline
Glycine

78°

217,255,128

19,932,793 Group I: Nonpolar amino acids Glycine
Alanine

94°

183,255,128

20,581,787 Group I: Nonpolar amino acids Alanine
Arginine

297°

249,128,255

21,251,126 Group IV: Basic amino acids Arginine
Threonine

219°

128,172,255

21,418,611 Group II: Polar, uncharged amino acids Threonine
Valine

125°

128,255,138

21,423,289 Group I: Nonpolar amino acids Valine
Isoleucine

157°

128,255,206

22,761,560 Group I: Nonpolar amino acids Isoleucine
Phenylalanine

172°

128,255,238

24,480,694 Group I: Nonpolar amino acids Phenylalanine
Lysine

313°

255,128,227

24,911,380 Group IV: Basic amino acids Lysine
Serine

203°

128,206,255

38,866,347 Group II: Polar, uncharged amino acids Serine
Leucine

141°

128,255,172

46,933,692 Group I: Nonpolar amino acids Leucine
19 Amino Acids, 4 Start/Stop codes, 1 NNN . . . .

About Start and Stop Codons

The codon AUG is called the START codon as it the first codon in the transcribed mRNA that undergoes translation. AUG is the most common START codon and it codes for the amino acid methionine (Met) in eukaryotes and formyl methionine (fMet) in prokaryotes. During protein synthesis, the tRNA recognizes the START codon AUG with the help of some initiation factors and starts translation of mRNA. Some alternative START codons are found in both eukaryotes and prokaryotes. Alternate codons usually code for amino acids other than methionine, but when they act as START codons they code for Met due to the use of a separate initiator tRNA. Non-AUG START codons are rarely found in eukaryotic genomes. Apart from the usual Met codon, mammalian cells can also START translation with the amino acid leucine with the help of a leucyl-tRNA decoding the CUG codon. Mitochondrial genomes use AUA and AUU in humans and GUG and UUG in prokaryotes as alternate START codons. In prokaryotes, E. coli is found to use AUG 83%, GUG 14%, and UUG 3% as START codons. The lacA and lacI coding regions in the E coli lac operon don’t have AUG START codon and instead use UUG and GUG as initiation codons respectively.

Linear Projection

The following image is in raster order, top left to bottom right: