Chimp_PanTro6_Entire

AminoSee DNA Render Summary for /home/tom/Sites/AminoSee/dna/Chimp_PanTro6_Entire.fa Science render mode

M7C207H921.2

Amino Acid Hue° RGB Count Description Hilbert PNG
0. Reference

255,128,128

965,949,784 Composite of all amino acids Chimp_PanTro6_Entire Reference
1. Ochre

255,128,128

19,746,126 STOP Codon Chimp_PanTro6_Entire Ochre
2. Glutamic acid

16°

255,162,128

34,954,870 Group III: Acidic amino acids Chimp_PanTro6_Entire Glutamic acid
3. Aspartic acid

31°

255,193,128

22,275,604 Group III: Acidic amino acids Chimp_PanTro6_Entire Aspartic acid
4. Amber

47°

255,227,128

12,725,300 STOP Codon Chimp_PanTro6_Entire Amber
5. Cysteine

63°

249,255,128

33,877,310 Group II: Polar, uncharged amino acids Chimp_PanTro6_Entire Cysteine
6. Glycine

78°

217,255,128

49,775,292 Group I: Nonpolar amino acids Chimp_PanTro6_Entire Glycine
7. Alanine

94°

183,255,128

40,519,668 Group I: Nonpolar amino acids Chimp_PanTro6_Entire Alanine
8. Methionine

110°

149,255,128

18,447,715 START Codon Chimp_PanTro6_Entire Methionine
9. Valine

125°

128,255,138

49,100,261 Group I: Nonpolar amino acids Chimp_PanTro6_Entire Valine
10. Leucine

141°

128,255,172

104,225,026 Group I: Nonpolar amino acids Chimp_PanTro6_Entire Leucine
11. Isoleucine

157°

128,255,206

58,789,793 Group I: Nonpolar amino acids Chimp_PanTro6_Entire Isoleucine
12. Phenylalanine

172°

128,255,238

56,025,389 Group I: Nonpolar amino acids Chimp_PanTro6_Entire Phenylalanine
13. Tryptophan

188°

128,238,255

18,016,570 Group I: Nonpolar amino acids Chimp_PanTro6_Entire Tryptophan
14. Serine

203°

128,206,255

85,648,033 Group II: Polar, uncharged amino acids Chimp_PanTro6_Entire Serine
15. Threonine

219°

128,172,255

48,993,474 Group II: Polar, uncharged amino acids Chimp_PanTro6_Entire Threonine
16. Opal

240°

128,128,255

18,448,575 STOP Codon Chimp_PanTro6_Entire Opal
17. Glutamine

250°

149,128,255

37,231,115 Group II: Polar, uncharged amino acids Chimp_PanTro6_Entire Glutamine
18. Asparagine

266°

183,128,255

38,119,502 Group II: Polar, uncharged amino acids Chimp_PanTro6_Entire Asparagine
19. Tyrosine

282°

217,128,255

32,762,873 Group II: Polar, uncharged amino acids Chimp_PanTro6_Entire Tyrosine
20. Arginine

297°

249,128,255

48,109,139 Group IV: Basic amino acids Chimp_PanTro6_Entire Arginine
21. Lysine

313°

255,128,227

55,283,264 Group IV: Basic amino acids Chimp_PanTro6_Entire Lysine
22. Histidine

329°

255,128,193

33,044,533 Group IV: Basic amino acids Chimp_PanTro6_Entire Histidine
23. Proline

344°

255,128,162

49,830,352 Group I: Nonpolar amino acids Chimp_PanTro6_Entire Proline
19 Amino Acids, 4 Start/Stop codes, 1 NNN . . . .

1D Linear Map Image

2D Hilbert Map Image

Render Summary

          
Canonical Name: Chimp_PanTro6_Entire
Canonical PNG: Chimp_PanTro6_Entire.fa_linear_c207_fix_sci.png
Source: Chimp_PanTro6_Entire.fa
Full path: /home/tom/Sites/AminoSee/dna/Chimp_PanTro6_Entire.fa
Started: 2:27:50 am Finished: 5:47:21 am Used: 3 hours, 19 minutes, 14.173 seconds  
Machine load averages: 7.17 / 7.15 / 7.1
Bandwidth: 249.02KB / sec DNA Filesize: 2.9GB
Image Output bytes: 17.8MB
Pixels (linear): 4,666,424 Image aspect Ratio: fix
Pixels (hilbert): 1,048,576 (auto) Dimension 7 Hilbert curve
Linear to Hilbert reduction: 4.45 Oversampling: 4
Custom flags: --C_autoK------M7 C207-I5000000 "Science mode" render style
Estimated Codons: 1,037,167,793 (filesize % 3)
Actual Codons matched: 965,949,784  
Estimate accuracy: 107% of actual 
Non-coding characters: 32,527,766
Coding characters: 3,051,769,874
Codons per pixel: 207 (linear) 921.2 (hilbert projection)
Max pix setting: 5,000,000
Darken Factor 0.25 / Highlight Factor 4 Black Point: 128
290.3 Gigabytes processed on cheese:
Render serial: 1,273 Render UID: 1568816871295
AminoSee version: 1.28.1
          

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DNA/RNA Chromosome Viewer

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



Hilbert Projection

This is a curve that touches each pixel exactly once, without crossing over or breaking.

Linear Projection

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

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 this.regions in the E coli lac operon don’t have AUG START codon and instead use UUG and GUG as initiation codons respectively.