Streptococcus_virus_2972

AminoSee DNA Render Summary for /home/tom/Sites/AminoSee/dna/Streptococcus_virus_2972.gbk Science render mode

M5C4HNaN

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

255,128,128

10,784 Composite of all amino acids Streptococcus_virus_2972 Reference
1. Ochre

255,128,128

254 STOP Codon Streptococcus_virus_2972 Ochre
2. Glutamic acid

16°

255,162,128

421 Group III: Acidic amino acids Streptococcus_virus_2972 Glutamic acid
3. Aspartic acid

31°

255,193,128

344 Group III: Acidic amino acids Streptococcus_virus_2972 Aspartic acid
4. Amber

47°

255,227,128

304 STOP Codon Streptococcus_virus_2972 Amber
5. Cysteine

63°

249,255,128

279 Group II: Polar, uncharged amino acids Streptococcus_virus_2972 Cysteine
6. Glycine

78°

217,255,128

526 Group I: Nonpolar amino acids Streptococcus_virus_2972 Glycine
7. Alanine

94°

183,255,128

507 Group I: Nonpolar amino acids Streptococcus_virus_2972 Alanine
8. Methionine

110°

149,255,128

230 START Codon Streptococcus_virus_2972 Methionine
9. Valine

125°

128,255,138

581 Group I: Nonpolar amino acids Streptococcus_virus_2972 Valine
10. Leucine

141°

128,255,172

961 Group I: Nonpolar amino acids Streptococcus_virus_2972 Leucine
11. Isoleucine

157°

128,255,206

743 Group I: Nonpolar amino acids Streptococcus_virus_2972 Isoleucine
12. Phenylalanine

172°

128,255,238

362 Group I: Nonpolar amino acids Streptococcus_virus_2972 Phenylalanine
13. Tryptophan

188°

128,238,255

215 Group I: Nonpolar amino acids Streptococcus_virus_2972 Tryptophan
14. Serine

203°

128,206,255

850 Group II: Polar, uncharged amino acids Streptococcus_virus_2972 Serine
15. Threonine

219°

128,172,255

666 Group II: Polar, uncharged amino acids Streptococcus_virus_2972 Threonine
16. Opal

240°

128,128,255

235 STOP Codon Streptococcus_virus_2972 Opal
17. Glutamine

250°

149,128,255

429 Group II: Polar, uncharged amino acids Streptococcus_virus_2972 Glutamine
18. Asparagine

266°

183,128,255

490 Group II: Polar, uncharged amino acids Streptococcus_virus_2972 Asparagine
19. Tyrosine

282°

217,128,255

360 Group II: Polar, uncharged amino acids Streptococcus_virus_2972 Tyrosine
20. Arginine

297°

249,128,255

742 Group IV: Basic amino acids Streptococcus_virus_2972 Arginine
21. Lysine

313°

255,128,227

742 Group IV: Basic amino acids Streptococcus_virus_2972 Lysine
22. Histidine

329°

255,128,193

258 Group IV: Basic amino acids Streptococcus_virus_2972 Histidine
23. Proline

344°

255,128,162

285 Group I: Nonpolar amino acids Streptococcus_virus_2972 Proline
19 Amino Acids, 4 Start/Stop codes, 1 NNN . . . .

1D Linear Map Image

2D Hilbert Map Image

Render Summary

          
Canonical Name: Streptococcus_virus_2972
Canonical PNG: Streptococcus_virus_2972.gbk_linear_c4_fix_sci.png
Source: Streptococcus_virus_2972.gbk
Full path: /home/tom/Sites/AminoSee/dna/Streptococcus_virus_2972.gbk
Started: 2:24:05 am Finished: 2:24:06 am Used: 0.418 seconds  
Machine load averages: 9.34 / 9.74 / 10.5
Bandwidth: 237.3KB / sec DNA Filesize: 98.92KB
Image Output bytes: 10.53KB
Pixels (linear): 2,696 Image aspect Ratio: fix
Pixels (hilbert): 65,536 (auto) Dimension 5 Hilbert curve
Linear to Hilbert reduction: NaN Oversampling: 4
Custom flags: --C_autoK------M5 C4-I1000000 "Science mode" render style
Estimated Codons: 33,765 (filesize % 3)
Actual Codons matched: 10,784  
Estimate accuracy: 313% of actual 
Non-coding characters: 59,854
Coding characters: 101,727
Codons per pixel: 4 (linear) NaN (hilbert projection)
Max pix setting: 1,000,000
Darken Factor 0.25 / Highlight Factor 4 Black Point: 128
287.4 Gigabytes processed on cheese:
Render serial: 1,274 Render UID: 1568816646032
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

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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.