Mycoplasmapneumoosome.Chromosome

AminoSee DNA Render Summary for /home/tom/Sites/AminoSee/dna/Mycoplasma_pneumoniae_m129.ASM2734v1.dna_sm.chromosome.Chromosome.fa Science render mode

M5C4H4.2

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

255,128,128

272,131 Composite of all amino acids Mycoplasmapneumoosome.Chromosome Reference
1. Ochre

255,128,128

8,097 STOP Codon Mycoplasmapneumoosome.Chromosome Ochre
2. Glutamic acid

16°

255,162,128

7,346 Group III: Acidic amino acids Mycoplasmapneumoosome.Chromosome Glutamic acid
3. Aspartic acid

31°

255,193,128

6,260 Group III: Acidic amino acids Mycoplasmapneumoosome.Chromosome Aspartic acid
4. Amber

47°

255,227,128

3,554 STOP Codon Mycoplasmapneumoosome.Chromosome Amber
5. Cysteine

63°

249,255,128

7,959 Group II: Polar, uncharged amino acids Mycoplasmapneumoosome.Chromosome Cysteine
6. Glycine

78°

217,255,128

12,185 Group I: Nonpolar amino acids Mycoplasmapneumoosome.Chromosome Glycine
7. Alanine

94°

183,255,128

12,734 Group I: Nonpolar amino acids Mycoplasmapneumoosome.Chromosome Alanine
8. Methionine

110°

149,255,128

3,669 START Codon Mycoplasmapneumoosome.Chromosome Methionine
9. Valine

125°

128,255,138

16,033 Group I: Nonpolar amino acids Mycoplasmapneumoosome.Chromosome Valine
10. Leucine

141°

128,255,172

31,263 Group I: Nonpolar amino acids Mycoplasmapneumoosome.Chromosome Leucine
11. Isoleucine

157°

128,255,206

13,661 Group I: Nonpolar amino acids Mycoplasmapneumoosome.Chromosome Isoleucine
12. Phenylalanine

172°

128,255,238

15,651 Group I: Nonpolar amino acids Mycoplasmapneumoosome.Chromosome Phenylalanine
13. Tryptophan

188°

128,238,255

4,537 Group I: Nonpolar amino acids Mycoplasmapneumoosome.Chromosome Tryptophan
14. Serine

203°

128,206,255

22,180 Group II: Polar, uncharged amino acids Mycoplasmapneumoosome.Chromosome Serine
15. Threonine

219°

128,172,255

16,797 Group II: Polar, uncharged amino acids Mycoplasmapneumoosome.Chromosome Threonine
16. Opal

240°

128,128,255

4,928 STOP Codon Mycoplasmapneumoosome.Chromosome Opal
17. Glutamine

250°

149,128,255

10,535 Group II: Polar, uncharged amino acids Mycoplasmapneumoosome.Chromosome Glutamine
18. Asparagine

266°

183,128,255

14,033 Group II: Polar, uncharged amino acids Mycoplasmapneumoosome.Chromosome Asparagine
19. Tyrosine

282°

217,128,255

6,999 Group II: Polar, uncharged amino acids Mycoplasmapneumoosome.Chromosome Tyrosine
20. Arginine

297°

249,128,255

15,373 Group IV: Basic amino acids Mycoplasmapneumoosome.Chromosome Arginine
21. Lysine

313°

255,128,227

19,069 Group IV: Basic amino acids Mycoplasmapneumoosome.Chromosome Lysine
22. Histidine

329°

255,128,193

6,931 Group IV: Basic amino acids Mycoplasmapneumoosome.Chromosome Histidine
23. Proline

344°

255,128,162

12,337 Group I: Nonpolar amino acids Mycoplasmapneumoosome.Chromosome Proline
19 Amino Acids, 4 Start/Stop codes, 1 NNN . . . .

1D Linear Map Image

2D Hilbert Map Image

Render Summary

          
Canonical Name: Mycoplasmapneumoosome.Chromosome
Canonical PNG: Mycoplasmapneumoosome.Chromosome.fa_linear_c4_fix_sci.png
Source: Mycoplasma_pneumoniae_m129.ASM2734v1.dna_sm.chromosome.Chromosome.fa
Full path: /home/tom/Sites/AminoSee/dna/Mycoplasma_pneumoniae_m129.ASM2734v1.dna_sm.chromosome.Chromosome.fa
Started: 2:17:32 am Finished: 2:17:35 am Used: 2.454 seconds  
Machine load averages: 9.61 / 9.82 / 10.9
Bandwidth: 325.2KB / sec DNA Filesize: 810.62KB
Image Output bytes: 265.75KB
Pixels (linear): 68,032 Image aspect Ratio: fix
Pixels (hilbert): 65,536 (auto) Dimension 5 Hilbert curve
Linear to Hilbert reduction: 1.04 Oversampling: 4
Custom flags: --C_autoK------M5 C4-I1000000 "Science mode" render style
Estimated Codons: 276,693 (filesize % 3)
Actual Codons matched: 272,131  
Estimate accuracy: 102% of actual 
Non-coding characters: 71
Coding characters: 816,472
Codons per pixel: 4 (linear) 4.15 (hilbert projection)
Max pix setting: 1,000,000
Darken Factor 0.25 / Highlight Factor 4 Black Point: 128
287.3 Gigabytes processed on cheese:
Render serial: 1,272 Render UID: 1568816252684
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

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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.