Mystery_chrX

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

M8C11H11.8

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

255,128,128

49,565,771 Composite of all amino acids Mystery_chrX Reference
1. Ochre

255,128,128

1,046,848 STOP Codon Mystery_chrX Ochre
2. Glutamic acid

16°

255,162,128

1,812,490 Group III: Acidic amino acids Mystery_chrX Glutamic acid
3. Aspartic acid

31°

255,193,128

1,148,847 Group III: Acidic amino acids Mystery_chrX Aspartic acid
4. Amber

47°

255,227,128

666,921 STOP Codon Mystery_chrX Amber
5. Cysteine

63°

249,255,128

1,713,072 Group II: Polar, uncharged amino acids Mystery_chrX Cysteine
6. Glycine

78°

217,255,128

2,411,578 Group I: Nonpolar amino acids Mystery_chrX Glycine
7. Alanine

94°

183,255,128

1,942,961 Group I: Nonpolar amino acids Mystery_chrX Alanine
8. Methionine

110°

149,255,128

944,572 START Codon Mystery_chrX Methionine
9. Valine

125°

128,255,138

2,503,263 Group I: Nonpolar amino acids Mystery_chrX Valine
10. Leucine

141°

128,255,172

5,447,658 Group I: Nonpolar amino acids Mystery_chrX Leucine
11. Isoleucine

157°

128,255,206

3,097,667 Group I: Nonpolar amino acids Mystery_chrX Isoleucine
12. Phenylalanine

172°

128,255,238

3,020,290 Group I: Nonpolar amino acids Mystery_chrX Phenylalanine
13. Tryptophan

188°

128,238,255

893,683 Group I: Nonpolar amino acids Mystery_chrX Tryptophan
14. Serine

203°

128,206,255

4,389,976 Group II: Polar, uncharged amino acids Mystery_chrX Serine
15. Threonine

219°

128,172,255

2,513,447 Group II: Polar, uncharged amino acids Mystery_chrX Threonine
16. Opal

240°

128,128,255

991,394 STOP Codon Mystery_chrX Opal
17. Glutamine

250°

149,128,255

1,912,419 Group II: Polar, uncharged amino acids Mystery_chrX Glutamine
18. Asparagine

266°

183,128,255

2,053,997 Group II: Polar, uncharged amino acids Mystery_chrX Asparagine
19. Tyrosine

282°

217,128,255

1,693,723 Group II: Polar, uncharged amino acids Mystery_chrX Tyrosine
20. Arginine

297°

249,128,255

2,357,076 Group IV: Basic amino acids Mystery_chrX Arginine
21. Lysine

313°

255,128,227

2,966,509 Group IV: Basic amino acids Mystery_chrX Lysine
22. Histidine

329°

255,128,193

1,658,210 Group IV: Basic amino acids Mystery_chrX Histidine
23. Proline

344°

255,128,162

2,379,170 Group I: Nonpolar amino acids Mystery_chrX Proline
19 Amino Acids, 4 Start/Stop codes, 1 NNN . . . .

1D Linear Map Image

2D Hilbert Map Image

Render Summary

          
Canonical Name: Mystery_chrX
Canonical PNG: Mystery_chrX.fa_linear_c11_fix_sci.png
Source: Mystery_chrX.fa
Full path: /home/tom/Sites/AminoSee/dna/Mystery_chrX.fa
Started: 3:20:37 am Finished: 3:29:51 am Used: 8 minutes, 21.744 seconds  
Machine load averages: 10.02 / 9.97 / 10.05
Bandwidth: 303.71KB / sec DNA Filesize: 151.79MB
Image Output bytes: 17.19MB
Pixels (linear): 4,505,979 Image aspect Ratio: fix
Pixels (hilbert): 4,194,304 (auto) Dimension 8 Hilbert curve
Linear to Hilbert reduction: 1.07 Oversampling: 4
Custom flags: -UC_autoK------M8 C11-I4660000 "Science mode" render style
Estimated Codons: 53,053,906 (filesize % 3)
Actual Codons matched: 49,565,771  
Estimate accuracy: 107% of actual 
Non-coding characters: 1,170,829
Coding characters: 156,086,818
Codons per pixel: 11 (linear) 11.82 (hilbert projection)
Max pix setting: 4,660,000
Darken Factor 0.25 / Highlight Factor 4
290.7 Gigabytes processed on cheese:
Render serial: 1,242 Render UID: 1568820037556
AminoSee version: 1.28.0
          

AminoSeeNoEvil

DNA/RNA Chromosome Viewer

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



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.

Linear Projection

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