Team:XMU Software/Project protein/Example of optimization

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Example of optimization

  RFP sequence
biobrick number E1010
sequence input atggcttcctccgaagacgttatcaaagagttcatgcgtttcaaag ttcgtatggaaggttccgttaacggtcacgagttcgaaatcgaagg tgaaggtgaaggtcgtccgtacgaaggtacccagaccgctaaactg aaagttaccaaaggtggtccgctgccgttcgcttgggacatcctgt ccccgcagttccagtacggttccaaagcttacgttaaacacccggc tgacatcccggactacctgaaactgtccttcccggaaggtttcaaa tgggaacgtgttatgaacttcgaagacggtggtgttgttaccgtta cccaggactcctccctgcaagacggtgagttcatctacaaagttaa actgcgtggtaccaacttcccgtccgacggtccggttatgcagaaa aaaaccatgggttgggaagcttccaccgaacgtatgtacccggaag acggtgctctgaaaggtgaaatcaaaatgcgtctgaaactgaaaga cggtggtcactacgacgctgaagttaaaaccacctacatggctaaa aaaccggttcagctgccgggtgcttacaaaaccgacatcaaactgg acatcacctcccacaacgaagactacaccatcgttgaacagtacga acgtgctgaaggtcgtcactccaccggtgcttaataacgctgatag tgctagtgtagatcgc
sequence output ATGGCCAGCAGCGAGGACGTCATCAAGGAGTTCATGAGGTTTAAGG TCCGCATGGAGGGTTCGGTCAACGGTCATGAATTCGAGATCGAGGG TGAAGGCGAGGGCCGCCCGTACGAAGGTACCCAGACCGCTAAGCTC AAAGTGACGAAGGGAGGGCCATTGCCCTTCGCCTGGGATATTCTCT CTCCCCAGTTCCAGTACGGAAGCAAAGCTTATGTCAAACACCCTGC TGACATTCCTGACTACTTGAAACTATCCTTCCCCGAGGGTTTCAAA TGGGAACGGGTCATGAACTTTGAAGACGGTGGCGTTGTTACTGTTA CCCAGGACTCGTCATTGCAGGACGGTGAATTTATCTACAAGGTCAA ACTACGTGGAACCAACTTCCCCTCCGATGGCCCTGTTATGCAGAAG AAGACTATGGGTTGGGAGGCTTCCACTGAGCGCATGTACCCTGAAG ATGGTGCCCTCAAGGGCGAAATAAAAATGCGCCTAAAGCTTAAAGA CGGCGGCCACTACGATGCTGAGGTTAAAACTACATACATGGCCAAG AAGCCTGTGCAACTACCCGGTGCTTATAAGACGGACATCAAGCTTG ACATTACCTCCCACAATGAAGACTACACTATCGTCGAACAATATGA GCGTGCTGAGGGCAGGCACTCTACCGGTGCTTAGTAGCGGTAATGA
TGCTAGTGCAGGTCT
protected enzyme cutting site ApaI
GGGCCC
BamHI
GGATCC
Bg1II
AGATCT

codon original numbers original proportion final numbers final proportion
AAA 22 0.09 9 0.04
AAC 4 0.02 3 0.01
AAG 0 0.00 13 0.06
AAT 0 0.00 1 0.00
ACA 0 0.00 1 0.00
ACC 14 0.06 6 0.03
ACG 0 0.00 2 0.01
ACT 0 0.00 5 0.02
AGA 1 0.00 0 0.00
AGC 0 0.00 3 0.01
AGG 0 0.00 3 0.01
AGT 0 0.00 0 0.00
ATA 0 0.00 1 0.00
ATC 9 0.04 5 0.02
ATG 9 0.04 9 0.04
ATT 0 0.00 3 0.01
CAA 1 0.00 2 0.01
CAC 5 0.02 4 0.02
CAG 7 0.03 6 0.03
CAT 0 0.00 1 0.00
CCA 0 0.00 1 0.00
CCC 0 0.00 5 0.02
CCG 12 0.05 1 0.00
CCT 0 0.00 5 0.02
CGA 0 0.00 0 0.00
CGC 1 0.00 4 0.02
CGG 0 0.00 2 0.01
CGT 9 0.04 2 0.01
CTA 0 0.00 4 0.02
CTC 0 0.00 3 0.01
CTG 12 0.05 0 0.00
CTT 0 0.00 2 0.01
GAA 19 0.08 10 0.04
GAC 14 0.06 10 0.04
GAG 3 0.01 12 0.05
GAT 0 0.00 4 0.02
GCA 0 0.00 0 0.00
GCC 0 0.00 4 0.02
GCG 0 0.00 0 0.00
GCT 12 0.05 8 0.03
GGA 0 0.00 3 0.01
GGC 0 0.00 8 0.03
GGG 0 0.00 1 0.00
GGT 23 0.10 11 0.05
GTA 0 0.00 0 0.00
GTC 0 0.00 7 0.03
GTG 0 0.00 2 0.01
GTT 14 0.06 5 0.02
TAA 2 0.01 1 0.00
TAC 11 0.05 8 0.03
TAG 2 0.01 3 0.01
TAT 0 0.00 3 0.01
TCA 0 0.00 1 0.00
TCC 12 0.05 4 0.02
TCG 1 0.00 2 0.01
TCT 0 0.00 3 0.01
TGA 1 0.00 1 0.00
TGC 1 0.00 2 0.01
TGG 3 0.01 3 0.01
TGT 1 0.00 0 0.00
TTA 0 0.00 0 0.00
TTC 10 0.04 7 0.03
TTG 0 0.00 3 0.01
TTT 0 0.00 3 0.01