SB Count codons
Generate codon frequency tables.
Optional. Pass in the word 'concatenate' (or a truncated version of the word, like 'concat' or 'con') to combine all sequences in the file to create a single frequency table.
>Mle-Panxα1 cDNA - ML078817.
ATGTACTGGATATTTGAGATTTGTCAAGAGATAAAGCGAGCTCAATCCTGCCGAAAGTTC
GCGATAGACGGACCATTCGACTGGACGAACCGGATTATCATGCCAACACTCATGGTAATC
TGCTGCTTTCTCCAAACCTTCACCTTCATGTTCGGCAGCAACATCAGCTGTATCGGCTTC
GAGAAGTTGGAAAGGAACTTTGTGGAGGAGTACTGCTGGACCCAGGGTATCTATACAAGC
AAGGCTGCGTATAACATGCCATTACATACTCCCTACCCGGGGATTGCCCCCTGTGTGCCC
GAGTATGATCCCGTGACTCAGAAGTATTGGTTACCCTGTGGGGTGGAGGAAGAAGACAAG
GCTTATCATTTGTGGTATCAGTGGGTTCCGTTTTACTTTCTCGCTGTGGCCGTGGGTTAT
TATTTGCCATTTCTTATCTTGAAGGGTTCAAAGCTGCATCAGGTGAAGCCGCTGATTACG
TATTTGATGAACCAGAGGAACCTGGAGACTGATCCTAACCATTTGGTAGGAAAGCTATCG
CATTGGATCTTCAGACAGCTTGTTTATTCAAGGTTTGCGGCCACCTCTACAATCAGAATG
TACTGGCACGACTGGGGGCTTGTCCTCCTTGTTTGCTCTGTAAAGATCCTCTACCTTACC
GTCTCTCTTATCCACCTCTTTGCCACTGCCAAGATGTTCCACATCGGCAACTGGTTTACG
TACGGGATCATGTTCGCGCGGCGCAGCAACAGTCACACTACCCACGTTAAGGATGTGTTC
TTCCCGAAGATGGTGGCCTGTAAGATCGAGACATGGAGTTTCACAGGGAAGAATCATCTT
CACGGGATGTGTGTTTTAGCTCTGAACGTGATGAACCAATATTTGTTTTTGATCGTGTGG
TACGTCAACGTAATCATCATCTTCCTCAACAGTATCAGCTGTATTTACACTATAGTCAAG
TTTTGTAGCCCTAACATCGTTCACCACCGGATAGTCAACTCCTCCTCCTTAGACGACCAC
CATGACTTTACCCGGATGTTTGGTTATGTGGGACCTTCCGGACGGATAATCCTGGCTAAA
ATGTCGGAACATATGCCGGGGTACATGCTGAAACAAGTAGCCAAGAAGGTGACAGAGAAG
ATAGATATAGAGAATGAAAAGAATAGAGGGAGAGCCCCGACTATTAAGTTTACCAAGGTT
AACGGTCAGCCCTCAGAGCTGGCCAGACAGCCTCTCATGCACCTGAACGCTCTGATGTTA
GGGATGGTTCCTCAGAATCTACCAGAACCTAAAATTCAGAATATCCAACGGTCGCAGAAA
AAAGTACGGTTTCTGGTTTAA
>Mle-Panxα2 cDNA - ML25998a.
ATGGTATTGGATCTCATTTCTGGAAGCTTGAATGGCTTTTTAAAGATCAAGTCAGTTAGC
ATCGACGATCAGTGGGACCAGATTAACAGAACCTATTTGGTCATGTTTTGTATTTTATCT
GGTACAATCATGACCTTTAAACAGAATTTAGGATCAATAATACACTGTATATCGGATGCA
AGAGGCGACGACAGTTCGTTTGCGGATGCTCATGCGACATTTGTGCAAGACTATTGTGCT
GCTCAAGGGCTGTACACTTTAAAAGAAGTGTATGACAAGTCTTGGCCAGATGAAATTCCT
TACCCAGGTATTCTCCAAATGAAAACAATCGGTTGTTTCCCGGGGAGACAGTTCAAAAAC
GGAACCCCCATCCAGTGCCCGGACGAGAAAGATCTGAAACCCTTCACAACGGTCTATCAT
GTCTGGTACATGTTCGTACCGTTCTACTTCTGCGCTGTTGGCATCGCTTTTTACTTCCCC
TACACGGTTTTCAGACACCTCAGCGGCATCTACGACATCAAGCCTATGTTGAACAGCCTT
GCCCTCGACATTGGGGCCTACACGGAGGAGGACATAAGTCGACGTATAGACAATGTCTCG
AGGTGGTTGTACATCAAGTTGGATCCCTACATGAACAACATGCTTCCTTATACTCAGATA
GTTCACAAACATTCCATCTTTTACACGGTGATGTTGGTGAAGGTGATGTACCTAGCTACC
AGTGTTTCTATTTTTTACGCCACTCACCGGATATTCGACCAAGGAAACTTTGCACTCTAC
GGATACGATGTTCTAATGAGCATACCACAGGAAACAAGCTATAAAGTGATGGACACAATC
TTCCCTAAAATGGTTGGCTGTGAGATCAACATGTGGGGCCGGACTGGCGAACAGAGCGAA
TCTCTTCTGTGTGTCCTCCCTCAAAACATCGGCAACCAATACTTCTTCCTTATATTCTGG
TTTCTCCTGATTCTCACCATACTTTCCAACTGTATCTCTGTAATAGTGACCATATTCAGA
TTTATATTCGTTAGTGGGAGCTACAAAAGGTTCCTGGCTACCAGCCTCTTGAATCACGAA
GAACGATACAAGCTGGTGTTTACACATGTCGGCACGACTGGAAGATACATTTTACTGCTC
TGTGCCGATCATAGCAACCCCAAAATATTCGAGGATCTTCTAGAGATCGTCTGTTCCCTT
CTCATAGCAAACTATCACAAAAGAAAGAGGAGTCGGGATAAGGGACACAGTCGAGCGGAG
GGGGTAGGGACTAAAGGGCGACACGGTCTGTCTTTTGTGGACTCAACCGTGTGA
$: sb Mnemiopsis_cds.fa -cc
#### Mle-Panxα1 ####
Codon AA Num Percent
AAA K 5 1.119
AAC N 17 3.803
AAG K 23 5.145
AAT N 5 1.119
ACA T 6 1.342
ACC T 8 1.79
ACG T 3 0.671
ACT T 7 1.566
AGA R 5 1.119
AGC S 6 1.342
AGG R 3 0.671
AGT S 3 0.671
ATA I 8 1.79
ATC I 21 4.698
ATG M 19 4.251
ATT I 7 1.566
CAA Q 6 1.342
CAC H 10 2.237
CAG Q 11 2.461
CAT H 8 1.79
CCA P 5 1.119
CCC P 6 1.342
CCG P 6 1.342
CCT P 6 1.342
CGA R 2 0.447
CGC R 1 0.224
CGG R 7 1.566
CTA L 2 0.447
CTC L 8 1.79
CTG L 10 2.237
CTT L 7 1.566
GAA E 6 1.342
GAC D 7 1.566
GAG E 12 2.685
GAT D 4 0.895
GCC A 9 2.013
GCG A 4 0.895
GCT A 7 1.566
GGA G 4 0.895
GGC G 3 0.671
GGG G 9 2.013
GGT G 5 1.119
GTA V 6 1.342
GTC V 5 1.119
GTG V 13 2.908
GTT V 9 2.013
TAA * 1 0.224
TAC Y 10 2.237
TAT Y 12 2.685
TCA S 3 0.671
TCC S 5 1.119
TCG S 3 0.671
TCT S 3 0.671
TGC C 5 1.119
TGG W 12 2.685
TGT C 8 1.79
TTA L 5 1.119
TTC F 13 2.908
TTG L 8 1.79
TTT F 15 3.356
#### Mle-Panxα2 ####
Codon AA Num Percent
AAA K 13 2.968
AAC N 12 2.74
AAG K 9 2.055
AAT N 4 0.913
ACA T 7 1.598
ACC T 8 1.826
ACG T 5 1.142
ACT T 6 1.37
AGA R 7 1.598
AGC S 10 2.283
AGG R 3 0.685
AGT S 6 1.37
ATA I 15 3.425
ATC I 15 3.425
ATG M 14 3.196
ATT I 9 2.055
CAA Q 6 1.37
CAC H 8 1.826
CAG Q 8 1.826
CAT H 5 1.142
CCA P 3 0.685
CCC P 5 1.142
CCG P 3 0.685
CCT P 5 1.142
CGA R 4 0.913
CGG R 3 0.685
CGT R 1 0.228
CTA L 3 0.685
CTC L 11 2.511
CTG L 8 1.826
CTT L 7 1.598
GAA E 7 1.598
GAC D 14 3.196
GAG E 7 1.598
GAT D 11 2.511
GCA A 3 0.685
GCC A 4 0.913
GCG A 3 0.685
GCT A 7 1.598
GGA G 7 1.598
GGC G 9 2.055
GGG G 7 1.598
GGT G 4 0.913
GTA V 4 0.913
GTC V 7 1.598
GTG V 10 2.283
GTT V 8 1.826
TAC Y 19 4.338
TAT Y 7 1.598
TCA S 3 0.685
TCC S 3 0.685
TCG S 3 0.685
TCT S 7 1.598
TGA * 1 0.228
TGC C 2 0.457
TGG W 6 1.37
TGT C 9 2.055
TTA L 5 1.142
TTC F 17 3.881
TTG L 8 1.826
TTT F 13 2.968
$: sb Mnemiopsis_cds.fa -cc 'conc'
#### concatination ####
Codon AA Num Percent
AAA K 18 2.034
AAC N 29 3.277
AAG K 32 3.616
AAT N 9 1.017
ACA T 13 1.469
ACC T 16 1.808
ACG T 8 0.904
ACT T 13 1.469
AGA R 12 1.356
AGC S 16 1.808
AGG R 6 0.678
AGT S 9 1.017
ATA I 23 2.599
ATC I 36 4.068
ATG M 33 3.729
ATT I 16 1.808
CAA Q 12 1.356
CAC H 18 2.034
CAG Q 19 2.147
CAT H 13 1.469
CCA P 8 0.904
CCC P 11 1.243
CCG P 9 1.017
CCT P 11 1.243
CGA R 6 0.678
CGC R 1 0.113
CGG R 10 1.13
CGT R 1 0.113
CTA L 5 0.565
CTC L 19 2.147
CTG L 18 2.034
CTT L 14 1.582
GAA E 13 1.469
GAC D 21 2.373
GAG E 19 2.147
GAT D 15 1.695
GCA A 3 0.339
GCC A 13 1.469
GCG A 7 0.791
GCT A 14 1.582
GGA G 11 1.243
GGC G 12 1.356
GGG G 16 1.808
GGT G 9 1.017
GTA V 10 1.13
GTC V 12 1.356
GTG V 23 2.599
GTT V 17 1.921
TAA * 1 0.113
TAC Y 29 3.277
TAT Y 19 2.147
TCA S 6 0.678
TCC S 8 0.904
TCG S 6 0.678
TCT S 10 1.13
TGA * 1 0.113
TGC C 7 0.791
TGG W 18 2.034
TGT C 17 1.921
TTA L 10 1.13
TTC F 30 3.39
TTG L 16 1.808
TTT F 28 3.164
