Treponema pallidum: 1036 proteins
See the statistical parameters
of all the genome.
See the correspondence analysis of relative synonymous codon
usages for Treponema pallidum genes.
See the extraneous regions in terms of G+C content.
See the list of the proposed horizontally transferred genes.
Download the tab-delimited file with all the
statistical calculations for each gene. See the
Abbreviations used.
G+C content:
G+C(1) | G+C(2) | G+C(3) | G+C(T) | |
mean value | 60.2 | 43.7 | 54.6 | 52.9 |
st. dev. | 5.2 | 5.4 | 6.5 | 4.2 |
skewness | -0.2 | 0.2 | 0.0 | -0.2 |
kurtosis | 3.3 | 3.1 | 3.4 | 3.3 |
Amino acid content (in %):
AA | Mean value | SD | AA | Mean value | SD |
A | 10.1 | 2.9 | M | 2.0 | 1.0 |
C | 2.0 | 1.3 | N | 2.4 | 1.2 |
D | 4.4 | 1.7 | P | 4.2 | 1.7 |
E | 5.9 | 2.4 | Q | 3.8 | 1.5 |
F | 4.5 | 1.8 | R | 7.6 | 2.3 |
G | 7.1 | 2.4 | S | 6.6 | 1.8 |
H | 2.7 | 1.3 | T | 5.2 | 1.7 |
I | 4.8 | 1.9 | V | 8.6 | 2.5 |
K | 4.0 | 2.0 | W | 1.0 | 0.8 |
L | 10.2 | 2.7 | Y | 3.0 | 1.3 |
Codon usage (per thousand):
Codon | Mean | SD | Codon | Mean | SD | Codon | Mean | SD | Codon | Mean | SD |
GCT (A) | 16.5 | 8.9 | CAT (H) | 11.4 | 7.2 | CCT (P) | 12.8 | 8.1 | AGT (S) | 10.7 | 6.6 |
GCC (A) | 15.6 | 9.9 | CAC (H) | 15.5 | 10.1 | CCC (P) | 9.5 | 7.4 | AGC (S) | 10.3 | 7.2 |
GCG (A) | 39.3 | 17.2 | ATT (I) | 22.1 | 11.7 | CCG (P) | 12.8 | 8.1 | ACT (T) | 9.6 | 6.0 |
GCA (A) | 29.6 | 13.0 | ATC (I) | 17.1 | 10.9 | CCA (P) | 6.4 | 5.0 | ACC (T) | 14.1 | 9.2 |
TGT (C) | 10.5 | 8.2 | ATA (I) | 9.0 | 6.5 | CAG (Q) | 26.0 | 12.4 | ACG (T) | 18.1 | 8.6 |
TGC (C) | 9.4 | 8.0 | AAG (K) | 22.1 | 15.5 | CAA (Q) | 11.4 | 7.5 | ACA (T) | 10.0 | 7.3 |
GAT (D) | 25.6 | 12.7 | AAA (K) | 17.4 | 10.8 | CGT (R) | 21.2 | 11.7 | GTT (V) | 19.5 | 11.1 |
GAC (D) | 18.7 | 10.8 | TTG (L) | 20.5 | 11.5 | CGC (R) | 24.0 | 12.4 | GTC (V) | 12.8 | 8.2 |
GAG (E) | 31.6 | 17.0 | TTA (L) | 8.7 | 6.4 | CGG (R) | 13.0 | 8.5 | GTG (V) | 37.8 | 17.4 |
GAA (E) | 26.7 | 13.4 | CTT (L) | 23.2 | 10.6 | CGA (R) | 5.8 | 5.3 | GTA (V) | 16.0 | 8.9 |
TTT (F) | 30.8 | 14.9 | CTC (L) | 20.7 | 12.4 | AGG (R) | 6.5 | 6.5 | TGG (W) | 9.8 | 7.7 |
TTC (F) | 13.7 | 9.1 | CTG (L) | 22.7 | 10.9 | AGA (R) | 5.0 | 5.0 | TAT (Y) | 14.4 | 8.4 |
GGT (G) | 19.4 | 10.6 | CTA (L) | 5.8 | 5.1 | TCT (S) | 15.6 | 8.4 | TAC (Y) | 15.3 | 8.9 |
GGC (G) | 15.0 | 9.9 | ATG (M) | 19.9 | 10.3 | TCC (S) | 10.6 | 7.3 | TGA (.) | 1.3 | 2.0 |
GGG (G) | 20.3 | 12.0 | AAT (N) | 12.6 | 8.0 | TCG (S) | 10.8 | 6.9 | TAG (.) | 1.4 | 2.2 |
GGA (G) | 15.9 | 8.6 | AAC (N) | 11.6 | 8.1 | TCA (S) | 7.8 | 5.3 | TAA (.) | 0.9 | 1.8 |
Relative Synonymous Codon Usage (RSCU):
RSCU | Mean | SD | RSCU | Mean | SD | RSCU | Mean | SD | RSCU | Mean | SD |
GCT (A) | 0.68 | 0.42 | CAT (H) | 0.84 | 0.53 | CCT (P) | 1.22 | 0.76 | AGT (S) | 0.99 | 0.76 |
GCC (A) | 0.61 | 0.41 | CAC (H) | 1.07 | 0.55 | CCC (P) | 0.89 | 0.66 | AGC (S) | 0.93 | 0.68 |
GCG (A) | 1.54 | 0.59 | ATT (I) | 1.34 | 0.62 | CCG (P) | 1.22 | 0.76 | ACT (T) | 0.77 | 0.61 |
GCA (A) | 1.16 | 0.53 | ATC (I) | 1.03 | 0.59 | CCA (P) | 0.62 | 0.58 | ACC (T) | 1.02 | 0.65 |
TGT (C) | 1.00 | 0.60 | ATA (I) | 0.59 | 0.51 | CAG (Q) | 1.36 | 0.45 | ACG (T) | 1.41 | 0.74 |
TGC (C) | 0.89 | 0.59 | AAG (K) | 1.07 | 0.48 | CAA (Q) | 0.60 | 0.41 | ACA (T) | 0.76 | 0.59 |
GAT (D) | 1.11 | 0.46 | AAA (K) | 0.88 | 0.47 | CGT (R) | 1.65 | 0.86 | GTT (V) | 0.90 | 0.48 |
GAC (D) | 0.85 | 0.45 | TTG (L) | 1.24 | 0.73 | CGC (R) | 1.86 | 0.94 | GTC (V) | 0.61 | 0.44 |
GAG (E) | 1.07 | 0.40 | TTA (L) | 0.51 | 0.47 | CGG (R) | 1.00 | 0.63 | GTG (V) | 1.73 | 0.63 |
GAA (E) | 0.90 | 0.40 | CTT (L) | 1.35 | 0.64 | CGA (R) | 0.46 | 0.44 | GTA (V) | 0.75 | 0.45 |
TTT (F) | 1.34 | 0.45 | CTC (L) | 1.19 | 0.73 | AGG (R) | 0.57 | 0.58 | TGG (W) | - | - |
TTC (F) | 0.62 | 0.41 | CTG (L) | 1.35 | 0.72 | AGA (R) | 0.45 | 0.52 | TAT (Y) | 0.95 | 0.51 |
GGT (G) | 1.10 | 0.57 | CTA (L) | 0.36 | 0.43 | TCT (S) | 1.42 | 0.82 | TAC (Y) | 1.00 | 0.51 |
GGC (G) | 0.83 | 0.52 | ATG (M) | - | - | TCC (S) | 0.95 | 0.73 | TGA (.) | - | - |
GGG (G) | 1.13 | 0.58 | AAT (N) | 0.98 | 0.55 | TCG (S) | 0.98 | 0.66 | TAG (.) | - | - |
GGA (G) | 0.93 | 0.54 | AAC (N) | 0.92 | 0.54 | TCA (S) | 0.72 | 0.58 | TAA (.) | - | - |