Horizontal Gene Transfer Database

Yersinia pestis: 3885 proteins

See the statistical parameters of all the genome.
See the correspondence analysis of relative synonymous codon usages for Yersinia pestis 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.


 Statistical parameters:

G+C content:
 
G+C(1) G+C(2) G+C(3) G+C(T)
mean value 56.0 39.8 49.1 48.3
st. dev. 6.4 4.4 7.5 4.7
skewness -0.9 -0.2 -0.6 -1.2
kurtosis 4.2 3.7 3.9 5.7


 Amino acid content (in %):
 
AA Mean value SD AA Mean value SD
A 9.0 2.8 M 2.7 1.2
C 1.1 1.0 N 3.9 1.7
D 5.0 1.9 P 4.3 1.6
E 5.6 2.2 Q 4.8 2.2
F 3.9 1.7 R 5.4 2.1
G 7.1 2.2 S 6.2 1.9
H 2.3 1.3 T 5.3 1.7
I 6.3 2.2 V 6.9 2.0
K 4.6 2.3 W 1.4 1.0
L 10.9 3.1 Y 3.0 1.5


 Codon usage (per thousand):
 
Codon Mean SD Codon Mean SD Codon Mean SD Codon Mean SD
GCT (A) 19.9 11.6 CAT (H) 14.5 9.3 CCT (P) 10.2 6.9 AGT (S) 13.0 8.3
GCC (A) 26.0 13.4 CAC (H) 8.8 7.0 CCC (P) 7.6 6.1 AGC (S) 14.1 8.2
GCG (A) 23.0 12.0 ATT (I) 31.4 14.5 CCG (P) 13.1 8.6 ACT (T) 10.7 7.9
GCA (A) 21.2 11.4 ATC (I) 23.2 11.0 CCA (P) 12.3 7.8 ACC (T) 20.3 10.9
TGT (C) 6.3 6.5 ATA (I) 8.4 9.8 CAG (Q) 24.0 13.5 ACG (T) 11.8 7.5
TGC (C) 5.1 5.6 AAG (K) 12.7 10.3 CAA (Q) 23.9 13.1 ACA (T) 9.6 7.4
GAT (D) 36.2 15.0 AAA (K) 33.3 17.4 CGT (R) 20.0 12.2 GTT (V) 19.7 10.9
GAC (D) 13.6 8.7 TTG (L) 24.0 12.5 CGC (R) 16.1 10.2 GTC (V) 15.3 8.5
GAG (E) 20.3 11.0 TTA (L) 22.5 13.4 CGG (R) 7.7 7.2 GTG (V) 22.4 11.8
GAA (E) 35.2 16.3 CTT (L) 9.8 7.6 CGA (R) 4.4 5.0 GTA (V) 11.6 7.3
TTT (F) 23.3 13.0 CTC (L) 8.9 6.9 AGG (R) 2.4 5.3 TGG (W) 13.7 10.2
TTC (F) 15.6 10.4 CTG (L) 35.6 17.3 AGA (R) 3.5 5.3 TAT (Y) 20.2 11.1
GGT (G) 25.8 13.4 CTA (L) 8.1 6.6 TCT (S) 9.9 7.7 TAC (Y) 10.2 8.1
GGC (G) 22.9 11.8 ATG (M) 27.3 11.9 TCC (S) 7.0 5.6 TGA (.) 1.1 2.0
GGG (G) 15.3 9.4 AAT (N) 23.6 13.9 TCG (S) 6.8 5.4 TAG (.) 0.6 1.6
GGA (G) 6.5 6.3 AAC (N) 15.6 9.7 TCA (S) 10.8 7.7 TAA (.) 2.3 2.5


 Relative Synonymous Codon Usage (RSCU):
 
RSCU Mean SD RSCU Mean SD RSCU Mean SD RSCU Mean SD
GCT (A) 0.92 0.54CAT (H) 1.19 0.56CCT (P) 0.95 0.70AGT (S) 1.24 0.77
GCC (A) 1.12 0.53CAC (H) 0.72 0.52CCC (P) 0.68 0.60AGC (S) 1.37 0.82
GCG (A) 1.00 0.53ATT (I) 1.47 0.51CCG (P) 1.18 0.78ACT (T) 0.83 0.66
GCA (A) 0.96 0.50ATC (I) 1.12 0.50CCA (P) 1.14 0.76ACC (T) 1.50 0.73
TGT (C) 0.92 0.73ATA (I) 0.40 0.41CAG (Q) 0.98 0.41ACG (T) 0.90 0.64
TGC (C) 0.75 0.69AAG (K) 0.55 0.35CAA (Q) 1.00 0.41ACA (T) 0.75 0.60
GAT (D) 1.43 0.38AAA (K) 1.44 0.36CGT (R) 2.18 1.19GTT (V) 1.16 0.60
GAC (D) 0.55 0.36TTG (L) 1.31 0.63CGC (R) 1.73 1.03GTC (V) 0.88 0.49
GAG (E) 0.74 0.35TTA (L) 1.24 0.71CGG (R) 0.82 0.76GTG (V) 1.27 0.62
GAA (E) 1.25 0.36CTT (L) 0.57 0.50CGA (R) 0.48 0.60GTA (V) 0.68 0.46
TTT (F) 1.20 0.47CTC (L) 0.49 0.41AGG (R) 0.28 0.59TGG (W)--
TTC (F) 0.78 0.46CTG (L) 1.94 0.93AGA (R) 0.46 0.82TAT (Y) 1.30 0.49
GGT (G) 1.45 0.65CTA (L) 0.45 0.39TCT (S) 0.98 0.79TAC (Y) 0.66 0.46
GGC (G) 1.26 0.60ATG (M)--TCC (S) 0.69 0.62TGA (.)--
GGG (G) 0.87 0.57AAT (N) 1.18 0.46TCG (S) 0.66 0.57TAG (.)--
GGA (G) 0.40 0.46AAC (N) 0.80 0.45TCA (S) 1.04 0.72TAA (.)--

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