Blosum Log2 No Clustering |
| A | C | D | E | F | G | H | I | K | L | M | N | P | Q | R | S | T | V | W | Y | |
| A | 8 | -15 | -5 | -4 | -15 | -6 | -4 | -9 | -8 | -11 | -9 | -7 | -7 | -10 | -9 | -5 | -1 | -2 | -9 | -14 |
| C | -15 | 9 | -12 | -23 | -12 | -10 | -13 | -21 | -22 | -17 | -28 | -16 | -25 | -29 | -12 | -11 | -15 | -19 | -8 | -4 |
| D | -5 | -12 | 9 | 0 | -13 | -3 | -9 | -10 | -5 | -9 | -12 | 1 | -10 | -7 | -9 | -4 | -4 | -8 | -7 | -7 |
| E | -4 | -23 | 0 | 8 | -17 | -2 | -9 | -9 | -1 | -13 | -4 | -4 | -9 | -3 | -5 | -5 | -5 | -4 | -7 | -12 |
| F | -15 | -12 | -13 | -17 | 10 | -14 | -12 | -4 | -12 | -4 | -9 | -9 | -13 | -18 | -13 | -10 | -9 | -9 | -6 | -1 |
| G | -6 | -10 | -3 | -2 | -14 | 8 | -11 | -10 | -5 | -11 | -9 | -4 | -10 | -9 | -3 | -4 | -6 | -8 | -3 | -15 |
| H | -4 | -13 | -9 | -9 | -12 | -11 | 11 | -14 | -9 | -6 | -19 | -4 | -4 | 0 | -4 | -5 | -7 | -10 | -11 | -1 |
| I | -9 | -21 | -10 | -9 | -4 | -10 | -14 | 7 | -8 | -3 | 0 | -8 | -14 | -12 | -7 | -7 | -2 | 0 | -11 | -12 |
| K | -8 | -22 | -5 | -1 | -12 | -5 | -9 | -8 | 7 | -12 | -6 | -1 | -11 | -1 | 1 | -5 | -2 | -8 | -7 | -13 |
| L | -11 | -17 | -9 | -13 | -4 | -11 | -6 | -3 | -12 | 8 | -1 | -10 | -6 | -8 | -11 | -8 | -7 | -6 | -4 | -9 |
| M | -9 | -28 | -12 | -4 | -9 | -9 | -19 | 0 | -6 | -1 | 10 | -11 | -10 | -12 | -4 | -8 | -3 | -3 | -12 | -20 |
| N | -7 | -16 | 1 | -4 | -9 | -4 | -4 | -8 | -1 | -10 | -11 | 6 | -9 | -5 | -7 | -1 | -2 | -10 | -8 | -4 |
| P | -7 | -25 | -10 | -9 | -13 | -10 | -4 | -14 | -11 | -6 | -10 | -9 | 9 | -3 | -8 | -4 | -7 | -8 | -10 | -11 |
| Q | -10 | -29 | -7 | -3 | -18 | -9 | 0 | -12 | -1 | -8 | -12 | -5 | -3 | 9 | -3 | -8 | -9 | -11 | -17 | -11 |
| R | -9 | -12 | -9 | -5 | -13 | -3 | -4 | -7 | 1 | -11 | -4 | -7 | -8 | -3 | 8 | -2 | -5 | -10 | -3 | -9 |
| S | -5 | -11 | -4 | -5 | -10 | -4 | -5 | -7 | -5 | -8 | -8 | -1 | -4 | -8 | -2 | 8 | -1 | -8 | -7 | -8 |
| T | -1 | -15 | -4 | -5 | -9 | -6 | -7 | -2 | -2 | -7 | -3 | -2 | -7 | -9 | -5 | -1 | 6 | -6 | -8 | -8 |
| V | -2 | -19 | -8 | -4 | -9 | -8 | -10 | 0 | -8 | -6 | -3 | -10 | -8 | -11 | -10 | -8 | -6 | 7 | -11 | -6 |
| W | -9 | -8 | -7 | -7 | -6 | -3 | -11 | -11 | -7 | -4 | -12 | -8 | -10 | -17 | -3 | -7 | -8 | -11 | 11 | -7 |
| Y | -14 | -4 | -7 | -12 | -1 | -15 | -1 | -12 | -13 | -9 | -20 | -4 | -11 | -11 | -9 | -8 | -8 | -6 | -7 | 10 |
Blosum LN No Clustering |
| A | C | D | E | F | G | H | I | K | L | M | N | P | Q | R | S | T | V | W | Y | |
| A | 6 | -11 | -3 | -2 | -11 | -4 | -3 | -6 | -6 | -7 | -6 | -5 | -5 | -7 | -6 | -4 | -1 | -1 | -7 | -9 |
| C | -11 | 6 | -8 | -16 | -8 | -7 | -9 | -14 | -15 | -11 | -19 | -11 | -17 | -20 | -8 | -8 | -10 | -13 | -5 | -3 |
| D | -3 | -8 | 6 | 0 | -9 | -2 | -6 | -7 | -3 | -6 | -8 | 1 | -7 | -5 | -6 | -3 | -3 | -5 | -5 | -5 |
| E | -2 | -16 | 0 | 5 | -12 | -1 | -6 | -6 | -1 | -9 | -3 | -3 | -6 | -2 | -3 | -4 | -3 | -3 | -5 | -8 |
| F | -11 | -8 | -9 | -12 | 7 | -10 | -8 | -3 | -8 | -2 | -6 | -6 | -9 | -13 | -9 | -7 | -7 | -6 | -4 | -1 |
| G | -4 | -7 | -2 | -1 | -10 | 5 | -8 | -7 | -4 | -8 | -6 | -3 | -7 | -6 | -2 | -3 | -4 | -5 | -2 | -11 |
| H | -3 | -9 | -6 | -6 | -8 | -8 | 8 | -10 | -6 | -4 | -13 | -3 | -3 | 0 | -3 | -3 | -5 | -7 | -7 | 0 |
| I | -6 | -14 | -7 | -6 | -3 | -7 | -10 | 5 | -5 | -2 | 0 | -6 | -10 | -8 | -5 | -5 | -2 | 0 | -8 | -8 |
| K | -6 | -15 | -3 | -1 | -8 | -4 | -6 | -5 | 5 | -9 | -4 | -1 | -8 | -1 | 1 | -3 | -1 | -5 | -5 | -9 |
| L | -7 | -11 | -6 | -9 | -2 | -8 | -4 | -2 | -9 | 5 | -1 | -7 | -4 | -5 | -7 | -6 | -5 | -4 | -3 | -6 |
| M | -6 | -19 | -8 | -3 | -6 | -6 | -13 | 0 | -4 | -1 | 7 | -8 | -7 | -8 | -3 | -6 | -2 | -2 | -8 | -14 |
| N | -5 | -11 | 1 | -3 | -6 | -3 | -3 | -6 | -1 | -7 | -8 | 4 | -6 | -4 | -5 | -1 | -2 | -7 | -5 | -3 |
| P | -5 | -17 | -7 | -6 | -9 | -7 | -3 | -10 | -8 | -4 | -7 | -6 | 6 | -2 | -5 | -3 | -5 | -6 | -7 | -7 |
| Q | -7 | -20 | -5 | -2 | -13 | -6 | 0 | -8 | -1 | -5 | -8 | -4 | -2 | 6 | -2 | -5 | -7 | -8 | -12 | -8 |
| R | -6 | -8 | -6 | -3 | -9 | -2 | -3 | -5 | 1 | -7 | -3 | -5 | -5 | -2 | 5 | -2 | -3 | -7 | -2 | -6 |
| S | -4 | -8 | -3 | -4 | -7 | -3 | -3 | -5 | -3 | -6 | -6 | -1 | -3 | -5 | -2 | 5 | -1 | -6 | -5 | -5 |
| T | -1 | -10 | -3 | -3 | -7 | -4 | -5 | -2 | -1 | -5 | -2 | -2 | -5 | -7 | -3 | -1 | 4 | -4 | -5 | -6 |
| V | -1 | -13 | -5 | -3 | -6 | -5 | -7 | 0 | -5 | -4 | -2 | -7 | -6 | -8 | -7 | -6 | -4 | 5 | -7 | -4 |
| W | -7 | -5 | -5 | -5 | -4 | -2 | -7 | -8 | -5 | -3 | -8 | -5 | -7 | -12 | -2 | -5 | -5 | -7 | 7 | -5 |
| Y | -9 | -3 | -5 | -8 | -1 | -11 | 0 | -8 | -9 | -6 | -14 | -3 | -7 | -8 | -6 | -5 | -6 | -4 | -5 | 7 |
Blosum Log10 No Clustering |
| A | C | D | E | F | G | H | I | K | L | M | N | P | Q | R | S | T | V | W | Y | |
| A | 3 | -5 | -1 | -1 | -5 | -2 | -1 | -3 | -2 | -3 | -3 | -2 | -2 | -3 | -3 | -2 | 0 | -1 | -3 | -4 |
| C | -5 | 3 | -4 | -7 | -3 | -3 | -4 | -6 | -7 | -5 | -8 | -5 | -8 | -9 | -3 | -3 | -4 | -6 | -2 | -1 |
| D | -1 | -4 | 3 | 0 | -4 | -1 | -3 | -3 | -1 | -3 | -4 | 0 | -3 | -2 | -3 | -1 | -1 | -2 | -2 | -2 |
| E | -1 | -7 | 0 | 2 | -5 | 0 | -3 | -3 | 0 | -4 | -1 | -1 | -3 | -1 | -1 | -2 | -1 | -1 | -2 | -4 |
| F | -5 | -3 | -4 | -5 | 3 | -4 | -4 | -1 | -4 | -1 | -3 | -3 | -4 | -5 | -4 | -3 | -3 | -3 | -2 | 0 |
| G | -2 | -3 | -1 | 0 | -4 | 2 | -3 | -3 | -2 | -3 | -3 | -1 | -3 | -3 | -1 | -1 | -2 | -2 | -1 | -5 |
| H | -1 | -4 | -3 | -3 | -4 | -3 | 3 | -4 | -3 | -2 | -6 | -1 | -1 | 0 | -1 | -1 | -2 | -3 | -3 | 0 |
| I | -3 | -6 | -3 | -3 | -1 | -3 | -4 | 2 | -2 | -1 | 0 | -2 | -4 | -4 | -2 | -2 | -1 | 0 | -3 | -4 |
| K | -2 | -7 | -1 | 0 | -4 | -2 | -3 | -2 | 2 | -4 | -2 | 0 | -3 | 0 | 0 | -1 | -1 | -2 | -2 | -4 |
| L | -3 | -5 | -3 | -4 | -1 | -3 | -2 | -1 | -4 | 2 | 0 | -3 | -2 | -2 | -3 | -2 | -2 | -2 | -1 | -3 |
| M | -3 | -8 | -4 | -1 | -3 | -3 | -6 | 0 | -2 | 0 | 3 | -3 | -3 | -4 | -1 | -3 | -1 | -1 | -4 | -6 |
| N | -2 | -5 | 0 | -1 | -3 | -1 | -1 | -2 | 0 | -3 | -3 | 2 | -3 | -2 | -2 | 0 | -1 | -3 | -2 | -1 |
| P | -2 | -8 | -3 | -3 | -4 | -3 | -1 | -4 | -3 | -2 | -3 | -3 | 3 | -1 | -2 | -1 | -2 | -2 | -3 | -3 |
| Q | -3 | -9 | -2 | -1 | -5 | -3 | 0 | -4 | 0 | -2 | -4 | -2 | -1 | 3 | -1 | -2 | -3 | -3 | -5 | -3 |
| R | -3 | -3 | -3 | -1 | -4 | -1 | -1 | -2 | 0 | -3 | -1 | -2 | -2 | -1 | 2 | -1 | -1 | -3 | -1 | -3 |
| S | -2 | -3 | -1 | -2 | -3 | -1 | -1 | -2 | -1 | -2 | -3 | 0 | -1 | -2 | -1 | 2 | 0 | -3 | -2 | -2 |
| T | 0 | -4 | -1 | -1 | -3 | -2 | -2 | -1 | -1 | -2 | -1 | -1 | -2 | -3 | -1 | 0 | 2 | -2 | -2 | -3 |
| V | -1 | -6 | -2 | -1 | -3 | -2 | -3 | 0 | -2 | -2 | -1 | -3 | -2 | -3 | -3 | -3 | -2 | 2 | -3 | -2 |
| W | -3 | -2 | -2 | -2 | -2 | -1 | -3 | -3 | -2 | -1 | -4 | -2 | -3 | -5 | -1 | -2 | -2 | -3 | 3 | -2 |
| Y | -4 | -1 | -2 | -4 | 0 | -5 | 0 | -4 | -4 | -3 | -6 | -1 | -3 | -3 | -3 | -2 | -3 | -2 | -2 | 3 |
Distance Log2 |
| A | C | D | E | F | G | H | I | K | L | M | N | P | Q | R | S | T | V | W | Y | |
| A | 4 | 15 | 10 | 8 | 15 | 10 | 10 | 11 | 10 | 12 | 12 | 10 | 10 | 12 | 11 | 9 | 7 | 7 | 13 | 14 |
| C | 15 | 4 | 14 | 18 | 13 | 12 | 15 | 17 | 17 | 15 | 22 | 14 | 20 | 22 | 13 | 12 | 14 | 16 | 12 | 10 |
| D | 10 | 14 | 4 | 7 | 14 | 8 | 13 | 12 | 9 | 11 | 14 | 6 | 12 | 11 | 12 | 9 | 9 | 10 | 12 | 11 |
| E | 8 | 18 | 7 | 4 | 16 | 7 | 12 | 11 | 7 | 12 | 10 | 8 | 11 | 8 | 9 | 9 | 8 | 8 | 11 | 13 |
| F | 15 | 13 | 14 | 16 | 4 | 14 | 15 | 9 | 13 | 9 | 13 | 11 | 14 | 17 | 14 | 12 | 11 | 11 | 11 | 9 |
| G | 10 | 12 | 8 | 7 | 14 | 3 | 14 | 11 | 9 | 12 | 12 | 8 | 11 | 11 | 8 | 8 | 9 | 10 | 9 | 15 |
| H | 10 | 15 | 13 | 12 | 15 | 14 | 5 | 15 | 12 | 11 | 19 | 9 | 10 | 9 | 10 | 10 | 11 | 13 | 15 | 9 |
| I | 11 | 17 | 12 | 11 | 9 | 11 | 15 | 3 | 10 | 7 | 7 | 9 | 13 | 12 | 10 | 9 | 6 | 6 | 13 | 13 |
| K | 10 | 17 | 9 | 7 | 13 | 9 | 12 | 10 | 3 | 12 | 10 | 6 | 12 | 7 | 6 | 8 | 6 | 10 | 11 | 13 |
| L | 12 | 15 | 11 | 12 | 9 | 12 | 11 | 7 | 12 | 3 | 8 | 11 | 9 | 11 | 12 | 10 | 9 | 9 | 9 | 12 |
| M | 12 | 22 | 14 | 10 | 13 | 12 | 19 | 7 | 10 | 8 | 5 | 12 | 13 | 14 | 9 | 12 | 8 | 9 | 15 | 19 |
| N | 10 | 14 | 6 | 8 | 11 | 8 | 9 | 9 | 6 | 11 | 12 | 3 | 11 | 9 | 9 | 6 | 6 | 10 | 11 | 9 |
| P | 10 | 20 | 12 | 11 | 14 | 11 | 10 | 13 | 12 | 9 | 13 | 11 | 4 | 9 | 11 | 9 | 10 | 10 | 13 | 13 |
| Q | 12 | 22 | 11 | 8 | 17 | 11 | 9 | 12 | 7 | 11 | 14 | 9 | 9 | 4 | 8 | 11 | 11 | 12 | 17 | 14 |
| R | 11 | 13 | 12 | 9 | 14 | 8 | 10 | 10 | 6 | 12 | 9 | 9 | 11 | 8 | 4 | 8 | 8 | 11 | 9 | 12 |
| S | 9 | 12 | 9 | 9 | 12 | 8 | 10 | 9 | 8 | 10 | 12 | 6 | 9 | 11 | 8 | 4 | 6 | 10 | 11 | 11 |
| T | 7 | 14 | 9 | 8 | 11 | 9 | 11 | 6 | 6 | 9 | 8 | 6 | 10 | 11 | 8 | 6 | 3 | 8 | 11 | 11 |
| V | 7 | 16 | 10 | 8 | 11 | 10 | 13 | 6 | 10 | 9 | 9 | 10 | 10 | 12 | 11 | 10 | 8 | 3 | 13 | 10 |
| W | 13 | 12 | 12 | 11 | 11 | 9 | 15 | 13 | 11 | 9 | 15 | 11 | 13 | 17 | 9 | 11 | 11 | 13 | 5 | 12 |
| Y | 14 | 10 | 11 | 13 | 9 | 15 | 9 | 13 | 13 | 12 | 19 | 9 | 13 | 14 | 12 | 11 | 11 | 10 | 12 | 4 |
Distance LN |
| A | C | D | E | F | G | H | I | K | L | M | N | P | Q | R | S | T | V | W | Y | |
| A | 2 | 10 | 6 | 6 | 10 | 6 | 7 | 7 | 7 | 8 | 8 | 6 | 7 | 8 | 8 | 6 | 4 | 5 | 8 | 10 |
| C | 10 | 2 | 9 | 12 | 9 | 8 | 10 | 11 | 12 | 10 | 15 | 10 | 13 | 15 | 9 | 8 | 9 | 11 | 8 | 7 |
| D | 6 | 9 | 3 | 5 | 10 | 5 | 9 | 8 | 6 | 8 | 9 | 4 | 8 | 8 | 8 | 6 | 6 | 7 | 8 | 8 |
| E | 6 | 12 | 5 | 2 | 11 | 5 | 8 | 7 | 4 | 8 | 6 | 5 | 7 | 5 | 6 | 6 | 5 | 5 | 7 | 9 |
| F | 10 | 9 | 10 | 11 | 2 | 9 | 10 | 6 | 9 | 6 | 9 | 7 | 9 | 11 | 9 | 8 | 7 | 7 | 8 | 6 |
| G | 6 | 8 | 5 | 5 | 9 | 2 | 9 | 7 | 6 | 8 | 8 | 5 | 8 | 7 | 5 | 5 | 6 | 6 | 6 | 10 |
| H | 7 | 10 | 9 | 8 | 10 | 9 | 3 | 10 | 8 | 7 | 13 | 6 | 7 | 6 | 7 | 7 | 7 | 8 | 10 | 6 |
| I | 7 | 11 | 8 | 7 | 6 | 7 | 10 | 2 | 6 | 5 | 5 | 6 | 9 | 8 | 6 | 6 | 4 | 4 | 9 | 9 |
| K | 7 | 12 | 6 | 4 | 9 | 6 | 8 | 6 | 2 | 8 | 7 | 4 | 8 | 5 | 4 | 6 | 4 | 6 | 7 | 9 |
| L | 8 | 10 | 8 | 8 | 6 | 8 | 7 | 5 | 8 | 2 | 5 | 7 | 6 | 7 | 8 | 7 | 6 | 6 | 6 | 8 |
| M | 8 | 15 | 9 | 6 | 9 | 8 | 13 | 5 | 7 | 5 | 3 | 8 | 9 | 10 | 6 | 8 | 6 | 6 | 10 | 13 |
| N | 6 | 10 | 4 | 5 | 7 | 5 | 6 | 6 | 4 | 7 | 8 | 2 | 7 | 6 | 6 | 4 | 4 | 7 | 7 | 6 |
| P | 7 | 13 | 8 | 7 | 9 | 8 | 7 | 9 | 8 | 6 | 9 | 7 | 2 | 6 | 7 | 6 | 6 | 7 | 9 | 9 |
| Q | 8 | 15 | 8 | 5 | 11 | 7 | 6 | 8 | 5 | 7 | 10 | 6 | 6 | 2 | 6 | 7 | 7 | 8 | 11 | 9 |
| R | 8 | 9 | 8 | 6 | 9 | 5 | 7 | 6 | 4 | 8 | 6 | 6 | 7 | 6 | 2 | 5 | 5 | 7 | 6 | 8 |
| S | 6 | 8 | 6 | 6 | 8 | 5 | 7 | 6 | 6 | 7 | 8 | 4 | 6 | 7 | 5 | 2 | 4 | 7 | 7 | 8 |
| T | 4 | 9 | 6 | 5 | 7 | 6 | 7 | 4 | 4 | 6 | 6 | 4 | 6 | 7 | 5 | 4 | 2 | 5 | 7 | 7 |
| V | 5 | 11 | 7 | 5 | 7 | 6 | 8 | 4 | 6 | 6 | 6 | 7 | 7 | 8 | 7 | 7 | 5 | 2 | 8 | 7 |
| W | 8 | 8 | 8 | 7 | 8 | 6 | 10 | 9 | 7 | 6 | 10 | 7 | 9 | 11 | 6 | 7 | 7 | 8 | 3 | 8 |
| Y | 10 | 7 | 8 | 9 | 6 | 10 | 6 | 9 | 9 | 8 | 13 | 6 | 9 | 9 | 8 | 8 | 7 | 7 | 8 | 3 |
Distance Log10 |
| A | C | D | E | F | G | H | I | K | L | M | N | P | Q | R | S | T | V | W | Y | |
| A | 0 | 4 | 2 | 2 | 4 | 2 | 2 | 3 | 2 | 3 | 3 | 2 | 2 | 3 | 3 | 2 | 1 | 1 | 3 | 4 |
| C | 4 | 0 | 3 | 5 | 3 | 3 | 4 | 4 | 5 | 4 | 6 | 4 | 5 | 6 | 3 | 3 | 3 | 4 | 3 | 2 |
| D | 2 | 3 | 1 | 1 | 4 | 2 | 3 | 3 | 2 | 3 | 4 | 1 | 3 | 3 | 3 | 2 | 2 | 2 | 3 | 3 |
| E | 2 | 5 | 1 | 0 | 4 | 1 | 3 | 2 | 1 | 3 | 2 | 2 | 3 | 2 | 2 | 2 | 2 | 2 | 3 | 3 |
| F | 4 | 3 | 4 | 4 | 1 | 4 | 4 | 2 | 3 | 2 | 3 | 3 | 3 | 4 | 3 | 3 | 3 | 3 | 3 | 2 |
| G | 2 | 3 | 2 | 1 | 4 | 0 | 3 | 3 | 2 | 3 | 3 | 2 | 3 | 3 | 2 | 2 | 2 | 2 | 2 | 4 |
| H | 2 | 4 | 3 | 3 | 4 | 3 | 1 | 4 | 3 | 3 | 5 | 2 | 2 | 2 | 2 | 2 | 3 | 3 | 4 | 2 |
| I | 3 | 4 | 3 | 2 | 2 | 3 | 4 | 0 | 2 | 1 | 1 | 2 | 3 | 3 | 2 | 2 | 1 | 1 | 3 | 3 |
| K | 2 | 5 | 2 | 1 | 3 | 2 | 3 | 2 | 0 | 3 | 2 | 1 | 3 | 1 | 1 | 2 | 1 | 2 | 3 | 3 |
| L | 3 | 4 | 3 | 3 | 2 | 3 | 3 | 1 | 3 | 0 | 2 | 2 | 2 | 2 | 3 | 2 | 2 | 2 | 2 | 3 |
| M | 3 | 6 | 4 | 2 | 3 | 3 | 5 | 1 | 2 | 2 | 1 | 3 | 3 | 4 | 2 | 3 | 2 | 2 | 4 | 5 |
| N | 2 | 4 | 1 | 2 | 3 | 2 | 2 | 2 | 1 | 2 | 3 | 0 | 2 | 2 | 2 | 1 | 1 | 2 | 3 | 2 |
| P | 2 | 5 | 3 | 3 | 3 | 3 | 2 | 3 | 3 | 2 | 3 | 2 | 0 | 2 | 2 | 2 | 2 | 2 | 3 | 3 |
| Q | 3 | 6 | 3 | 2 | 4 | 3 | 2 | 3 | 1 | 2 | 4 | 2 | 2 | 1 | 2 | 3 | 3 | 3 | 4 | 3 |
| R | 3 | 3 | 3 | 2 | 3 | 2 | 2 | 2 | 1 | 3 | 2 | 2 | 2 | 2 | 0 | 2 | 2 | 3 | 2 | 3 |
| S | 2 | 3 | 2 | 2 | 3 | 2 | 2 | 2 | 2 | 2 | 3 | 1 | 2 | 3 | 2 | 0 | 1 | 2 | 3 | 3 |
| T | 1 | 3 | 2 | 2 | 3 | 2 | 3 | 1 | 1 | 2 | 2 | 1 | 2 | 3 | 2 | 1 | 0 | 2 | 3 | 3 |
| V | 1 | 4 | 2 | 2 | 3 | 2 | 3 | 1 | 2 | 2 | 2 | 2 | 2 | 3 | 3 | 2 | 2 | 0 | 3 | 2 |
| W | 3 | 3 | 3 | 3 | 3 | 2 | 4 | 3 | 3 | 2 | 4 | 3 | 3 | 4 | 2 | 3 | 3 | 3 | 1 | 3 |
| Y | 4 | 2 | 3 | 3 | 2 | 4 | 2 | 3 | 3 | 3 | 5 | 2 | 3 | 3 | 3 | 3 | 3 | 2 | 3 | 1 |
Observed Probability of Transition |
| A | C | D | E | F | G | H | I | K | L | M | N | P | Q | R | S | T | V | W | Y | |
| A | 3.93823% | 0.00181% | 0.06580% | 0.15001% | 0.00160% | 0.06284% | 0.04122% | 0.02867% | 0.03585% | 0.01425% | 0.01067% | 0.06781% | 0.03903% | 0.01096% | 0.01851% | 0.08201% | 0.53616% | 0.31908% | 0.00801% | 0.00226% |
| C | 0.00181% | 3.85592% | 0.00394% | 0.00014% | 0.00470% | 0.01300% | 0.00157% | 0.00044% | 0.00027% | 0.00159% | 0.00001% | 0.00250% | 0.00006% | 0.00001% | 0.00705% | 0.00872% | 0.00400% | 0.00067% | 0.01211% | 0.05365% |
| D | 0.06580% | 0.00394% | 2.53698% | 0.35491% | 0.00224% | 0.16887% | 0.00617% | 0.01433% | 0.08679% | 0.01874% | 0.00288% | 0.81620% | 0.01145% | 0.02025% | 0.01657% | 0.09524% | 0.13578% | 0.03480% | 0.01241% | 0.01954% |
| E | 0.15001% | 0.00014% | 0.35491% | 4.28351% | 0.00101% | 0.39087% | 0.00900% | 0.03299% | 0.47051% | 0.00883% | 0.05885% | 0.25300% | 0.02098% | 0.15518% | 0.10359% | 0.10041% | 0.17870% | 0.21338% | 0.02127% | 0.00504% |
| F | 0.00160% | 0.00470% | 0.00224% | 0.00101% | 3.12936% | 0.00303% | 0.00206% | 0.10561% | 0.00741% | 0.12553% | 0.00654% | 0.02486% | 0.00365% | 0.00045% | 0.00377% | 0.01341% | 0.02314% | 0.02249% | 0.01861% | 0.10841% |
| G | 0.06284% | 0.01300% | 0.16887% | 0.39087% | 0.00303% | 5.27459% | 0.00417% | 0.02433% | 0.12490% | 0.01673% | 0.01443% | 0.22482% | 0.01883% | 0.02103% | 0.20544% | 0.15328% | 0.12572% | 0.05674% | 0.09636% | 0.00164% |
| H | 0.04122% | 0.00157% | 0.00617% | 0.00900% | 0.00206% | 0.00417% | 1.49418% | 0.00183% | 0.01213% | 0.02741% | 0.00013% | 0.07846% | 0.04486% | 0.11826% | 0.04097% | 0.04038% | 0.02990% | 0.00785% | 0.00194% | 0.07826% |
| I | 0.02867% | 0.00044% | 0.01433% | 0.03299% | 0.10561% | 0.02433% | 0.00183% | 5.89886% | 0.06407% | 0.38016% | 0.36022% | 0.07165% | 0.00487% | 0.00898% | 0.05910% | 0.06959% | 0.56965% | 0.91640% | 0.00693% | 0.00655% |
| K | 0.03585% | 0.00027% | 0.08679% | 0.47051% | 0.00741% | 0.12490% | 0.01213% | 0.06407% | 4.78970% | 0.01174% | 0.04410% | 0.67705% | 0.01445% | 0.33736% | 0.98441% | 0.14346% | 0.59228% | 0.06101% | 0.02930% | 0.00443% |
| L | 0.01425% | 0.00159% | 0.01874% | 0.00883% | 0.12553% | 0.01673% | 0.02741% | 0.38016% | 0.01174% | 5.76315% | 0.19289% | 0.03254% | 0.07477% | 0.03275% | 0.01658% | 0.04233% | 0.09161% | 0.10127% | 0.08002% | 0.01454% |
| M | 0.01067% | 0.00001% | 0.00288% | 0.05885% | 0.00654% | 0.01443% | 0.00013% | 0.36022% | 0.04410% | 0.19289% | 1.92592% | 0.00880% | 0.00692% | 0.00263% | 0.07012% | 0.01512% | 0.14400% | 0.12641% | 0.00200% | 0.00011% |
| N | 0.06781% | 0.00250% | 0.81620% | 0.25300% | 0.02486% | 0.22482% | 0.07846% | 0.07165% | 0.67705% | 0.03254% | 0.00880% | 6.53410% | 0.03319% | 0.10624% | 0.08991% | 0.68114% | 0.66766% | 0.03567% | 0.02741% | 0.11435% |
| P | 0.03903% | 0.00006% | 0.01145% | 0.02098% | 0.00365% | 0.01883% | 0.04486% | 0.00487% | 0.01445% | 0.07477% | 0.00692% | 0.03319% | 4.29472% | 0.13315% | 0.03337% | 0.11481% | 0.06879% | 0.03741% | 0.00583% | 0.00630% |
| Q | 0.01096% | 0.00001% | 0.02025% | 0.15518% | 0.00045% | 0.02103% | 0.11826% | 0.00898% | 0.33736% | 0.03275% | 0.00263% | 0.10624% | 0.13315% | 3.04824% | 0.14758% | 0.02858% | 0.02438% | 0.00947% | 0.00039% | 0.00394% |
| R | 0.01851% | 0.00705% | 0.01657% | 0.10359% | 0.00377% | 0.20544% | 0.04097% | 0.05910% | 0.98441% | 0.01658% | 0.07012% | 0.08991% | 0.03337% | 0.14758% | 3.84228% | 0.25186% | 0.16087% | 0.02302% | 0.09238% | 0.01192% |
| S | 0.08201% | 0.00872% | 0.09524% | 0.10041% | 0.01341% | 0.15328% | 0.04038% | 0.06959% | 0.14346% | 0.04233% | 0.01512% | 0.68114% | 0.11481% | 0.02858% | 0.25186% | 4.25568% | 0.70017% | 0.04288% | 0.02668% | 0.02025% |
| T | 0.53616% | 0.00400% | 0.13578% | 0.17870% | 0.02314% | 0.12572% | 0.02990% | 0.56965% | 0.59228% | 0.09161% | 0.14400% | 0.66766% | 0.06879% | 0.02438% | 0.16087% | 0.70017% | 6.81369% | 0.15552% | 0.02831% | 0.02607% |
| V | 0.31908% | 0.00067% | 0.03480% | 0.21338% | 0.02249% | 0.05674% | 0.00785% | 0.91640% | 0.06101% | 0.10127% | 0.12641% | 0.03567% | 0.03741% | 0.00947% | 0.02302% | 0.04288% | 0.15552% | 5.91473% | 0.00838% | 0.04255% |
| W | 0.00801% | 0.01211% | 0.01241% | 0.02127% | 0.01861% | 0.09636% | 0.00194% | 0.00693% | 0.02930% | 0.08002% | 0.00200% | 0.02741% | 0.00583% | 0.00039% | 0.09238% | 0.02668% | 0.02831% | 0.00838% | 2.05549% | 0.01236% |
| Y | 0.00226% | 0.05365% | 0.01954% | 0.00504% | 0.10841% | 0.00164% | 0.07826% | 0.00655% | 0.00443% | 0.01454% | 0.00011% | 0.11435% | 0.00630% | 0.00394% | 0.01192% | 0.02025% | 0.02607% | 0.04255% | 0.01236% | 2.41224% |
Expected Probability of Transition |
| A | C | D | E | F | G | H | I | K | L | M | N | P | Q | R | S | T | V | W | Y | |
| A | 0.21963% | 0.36687% | 0.32622% | 0.52001% | 0.31574% | 0.57533% | 0.16567% | 0.68068% | 0.62242% | 0.60038% | 0.23052% | 0.80053% | 0.43408% | 0.34015% | 0.46967% | 0.52216% | 0.83843% | 0.65820% | 0.21566% | 0.25104% |
| C | 0.36687% | 0.15320% | 0.27245% | 0.43429% | 0.26370% | 0.48050% | 0.13836% | 0.56848% | 0.51983% | 0.50142% | 0.19252% | 0.66858% | 0.36253% | 0.28408% | 0.39225% | 0.43609% | 0.70023% | 0.54971% | 0.18011% | 0.20966% |
| D | 0.32622% | 0.27245% | 0.12113% | 0.38618% | 0.23449% | 0.42727% | 0.12303% | 0.50551% | 0.46224% | 0.44587% | 0.17119% | 0.59452% | 0.32237% | 0.25261% | 0.34880% | 0.38778% | 0.62266% | 0.48881% | 0.16016% | 0.18644% |
| E | 0.52001% | 0.43429% | 0.38618% | 0.30779% | 0.37378% | 0.68107% | 0.19612% | 0.80578% | 0.73681% | 0.71072% | 0.27288% | 0.94766% | 0.51385% | 0.40267% | 0.55599% | 0.61813% | 0.99252% | 0.77917% | 0.25530% | 0.29718% |
| F | 0.31574% | 0.26370% | 0.23449% | 0.37378% | 0.11347% | 0.41354% | 0.11908% | 0.48927% | 0.44739% | 0.43155% | 0.16569% | 0.57542% | 0.31201% | 0.24450% | 0.33759% | 0.37532% | 0.60266% | 0.47311% | 0.15501% | 0.18045% |
| G | 0.57533% | 0.48050% | 0.42727% | 0.68107% | 0.41354% | 0.37676% | 0.21698% | 0.89151% | 0.81520% | 0.78633% | 0.30192% | 1.04849% | 0.56853% | 0.44551% | 0.61514% | 0.68389% | 1.09812% | 0.86207% | 0.28246% | 0.32880% |
| H | 0.16567% | 0.13836% | 0.12303% | 0.19612% | 0.11908% | 0.21698% | 0.03124% | 0.25671% | 0.23474% | 0.22643% | 0.08694% | 0.30192% | 0.16371% | 0.12828% | 0.17713% | 0.19693% | 0.31621% | 0.24824% | 0.08133% | 0.09468% |
| I | 0.68068% | 0.56848% | 0.50551% | 0.80578% | 0.48927% | 0.89151% | 0.25671% | 0.52737% | 0.96447% | 0.93032% | 0.35720% | 1.24047% | 0.67263% | 0.52709% | 0.72778% | 0.80912% | 1.29920% | 1.01992% | 0.33418% | 0.38901% |
| K | 0.62242% | 0.51983% | 0.46224% | 0.73681% | 0.44739% | 0.81520% | 0.23474% | 0.96447% | 0.44096% | 0.85069% | 0.32663% | 1.13430% | 0.61506% | 0.48197% | 0.66549% | 0.73987% | 1.18800% | 0.93263% | 0.30558% | 0.35571% |
| L | 0.60038% | 0.50142% | 0.44587% | 0.71072% | 0.43155% | 0.78633% | 0.22643% | 0.93032% | 0.85069% | 0.41028% | 0.31506% | 1.09413% | 0.59328% | 0.46490% | 0.64192% | 0.71366% | 1.14592% | 0.89960% | 0.29476% | 0.34311% |
| M | 0.23052% | 0.19252% | 0.17119% | 0.27288% | 0.16569% | 0.30192% | 0.08694% | 0.35720% | 0.32663% | 0.31506% | 0.06048% | 0.42010% | 0.22779% | 0.17850% | 0.24647% | 0.27401% | 0.43998% | 0.34540% | 0.11317% | 0.13174% |
| N | 0.80053% | 0.66858% | 0.59452% | 0.94766% | 0.57542% | 1.04849% | 0.30192% | 1.24047% | 1.13430% | 1.09413% | 0.42010% | 0.72945% | 0.79107% | 0.61990% | 0.85593% | 0.95159% | 1.52796% | 1.19951% | 0.39302% | 0.45750% |
| P | 0.43408% | 0.36253% | 0.32237% | 0.51385% | 0.31201% | 0.56853% | 0.16371% | 0.67263% | 0.61506% | 0.59328% | 0.22779% | 0.79107% | 0.21447% | 0.33613% | 0.46411% | 0.51599% | 0.82851% | 0.65042% | 0.21311% | 0.24807% |
| Q | 0.34015% | 0.28408% | 0.25261% | 0.40267% | 0.24450% | 0.44551% | 0.12828% | 0.52709% | 0.48197% | 0.46490% | 0.17850% | 0.61990% | 0.33613% | 0.13170% | 0.36369% | 0.40434% | 0.64924% | 0.50968% | 0.16700% | 0.19440% |
| R | 0.46967% | 0.39225% | 0.34880% | 0.55599% | 0.33759% | 0.61514% | 0.17713% | 0.72778% | 0.66549% | 0.64192% | 0.24647% | 0.85593% | 0.46411% | 0.36369% | 0.25108% | 0.55829% | 0.89645% | 0.70375% | 0.23058% | 0.26842% |
| S | 0.52216% | 0.43609% | 0.38778% | 0.61813% | 0.37532% | 0.68389% | 0.19693% | 0.80912% | 0.73987% | 0.71366% | 0.27401% | 0.95159% | 0.51599% | 0.40434% | 0.55829% | 0.31034% | 0.99664% | 0.78240% | 0.25636% | 0.29841% |
| T | 0.83843% | 0.70023% | 0.62266% | 0.99252% | 0.60266% | 1.09812% | 0.31621% | 1.29920% | 1.18800% | 1.14592% | 0.43998% | 1.52796% | 0.82851% | 0.64924% | 0.89645% | 0.99664% | 0.80014% | 1.25630% | 0.41163% | 0.47916% |
| V | 0.65820% | 0.54971% | 0.48881% | 0.77917% | 0.47311% | 0.86207% | 0.24824% | 1.01992% | 0.93263% | 0.89960% | 0.34540% | 1.19951% | 0.65042% | 0.50968% | 0.70375% | 0.78240% | 1.25630% | 0.49312% | 0.32315% | 0.37616% |
| W | 0.21566% | 0.18011% | 0.16016% | 0.25530% | 0.15501% | 0.28246% | 0.08133% | 0.33418% | 0.30558% | 0.29476% | 0.11317% | 0.39302% | 0.21311% | 0.16700% | 0.23058% | 0.25636% | 0.41163% | 0.32315% | 0.05294% | 0.12325% |
| Y | 0.25104% | 0.20966% | 0.18644% | 0.29718% | 0.18045% | 0.32880% | 0.09468% | 0.38901% | 0.35571% | 0.34311% | 0.13174% | 0.45750% | 0.24807% | 0.19440% | 0.26842% | 0.29841% | 0.47916% | 0.37616% | 0.12325% | 0.07173% |
Transition Count |
| A | C | D | E | F | G | H | I | K | L | M | N | P | Q | R | S | T | V | W | Y | |
| A | 330499 | 152 | 5522 | 12589 | 135 | 5274 | 3460 | 2406 | 3009 | 1196 | 896 | 5691 | 3276 | 920 | 1554 | 6883 | 44995 | 26778 | 673 | 190 |
| C | 152 | 323591 | 331 | 12 | 395 | 1091 | 132 | 37 | 23 | 134 | 0 | 210 | 5 | 0 | 592 | 732 | 336 | 57 | 1017 | 4503 |
| D | 5522 | 331 | 212905 | 29785 | 188 | 14172 | 518 | 1203 | 7284 | 1573 | 242 | 68496 | 961 | 1700 | 1391 | 7993 | 11395 | 2921 | 1042 | 1640 |
| E | 12589 | 12 | 29785 | 359475 | 85 | 32802 | 756 | 2769 | 39486 | 741 | 4939 | 21232 | 1761 | 13023 | 8694 | 8427 | 14997 | 17907 | 1785 | 423 |
| F | 135 | 395 | 188 | 85 | 262618 | 255 | 173 | 8863 | 622 | 10535 | 549 | 2087 | 307 | 38 | 317 | 1126 | 1942 | 1888 | 1562 | 9098 |
| G | 5274 | 1091 | 14172 | 32802 | 255 | 442647 | 350 | 2042 | 10482 | 1404 | 1211 | 18867 | 1581 | 1765 | 17241 | 12864 | 10551 | 4762 | 8087 | 138 |
| H | 3460 | 132 | 518 | 756 | 173 | 350 | 125393 | 154 | 1018 | 2301 | 11 | 6585 | 3765 | 9925 | 3439 | 3389 | 2510 | 659 | 163 | 6568 |
| I | 2406 | 37 | 1203 | 2769 | 8863 | 2042 | 154 | 495036 | 5377 | 31904 | 30230 | 6013 | 409 | 754 | 4960 | 5840 | 47806 | 76905 | 582 | 550 |
| K | 3009 | 23 | 7284 | 39486 | 622 | 10482 | 1018 | 5377 | 401955 | 986 | 3701 | 56819 | 1213 | 28312 | 82613 | 12040 | 49705 | 5120 | 2459 | 372 |
| L | 1196 | 134 | 1573 | 741 | 10535 | 1404 | 2301 | 31904 | 986 | 483647 | 16188 | 2731 | 6275 | 2749 | 1392 | 3553 | 7688 | 8499 | 6716 | 1221 |
| M | 896 | 0 | 242 | 4939 | 549 | 1211 | 11 | 30230 | 3701 | 16188 | 161625 | 739 | 581 | 221 | 5885 | 1269 | 12085 | 10609 | 168 | 10 |
| N | 5691 | 210 | 68496 | 21232 | 2087 | 18867 | 6585 | 6013 | 56819 | 2731 | 739 | 548346 | 2786 | 8916 | 7546 | 57162 | 56031 | 2994 | 2301 | 9597 |
| P | 3276 | 5 | 961 | 1761 | 307 | 1581 | 3765 | 409 | 1213 | 6275 | 581 | 2786 | 360416 | 11174 | 2801 | 9635 | 5773 | 3140 | 490 | 529 |
| Q | 920 | 0 | 1700 | 13023 | 38 | 1765 | 9925 | 754 | 28312 | 2749 | 221 | 8916 | 11174 | 255810 | 12385 | 2399 | 2046 | 795 | 33 | 331 |
| R | 1554 | 592 | 1391 | 8694 | 317 | 17241 | 3439 | 4960 | 82613 | 1392 | 5885 | 7546 | 2801 | 12385 | 322447 | 21137 | 13501 | 1932 | 7753 | 1001 |
| S | 6883 | 732 | 7993 | 8427 | 1126 | 12864 | 3389 | 5840 | 12040 | 3553 | 1269 | 57162 | 9635 | 2399 | 21137 | 357139 | 58759 | 3599 | 2239 | 1700 |
| T | 44995 | 336 | 11395 | 14997 | 1942 | 10551 | 2510 | 47806 | 49705 | 7688 | 12085 | 56031 | 5773 | 2046 | 13501 | 58759 | 571809 | 13052 | 2376 | 2188 |
| V | 26778 | 57 | 2921 | 17907 | 1888 | 4762 | 659 | 76905 | 5120 | 8499 | 10609 | 2994 | 3140 | 795 | 1932 | 3599 | 13052 | 496368 | 704 | 3571 |
| W | 673 | 1017 | 1042 | 1785 | 1562 | 8087 | 163 | 582 | 2459 | 6716 | 168 | 2301 | 490 | 33 | 7753 | 2239 | 2376 | 704 | 172498 | 1038 |
| Y | 190 | 4503 | 1640 | 423 | 9098 | 138 | 6568 | 550 | 372 | 1221 | 10 | 9597 | 529 | 331 | 1001 | 1700 | 2188 | 3571 | 1038 | 202437 |
Number of Amino Acids in Alignment |
| A | C | D | E | F | G | H | I | K | L | M | N | P | Q | R | S | T | V | W | Y | |
| A | 4269 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
| C | - | 3552 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
| D | - | - | 3236 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
| E | - | - | - | 5169 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
| F | - | - | - | - | 3059 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
| G | - | - | - | - | - | 5793 | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
| H | - | - | - | - | - | - | 1635 | - | - | - | - | - | - | - | - | - | - | - | - | - |
| I | - | - | - | - | - | - | - | 6614 | - | - | - | - | - | - | - | - | - | - | - | - |
| K | - | - | - | - | - | - | - | - | 6099 | - | - | - | - | - | - | - | - | - | - | - |
| L | - | - | - | - | - | - | - | - | - | 5864 | - | - | - | - | - | - | - | - | - | - |
| M | - | - | - | - | - | - | - | - | - | - | 2247 | - | - | - | - | - | - | - | - | - |
| N | - | - | - | - | - | - | - | - | - | - | - | 7987 | - | - | - | - | - | - | - | - |
| P | - | - | - | - | - | - | - | - | - | - | - | - | 4209 | - | - | - | - | - | - | - |
| Q | - | - | - | - | - | - | - | - | - | - | - | - | - | 3323 | - | - | - | - | - | - |
| R | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 4633 | - | - | - | - | - |
| S | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 5181 | - | - | - | - |
| T | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 8283 | - | - | - |
| V | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 6391 | - | - |
| W | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 2151 | - |
| Y | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 2442 |
Percentage of Amino Acids in Alignment |
| A | C | D | E | F | G | H | I | K | L | M | N | P | Q | R | S | T | V | W | Y | |
| A | 4.63% | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
| C | - | 3.85% | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
| D | - | - | 3.51% | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
| E | - | - | - | 5.61% | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
| F | - | - | - | - | 3.32% | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
| G | - | - | - | - | - | 6.28% | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
| H | - | - | - | - | - | - | 1.77% | - | - | - | - | - | - | - | - | - | - | - | - | - |
| I | - | - | - | - | - | - | - | 7.17% | - | - | - | - | - | - | - | - | - | - | - | - |
| K | - | - | - | - | - | - | - | - | 6.61% | - | - | - | - | - | - | - | - | - | - | - |
| L | - | - | - | - | - | - | - | - | - | 6.36% | - | - | - | - | - | - | - | - | - | - |
| M | - | - | - | - | - | - | - | - | - | - | 2.43% | - | - | - | - | - | - | - | - | - |
| N | - | - | - | - | - | - | - | - | - | - | - | 8.66% | - | - | - | - | - | - | - | - |
| P | - | - | - | - | - | - | - | - | - | - | - | - | 4.56% | - | - | - | - | - | - | - |
| Q | - | - | - | - | - | - | - | - | - | - | - | - | - | 3.60% | - | - | - | - | - | - |
| R | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 5.02% | - | - | - | - | - |
| S | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 5.62% | - | - | - | - |
| T | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 8.98% | - | - | - |
| V | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 6.93% | - | - |
| W | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 2.33% | - |
| Y | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | 2.65% |