The quantitative Matrix of H-2Qa
| Amino acid/positions | P1 | P2 | P3 | P4 | P5 | P6 | P7 | P8 | P9 |
| A | -2.00 | -2.00 | 0.00 | -0.50 | -2.00 | 0.00 | -2.00 | 2.00 | -2.00 |
| C | -2.00 | 0.00 | 0.00 | 0.00 | 0.00 | 2.00 | 0.00 | 2.00 | -2.00 |
| D | 2.00 | -2.00 | -2.00 | 0.67 | -2.00 | 2.00 | -2.00 | 2.00 | -2.00 |
| E | 1.00 | 0.00 | -2.00 | -0.67 | -2.00 | -0.67 | 0.00 | -0.67 | -2.00 |
| F | 0.00 | -2.00 | -2.00 | 0.67 | -2.00 | 2.00 | 0.00 | -2.00 | 5.00 |
| G | -2.00 | -2.00 | -2.00 | -2.00 | -2.00 | 1.00 | -2.00 | 2.00 | 0.00 |
| H | 0.00 | -2.00 | 0.00 | 0.67 | 0.00 | -2.00 | 7.00 | 2.00 | 0.00 |
| I | 0.00 | -2.00 | 1.60 | -2.00 | 1.50 | -2.00 | 0.00 | 2.00 | 7.00 |
| K | 0.00 | -2.00 | -2.00 | -2.00 | -2.00 | 0.00 | -2.00 | -0.40 | -2.00 |
| L | -0.67 | 1.29 | 0.91 | 0.00 | -2.00 | 1.20 | -2.00 | -1.00 | 6.47 |
| M | 0.00 | 2.00 | 0.00 | 0.67 | 0.00 | 0.00 | -2.00 | -1.00 | -2.00 |
| N | 0.67 | -2.00 | 0.86 | 0.00 | 0.00 | -0.67 | -2.00 | 0.00 | -2.00 |
| P | -2.00 | -2.00 | -2.00 | 2.00 | -2.00 | 2.00 | -2.00 | 1.20 | 0.00 |
| Q | -2.00 | 2.00 | 0.00 | 0.00 | 0.00 | 0.00 | -2.00 | -0.67 | 0.00 |
| R | 1.00 | 0.00 | -2.00 | 2.00 | -2.00 | -0.67 | 0.00 | 0.00 | 0.00 |
| S | 0.00 | -2.00 | -2.00 | 2.00 | 0.00 | -2.00 | 0.00 | 0.00 | 0.00 |
| T | 2.00 | -2.00 | 0.00 | -0.29 | -2.00 | -2.00 | 0.00 | -0.67 | -2.00 |
| V | -0.67 | -2.00 | 0.00 | 2.00 | 1.75 | 1.00 | -2.00 | -2.00 | 0.00 |
| W | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | -2.00 | 0.00 | 2.00 | 0.00 |
| X | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 |
| Y | 0.00 | 0.00 | -2.00 | -0.67 | -2.00 | -2.00 | 0.00 | 0.00 | 0.00 |
| Thresold(%) | 1% | 2% | 3% | 4% | 5% | 6% | 7% | 8% | 9% | 10% |
| Value | 9.29 | 7.76 | 6.75 | 6.00 | 5.40 | 4.91 | 4.42 | 4.00 | 3.62 | 3.24 |