TABLE 1.
Genomic coordinates of the 35 MHC genes we annotated as well as the number of haplotypes observed and p‐value from a chi‐squared test investigating allele frequency differences between individuals that resolved a Chlamydia infection and individuals that did not resolve an infection
| Gene | Scaffold | Strand | Start position | End position | No. of alleles | p |
|---|---|---|---|---|---|---|
| DAA | MSTS01000255.1 | − | 1,210,001 | 1,214,547 | 4 | .20 |
| DAB1 | MSTS01000401.1 | + | 78,815 | 85,317 | 0 | NA |
| DAB2 | MSTS01000401.1 | − | 145,139 | 153,948 | 15 | .06 |
| DAB3 | MSTS01000544.1 | + | 63,131 | 71,649 | 12 | .47 |
| DAB4 | MSTS01000840.1 | − | 12,395 | 23,791 | 2 | .89 |
| DAB5 | MSTS01000302.1 | + | 47,412 | 85,351 | 0 | NA |
| DBA1 | MSTS01000255.1 | − | 1,175,692 | 1,178,484 | 6 | .44 |
| DBA2 | MSTS01000255.1 | − | 1,141,123 | 1,143,891 | 0 | NA |
| DBA3 | MSTS01000255.1 | − | 1,071,439 | 1,074,196 | 5 | .22 |
| DBB1 | MSTS01000255.1 | + | 1,049,332 | 1,053,643 | 3 | .35 |
| DBB2 | MSTS01000255.1 | + | 1,071,439 | 1,074,196 | 4 | .21 |
| DBB3 | MSTS01000255.1 | + | 1,118,112 | 1,122,579 | 6 | .59 |
| DCA | MSTS01000255.1 | − | 1,414,232 | 1,417,702 | 0 | NA |
| DCB | MSTS01000255.1 | + | 1,420,849 | 1,430,221 | 4 | .16 |
| DMA | MSTS01000255.1 | + | 316,690 | 319,085 | 4 | .33 |
| DMB | MSTS01000255.1 | + | 340,447 | 343,862 | 6 | .37 |
| MHCI‐1(UI) | MSTS01000347.1 | + | 1,561,564 | 1,564,694 | 5 | .87 |
| MHCI‐10(UF) | MSTS01000255.1 | + | 986,710 | 989,373 | 4 | .20 |
| MHCI‐11 | MSTS01000314.1 | + | 2,329,060 | 2,332,457 | 0 | NA |
| MHCI‐12(UH) | MSTS01000129.1 | − | 3,854,947 | 3,858,138 | 6 | .85 |
| MHCI‐13(UG) | MSTS01000129.1 | − | 3,816,284 | 3,819,564 | 6 | .29 |
| MHCI‐14 | MSTS01000778.1 | − | 11,798 | 15,205 | 0 | NA |
| MHCI‐15(UJ) | MSTS01000454.1 | − | 94,471 | 97,231 | 3 | .46 |
| MHCI‐16 | MSTS01001120.1 | − | 62 | 3,236 | 0 | NA |
| MHCI‐17 | MSTS01000129.1 | + | 3,931,562 | 3,934,737 | 0 | NA |
| MHCI‐18 | MSTS01000381.1 | − | 34,572 | 37,792 | 0 | NA |
| MHCI‐19(UB) | MSTS01000381.1 | − | 11,690 | 15,571 | 8 | .38 |
| MHCI‐2‐partial(UD) | MSTS01000347.1 | + | 1,588,258 | 1,590,606 | 4 | .63 |
| MHCI‐3‐partial | MSTS01000347.1 | + | 1,624,069 | 1,626,296 | 0 | NA |
| MHCI‐4(UA) | MSTS01000263.1 | − | 3,139,825 | 3,143,043 | 17 | .04 a |
| MHCI‐5(UK) | MSTS01000255.1 | + | 400,493 | 407,225 | 3 | .17 |
| MHCI‐6‐partial | MSTS01000255.1 | + | 548,482 | 551,594 | 0 | NA |
| MHCI‐7 | MSTS01000255.1 | + | 618,950 | 622,135 | 0 | NA |
| MHCI‐8(UC) | MSTS01000255.1 | + | 764,362 | 767,048 | 4 | .03 a |
| MHCI‐9(UE) | MSTS01000255.1 | + | 839,055 | 841,733 | 9 | .37 |
a
A significant difference between allele frequencies of individuals that resolved a Chlamydia infection and those that did not.