Spreadsheet: 21879944-4352-4f0c-9a48-517c464d2a79
Sheet: Sheet1

Table S4.  SNP haplotypes for unique alleles of three single copy genes. | Unnamed: 1 | Unnamed: 2 | Unnamed: 3 | Unnamed: 4 | Unnamed: 5 | Unnamed: 6 | Unnamed: 7 | Unnamed: 8 | Unnamed: 9 | Unnamed: 10 | Unnamed: 11 | Unnamed: 12 | Unnamed: 13 | Unnamed: 14 | Unnamed: 15 | Unnamed: 16 | Unnamed: 17 | Unnamed: 18 | Unnamed: 19 | Unnamed: 20 | Unnamed: 21 | Unnamed: 22 | Unnamed: 23 | Unnamed: 24 | Unnamed: 25 | Unnamed: 26 | Unnamed: 27 | Unnamed: 28 | Unnamed: 29 | Unnamed: 30 | Unnamed: 31 | Unnamed: 32 | Unnamed: 33 | Unnamed: 34 | Unnamed: 35 | Unnamed: 36 | Unnamed: 37 | Unnamed: 38 | Unnamed: 39
A. CRN (Coronin)
SNP type | N | S | S | S | N | S | N | N | N | N | S | S | S | N | S | N | N | N | N | S | S | N | N | S | S | N
SNP coordinate | 508 | 813 | 816 | 843 | 868 | 927 | 993 | 1030 | 1049 | 1094 | 1170 | 1385 | 1425 | 1480 | 1485 | 1488 | 1531 | 1536 | 1549 | 1632 | 1635 | 1651 | 1698 | 1845 | 1959 | 1968
[NAME]
CRN-1 | A | C | C | C | G | C | G | G | G | A | T | A | T | G | C | A | G | G | G | C | G | A | A | G | T | C
CRN-2 | A | C | C | T | A | C | G | G | G | A | T | A | T | G | C | A | A | G | G | C | G | G | G | A | T | C
CRN-3 | A | C | C | T | G | C | C | G | G | A | T | A | C | G | C | A | A | G | G | C | G | G | A | A | T | C
[NAME] | A | C | C | T | G | C | C | G | G | A | T | A | C | G | C | A | G | G | G | C | G | G | A | A | T | C
[NAME] | A | C | C | T | G | C | C | G | G | A | T | G | T | G | C | A | A | C | G | C | G | G | G | A | T | C
CRN-6 | A | C | C | T | G | C | C | G | G | A | T | G | T | G | C | A | A | G | G | C | G | G | A | A | T | C
CRN-7 | A | C | C | T | G | C | C | G | G | A | T | G | T | G | T | A | A | G | G | C | G | G | G | A | T | C
CRN-8 | A | C | C | T | G | C | G | C | A | A | T | A | T | G | C | A | G | G | G | C | G | G | A | G | T | C
CRN-9 | A | C | C | T | G | C | G | G | A | A | T | A | T | G | C | A | G | G | G | C | G | G | A | G | T | C
CRN-10 | A | C | C | T | G | C | G | G | A | A | T | A | T | G | C | A | G | G | G | C | G | G | G | A | T | C
CRN-11 | A | C | C | T | G | C | G | G | G | A | C | A | T | G | C | A | A | G | G | C | G | G | G | A | T | C
CRN-12 | A | C | C | T | G | C | G | G | G | A | T | A | C | G | C | A | A | G | G | C | G | G | A | A | T | C
CRN-13 | A | C | C | T | G | C | G | G | G | A | T | A | C | G | C | A | A | G | G | C | G | G | G | A | T | C
CRN-14 | A | C | C | T | G | C | G | G | G | A | T | A | C | G | C | A | G | G | G | C | G | G | A | A | T | C
CRN-15 | A | C | C | T | G | C | G | G | G | A | T | A | C | G | C | A | G | G | G | C | G | G | G | A | T | C
CRN-16 | A | C | C | T | G | C | G | G | G | A | T | A | T | A | C | A | G | G | A | C | G | G | A | G | T | C
CRN-17 | A | C | C | T | G | C | G | G | G | A | T | A | T | A | C | A | G | G | G | C | A | G | A | G | T | C
CRN-18 | A | C | C | T | G | C | G | G | G | A | T | A | T | A | C | A | G | G | G | C | G | G | A | G | T | C
CRN-19 | A | C | C | T | G | C | G | G | G | A | T | A | T | G | C | A | A | G | G | C | G | G | A | A | T | C
CRN-20 | A | C | C | T | G | C | G | G | G | A | T | A | T | G | C | A | A | G | G | C | G | G | G | A | T | C
[NAME] | A | C | C | T | G | C | G | G | G | A | T | A | T | G | C | A | A | G | G | T | G | G | G | A | T | C
CRN-22 | A | C | C | T | G | C | G | G | G | A | T | A | T | G | C | A | G | G | G | C | G | A | A | G | C | C
CRN-23 | A | C | C | T | G | C | G | G | G | A | T | A | T | G | C | A | G | G | G | C | G | A | A | G | T | C
CRN-24 | A | C | C | T | G | C | G | G | G | A | T | A | T | G | C | A | G | G | G | C | G | G | A | G | T | C
CRN-25 | A | C | C | T | G | C | G | G | G | A | T | A | T | G | C | A | G | G | G | C | G | G | G | A | T | C
CRN-26 | A | C | C | T | G | C | G | G | G | A | T | A | T | G | C | T | A | G | G | C | G | G | G | A | T | C
CRN-27 | A | C | C | T | G | C | G | G | G | A | T | G | T | G | C | A | A | G | G | C | G | G | A | A | T | C
CRN-28 | A | C | C | T | G | C | G | G | G | A | T | G | T | G | T | A | A | G | G | C | G | G | A | A | T | C
CRN-29 | A | C | C | T | G | C | G | G | G | A | T | G | T | G | T | A | A | G | G | C | G | G | G | A | T | C
CRN-30 | A | C | C | T | G | C | G | G | G | A | T | G | T | G | T | A | G | G | G | C | G | G | G | A | T | C
CRN-31 | A | C | C | T | G | C | G | G | G | T | T | A | T | G | C | A | A | G | G | C | G | G | A | G | T | C
CRN-32 | A | C | C | T | G | T | G | G | G | A | T | A | T | G | C | A | G | G | G | C | G | A | A | G | T | A
CRN-33 | A | C | C | T | G | T | G | G | G | A | T | A | T | G | C | A | G | G | G | C | G | A | A | G | T | C
CRN-34 | A | C | T | T | G | C | C | G | G | A | T | A | T | G | C | A | A | G | G | C | G | G | G | A | T | C
CRN-35 | A | T | C | T | G | C | G | G | G | A | T | A | T | G | C | A | G | G | G | C | G | A | A | G | T | C
CRN-36 | G | C | C | T | G | C | G | G | G | A | T | A | T | G | C | A | G | G | G | C | G | G | G | A | T | C
[NAME]
SNP type | N | S | N | N | S | N | N | N | N | S | N | N | N | S | N | S | S | N | N | S | N | N | N
SNP coordinate | 107 | 177 | 185 | 288 | 594 | 620 | 643 | 667 | 709 | 945 | 1045 | 1062 | 1135 | 1206 | 1237 | 1272 | 1281 | 1322 | 1363 | 1365 | 1371 | 1430 | 1539
[NAME]
PMS1-1 | C | C | G | T | G | T | G | T | A | A | C | T | G | T | G | C | A | C | G | C | A | T | G
PMS1-2 | G | C | C | T | G | T | G | C | A | C | C | T | C | C | G | C | A | C | G | C | A | T | G
PMS1-3 | G | C | C | T | G | T | G | C | A | C | C | T | C | C | G | C | A | C | G | C | T | T | G
PMS1-4 | G | C | C | T | G | T | G | C | A | C | T | T | C | C | G | C | A | C | C | C | A | T | G
PMS1-5 | G | C | C | T | G | T | G | T | A | A | T | T | C | C | G | C | A | C | G | C | A | A | G
PMS1-6 | G | C | C | T | G | T | G | T | A | A | T | T | C | C | G | C | A | C | G | C | A | T | G
PMS1-7 | G | C | C | T | G | T | G | T | A | C | C | T | C | C | G | T | A | C | G | C | A | A | G
PMS1-8 | G | C | G | A | G | T | G | C | A | C | C | T | C | C | G | C | A | C | G | C | A | T | G
PMS1-9 | G | C | G | T | A | T | G | C | A | C | C | T | C | C | G | C | A | C | G | C | T | T | G
PMS1-10 | G | C | G | T | G | C | G | T | A | C | C | T | C | C | G | C | A | C | G | C | T | T | G
PMS1-11 | G | C | G | T | G | T | A | T | A | C | C | T | C | C | G | C | A | C | G | C | A | A | G
PMS1-12 | G | C | G | T | G | T | A | T | A | C | C | T | C | C | G | C | A | C | G | C | A | A | T
PMS1-13 | G | C | G | T | G | T | A | T | A | C | C | T | C | C | G | C | A | C | G | C | A | T | G
PMS1-14 | G | C | G | T | G | T | A | T | A | C | C | T | C | C | G | C | A | C | G | C | T | A | G
PMS1-15 | G | C | G | T | G | T | A | T | A | C | C | T | C | C | G | C | A | C | G | C | T | T | G
PMS1-16 | G | C | G | T | G | T | A | T | A | C | C | T | C | C | G | C | A | T | G | C | T | T | G
PMS1-17 | G | C | G | T | G | T | G | C | A | A | C | T | C | C | G | C | A | C | G | C | T | T | G
PMS1-18 | G | C | G | T | G | T | G | C | A | A | C | T | C | C | G | C | A | C | G | C | T | T | T
PMS1-19 | G | C | G | T | G | T | G | C | A | C | C | T | C | C | A | C | A | C | G | C | T | T | G
PMS1-20 | G | C | G | T | G | T | G | C | A | C | C | T | C | C | G | C | A | C | G | A | T | T | G
PMS1-21 | G | C | G | T | G | T | G | C | A | C | C | T | C | C | G | C | A | C | G | C | A | A | G
PMS1-22 | G | C | G | T | G | T | G | C | A | C | C | T | C | C | G | C | A | C | G | C | A | A | T
PMS1-23 | G | C | G | T | G | T | G | C | A | C | C | T | C | C | G | C | A | C | G | C | A | T | G
PMS1-24 | G | C | G | T | G | T | G | C | A | C | C | T | C | C | G | C | A | C | G | C | T | A | G
PMS1-25 | G | C | G | T | G | T | G | C | A | C | C | T | C | C | G | C | A | C | G | C | T | A | T
PMS1-26 | G | C | G | T | G | T | G | C | A | C | C | T | C | C | G | C | A | C | G | C | T | T | G
PMS1-27 | G | C | G | T | G | T | G | C | A | C | C | T | C | C | G | C | A | C | G | C | T | T | T
PMS1-28 | G | C | G | T | G | T | G | T | A | A | C | T | C | C | G | C | A | C | G | C | A | T | G
PMS1-29 | G | C | G | T | G | T | G | T | A | A | C | T | C | T | G | C | A | C | G | C | A | T | G
PMS1-30 | G | C | G | T | G | T | G | T | A | A | T | T | C | C | G | C | A | C | G | C | A | T | G
PMS1-31 | G | C | G | T | G | T | G | T | A | C | C | T | C | C | G | C | A | C | G | C | A | A | T
PMS1-32 | G | C | G | T | G | T | G | T | A | C | C | T | C | C | G | C | A | C | G | C | A | T | G
PMS1-33 | G | C | G | T | G | T | G | T | A | C | C | T | C | T | G | C | A | C | G | C | A | T | G
PMS1-34 | G | C | G | T | G | T | G | T | C | A | C | T | C | C | G | C | A | C | G | C | A | T | G
PMS1-35 | G | T | G | T | G | T | G | T | A | A | C | G | C | T | G | C | A | C | G | C | A | T | G
PMS1-36 | G | T | G | T | G | T | G | T | A | A | C | T | C | T | G | C | A | C | G | C | A | T | G
PMS1-37 | G | T | G | T | G | T | G | T | A | A | C | T | C | T | G | C | G | C | G | C | A | T | G
C. Mlh1a
SNP type | N | N | S | S | S | N | S | N | S | N | N | N | N | N | N | N | S | N | N | N | N | N | N | N | N | N | N | S | N | N | N | N | S | S | N | N | N | N | S
SNP coordinate | 164 | 261 | 375 | 453 | 492 | 550 | 648 | 706 | 786 | 797 | 914 | 1107 | 1177 | 1236 | 1283 | 1285 | 1302 | 1352 | 1372 | 1430 | 1445 | 1448 | 1462 | 1467 | 1473 | 1624 | 1719 | 1752 | 1771 | 1978 | 1988 | 2038 | 2091 | 2175 | 2225 | 2239 | 2254 | 2255 | 2283
[NAME]
Mlh1a-1 | C | C | C | C | G | G | C | A | T | A | C | G | T | T | T | A | C | C | G | T | G | A | A | C | T | C | T | C | A | A | C | G | T | A | T | T | A | T | T
Mlh1a-2 | C | C | C | C | T | G | C | A | T | A | C | G | T | T | C | G | C | T | G | T | G | A | A | C | T | C | T | C | A | A | C | A | T | A | C | C | A | T | C
Mlh1a-3 | C | C | C | C | T | G | C | A | T | A | C | G | T | T | T | A | C | C | G | T | G | A | A | C | T | C | T | C | A | A | C | G | T | A | T | C | A | T | C
Mlh1a-4 | C | C | C | C | T | G | C | A | T | A | C | G | T | T | T | A | C | C | G | T | G | A | A | C | T | C | T | C | A | A | C | G | T | A | T | C | A | T | T
Mlh1a-5 | C | C | C | C | T | G | C | A | T | A | C | G | T | T | T | A | C | C | G | T | G | A | A | C | T | T | T | C | A | A | C | G | T | A | T | C | A | T | T
Mlh1a-6 | C | C | C | C | T | G | C | A | T | A | C | G | T | T | T | A | C | T | G | T | G | A | A | C | T | C | T | C | A | A | C | G | T | A | T | C | A | T | T
Mlh1a-7 | C | C | C | C | T | G | C | A | T | A | C | T | T | T | T | A | C | C | G | T | G | A | A | C | T | C | T | C | A | A | C | G | T | A | T | C | A | T | C
Mlh1a-8 | C | C | C | C | T | G | C | A | T | A | C | T | T | T | T | A | C | C | G | T | G | A | A | C | T | C | T | C | A | A | C | G | T | A | T | T | A | T | T
Mlh1a-9 | C | C | C | C | T | G | C | G | T | A | C | G | T | T | T | A | C | C | G | T | G | A | A | C | T | C | T | C | A | A | C | A | T | A | T | C | A | T | C
Mlh1a-10 | C | C | C | C | T | G | T | A | C | A | T | G | T | T | T | A | C | C | G | T | G | A | A | C | T | C | T | C | A | A | C | G | C | A | T | C | A | T | C
Mlh1a-11 | C | C | C | C | T | G | T | A | T | A | C | G | A | T | T | A | C | C | G | T | G | A | A | C | A | C | T | T | A | A | C | G | T | A | T | C | A | A | T
Mlh1a-12 | C | C | C | C | T | G | T | A | T | A | C | G | T | T | C | G | C | T | G | T | G | A | A | C | T | C | T | C | A | A | C | A | T | A | C | C | A | T | C
Mlh1a-13 | C | C | C | C | T | G | T | A | T | A | C | G | T | T | C | G | C | T | G | T | G | A | A | C | T | C | T | C | A | A | C | G | T | A | T | C | A | T | C
Mlh1a-14 | C | C | C | C | T | G | T | A | T | A | C | G | T | T | T | A | C | C | A | T | A | T | A | C | T | C | T | C | A | T | C | G | T | A | T | C | A | T | C
Mlh1a-15 | C | C | C | C | T | G | T | A | T | A | C | G | T | T | T | A | C | C | G | T | A | T | A | C | T | C | T | C | A | A | C | G | T | A | T | C | A | T | T
Mlh1a-16 | C | C | C | C | T | G | T | A | T | A | C | G | T | T | T | A | C | C | G | T | G | A | A | C | T | C | A | C | A | A | C | G | T | A | T | C | A | T | T
Mlh1a-17 | C | C | C | C | T | G | T | A | T | A | C | G | T | T | T | A | C | C | G | T | G | A | A | C | T | C | T | C | A | A | C | G | T | A | T | C | A | T | C
Mlh1a-18 | C | C | C | C | T | G | T | A | T | A | C | G | T | T | T | A | C | C | G | T | G | A | A | C | T | C | T | C | A | A | C | G | T | A | T | C | A | T | T
Mlh1a-19 | C | C | C | C | T | G | T | A | T | A | C | G | T | T | T | A | C | C | G | T | G | A | A | C | T | C | T | C | A | A | C | G | T | A | T | T | A | T | T
Mlh1a-20 | C | C | C | C | T | G | T | A | T | A | C | G | T | T | T | A | C | C | G | T | G | A | A | C | T | C | T | C | A | A | C | G | T | A | T | T | G | T | T
Mlh1a-21 | C | C | C | C | T | G | T | A | T | A | C | G | T | T | T | A | T | C | G | T | G | A | A | C | T | C | T | C | A | A | C | G | T | A | T | C | A | T | T
Mlh1a-22 | C | C | C | T | T | A | C | G | T | A | C | G | T | A | T | A | C | C | G | T | G | A | A | C | T | C | T | C | A | A | C | G | T | A | C | C | A | T | C
Mlh1a-23 | C | C | C | T | T | A | C | G | T | A | C | G | T | T | C | G | C | T | G | T | G | A | A | C | T | C | T | C | A | A | C | G | T | A | C | C | A | T | C
Mlh1a-24 | C | C | C | T | T | A | C | G | T | A | C | G | T | T | T | A | C | C | G | T | G | A | A | C | T | C | T | C | A | A | C | G | T | A | C | C | A | T | C
Mlh1a-25 | C | C | C | T | T | G | C | A | T | A | C | G | T | T | C | A | C | T | G | C | G | A | A | C | T | C | T | C | A | A | C | G | T | A | C | C | A | T | C
Mlh1a-26 | C | C | C | T | T | G | C | A | T | A | C | G | T | T | C | A | C | T | G | T | G | A | A | C | T | C | T | C | A | A | C | A | T | A | C | C | A | A | C
[NAME] | C | C | C | T | T | G | C | A | T | A | C | G | T | T | C | A | C | T | G | T | G | A | A | C | T | C | T | C | A | A | C | G | T | A | C | C | A | T | C
Mlh1a-28 | C | C | C | T | T | G | C | A | T | A | C | G | T | T | C | A | C | T | G | T | G | A | A | C | T | C | T | C | A | A | C | G | T | A | T | C | A | T | T
Mlh1a-29 | C | C | C | T | T | G | C | A | T | A | C | G | T | T | C | G | C | T | G | T | G | A | A | C | T | C | T | C | A | A | C | A | T | A | C | C | A | T | C
Mlh1a-30 | C | C | C | T | T | G | C | A | T | A | C | G | T | T | C | G | C | T | G | T | G | A | A | C | T | C | T | C | A | A | C | G | T | A | T | C | A | T | T
Mlh1a-31 | C | C | C | T | T | G | C | A | T | A | C | G | T | T | C | G | C | T | G | T | G | A | A | C | T | C | T | C | G | A | C | A | T | A | C | C | A | T | C
Mlh1a-32 | C | C | C | T | T | G | C | A | T | A | C | G | T | T | T | A | C | C | G | T | G | A | A | C | T | C | T | T | A | A | C | G | T | A | T | C | A | T | C
Mlh1a-33 | C | C | C | T | T | G | C | G | T | A | C | G | T | T | C | A | C | T | G | T | G | A | A | C | T | C | T | C | A | A | C | A | T | A | C | C | A | T | C
Mlh1a-34 | C | C | C | T | T | G | C | G | T | A | C | G | T | T | C | A | C | T | G | T | G | A | A | C | T | C | T | C | A | A | C | G | T | A | C | C | A | T | C
Mlh1a-35 | C | C | C | T | T | G | C | G | T | A | C | G | T | T | T | A | C | C | G | T | G | A | A | C | T | C | T | C | A | A | C | G | T | G | C | C | A | T | C
Mlh1a-36 | C | C | T | C | T | G | T | A | T | A | C | G | T | T | T | A | C | C | G | T | G | A | A | C | T | C | T | C | A | A | C | G | T | A | T | C | A | T | T
Mlh1a-37 | C | G | C | C | T | G | C | G | T | G | C | G | T | T | T | A | C | C | G | T | G | A | A | C | T | C | T | C | A | A | C | G | T | A | T | C | A | T | T
Mlh1a-38 | T | C | C | C | T | G | C | A | T | A | C | G | T | T | T | A | C | C | G | T | A | T | G | A | T | C | A | C | A | T | C | G | T | A | T | C | A | T | C
Mlh1a-39 | T | C | C | C | T | G | C | A | T | A | C | G | T | T | T | A | C | C | G | T | G | A | A | C | T | C | T | C | A | A | C | G | T | A | T | C | A | T | C
Mlh1a-40 | T | C | C | C | T | G | C | A | T | A | C | G | T | T | T | A | C | C | G | T | G | A | A | C | T | C | T | C | A | A | C | G | T | A | T | C | A | T | T
Mlh1a-41 | T | C | C | C | T | G | C | A | T | A | C | G | T | T | T | A | C | C | G | T | G | A | A | C | T | C | T | C | A | A | T | G | T | A | C | C | A | T | C
SNP haplotypes for unique alleles of the three single copy genes used in this study. (A) 36 TVAG_021420 (coronin, CRN)   alleles identified from 202 T. vaginalis isolates (B) 37 TVAG_005070 (DNA mismatch repair homolog, postmeiotic segregation increased-1 (PMS1)) alleles from 144 T. vaginalis isolates; and (C) 41)), TVAG_302400 (DNA mismatch repair protein homolog, MutL1a (Mlh1a)) alleles from 110 T. vaginalis isolate.  N: nonsynonymous SNP; S: synonymous SNP.