Table 1. Haplogroup determination and mtDNA genomic coverage for Huaca Pucllana samples.
| # | Sample number | Culture | Haplogroup | Coverage of the mitogenome | Average coverage depth per position (min–max) | StdDev | Additional mutations from the hg node | GenBank accession number |
|---|---|---|---|---|---|---|---|---|
| 1 | 10791 | Lima | A2 | 100% | 122.7 (1–59) | 13.5 | C64T, 356.1C, T1189C, A5222G, T15289C, G16129A!, T16189C! | KU523266 |
| 2 | 10814 | Lima | B2 | 100% | 164.6 (9–186) | 14.3 | T2857C, T5082C, T5277C, A15924G, T16330C | KU523287 |
| 3 | 10802 | Lima | B2 | 100% | 63.4 (1–105) | 14.4 | C16168T | KU523286 |
| 4 | 10789 | Lima | B2b | 100% | 100.2 (5–141) | 15.1 | G6261A, G9055A, A12972G, A14053G | KU523283 |
| 5 | 10817 | Lima | C1b | 100% | 132.2 (5–169) | 16.4 | A9468G, C12535T, T15313C, A16166C, T16223C | KU523324 |
| 6 | 10820 | Lima | C1b | 100% | 84.6 (1–135) | 15.8 | A9468G, C12535T, T15313C, A16166C, T16223C | KU523325 |
| 7 | 10806 | Lima | C1c | 100% | 73.4 (1–117) | 17.1 | T152C!, 7472d, T8450C, C12774T, T16172C, T16297C | KU523322 |
| 8 | 10811 | Lima | D4/ Pre-D1/D1 | 99. 99% | 50.4 (0–97) | 14.9 | G143A, T2092C!, A6113G, T16189C!, G16274A, C16365T | KU523345 |
| 9 | 10821 | Lima | B2 | 100% | 98.2 (1–149) | 19.9 | T146C!,T3786C, A8170G, G15777A | KU523288 |
| 10 | 10774 | Wari | A2 | 100% | 67.7 (1–115) | 18.1 | C64T, A675G, A3354, T6911C, A13966G, C14800A, G16145A | KU523264 |
| 11 | 10754 | Wari | B2b | 100% | 48.8 (1–99) | 17 | A243G, C4013T, G8994A, G11016A, G12127A, A14059G, G16438A | KU523282 |
| 12 | 10734 | Wari | C1b | 100% | 59.8 (1–104) | 17.3 | C12535T, T15313C, A16166C, G16244T | KU523317 |
| 13 | 10763 | Wari | C1b | 99.90% | 20.7 (0–55) | 9 | C12535T, T15313C | KU523318 |
| 14 | 10771 | Wari | C1b | 98.80% | 18.2 (0–50) | 8.2 | A9468G, C12535T, T15313C, A16166C | KU523320 |
| 15 | 10773 | Wari | C1b | 100% | 78.0 (0–119) | 15.2 | T8380C, T13281C, A13710C, A15244G, C15315T, A16207G | KU523321 |
| 16 | 10778 | Wari | A2 | 97.60% | 20.5 (0–100) | 15.6 | C64T, T1189C, T3786C, A5222G, C5765T, A7673G, T8738C, T15289C, C16221T, G12127A | KU523265 |
| 17 | 10765 | Wari | C1b | 99.80% | 105.2 (0–340) | 62.5 | C12535T, T15313C, A16166C, G16244T | KU523319 |
| 18 | 10750 | Wari | B2b | 98.70% | 22.3 (0–97) | 16.7 | T152C!, G1797A, A9377G, G12127A, A14053G, C14428T | KU523281 |
| 19 | 10742 | Wari | B2b | 100% | 84.3 (0–248) | 40.2 | A178G, A6779G, A10420G, C16278T! C16295T | KU523280 |
| 20 | 10713 | Ychsma | B2 | 100% | 109.5 (2–163) | 21.9 | 573.1C, A5186G, C5375T, C5895T, G15884A | KU523276 |
| 21 | 10729 | Ychsma | B2 | 100% | 101.6 (0–171) | 24.8 | T152C!, A2880G, C7786T, C13934T, A16051G, C16360T | KU523279 |
| 22 | 10720 | Ychsma | B2b | 100% | 171.6 (19–191) | 14.4 | G6261A, G9055A, A14053G, C15647T | KU523277 |
| 23 | 10726 | Ychsma | B2b | 99.96% | 38.5 (0–88) | 14.7 | G143A, T9078C, G10530A, A14053G, G16390A | KU523278 |
| 24 | 10709 | Ychsma | C1b | 100% | 146.6 (0–176) | 18.1 | C12535T, T15313C | KU523313 |
| 25 | 10717 | Ychsma | C1b | 100% | 175 (18–191) | 11.9 | C150T, T152C!, C12535T, T15313C, C16292T | KU523314 |
| 26 | 10725 | Ychsma | C1b | 100% | 177.9 (0–192) | 16.6 | C12535T, T15313C | KU523315 |
| 27 | 10731 | Ychsma | C1b | 100% | 182 (0–193) | 17.7 | A636G, C3442T, C4496T, G5821A, A5894C, G16000A, T16362C | KU523316 |
| 28 | 10722 | Ychsma | D1 | 100% | 140.8 (0–181) | 21 | T11365C, G11906A, T12481C, C12557T, A14665G | KU523342 |
| 29 | 10732 | Ychsma | D4/ Pre-D1/D1 | 100% | 146.6 (0–180) | 18.1 | G143A, T2092C!, A6113G, T16189C!, G16274A, C16365T | KU523343 |
| 30 | 10730 | Ychsma | B2b | 99.80% | 46.0 (0–102) | 20.2 | T131C, C4013T, G13708A, T14634C, T15784C | KU523275 |
| 31 | 10805 | Ychsma | D1 | 100% | 159.5 (7–186) | 13.1 | T11365C, G11906A, T12481C, C12557T, A14665G | KU523344 |
| 32 | 10810 | Ychsma | C1d | 99.90% | 90.3 (0–166) | 39.4 | A14122G | KU523323 |
| 33 | 10794 | Ychsma | B2 | 99.60% | 16.8 (0–54) | 8.9 | G8290A, A16066G | KU523284 |
| 34 | 10800 | Ychsma | B2b | 100% | 127.6 (4–166) | 17.2 | T131C,C4013T, G13708A, T14634C, C14873A, T15784C | KU523285 |
Additional variants from the sub-haplogroup nodes compared to RSRS [30]. We generally follow the nomenclature of Phylotree.org [31], in describing variants: Reversions (back mutations) to an ancestral state are indicated with an exclamation mark (!), while 7472d and 356.1C denotes a deletion or insertion at the given nucleotide position, respectively.