Tree Position

A0-T-YP2191 > P305[A1] > A1b > BT/A1b2 > M168/PF1416[CT] > P143[CF] > M89/PF2746[F] > F1329/M3658[GHI > F929[HIJK] > IJK > K > M526[K2] > P295[P] > M242[Q] > L275 > Exact position not yet finalized.

Unique Mutations

The mutations unique to this man are summarized in the table below. Those with a '+' or '*' confidence level are considered by FamilyTreeDNA or FullGenomesCorp to be high quality SNPs/INDELs. For completeness, all other mutations of lesser confidence are included as well. These additional mutations may be useful for distinguishing between very closely related men.

Occasionally, some of the mutations listed here will be thought to be shared with other men in which case they might appear in upstream blocks on the tree. When this happens, the 'Blocks' field will indicate what block they appear in. Such a situation might arise with BigY men if the BED data suggests another man may be positive for a SNP, even though it doesn't appear in his VCF data. It might also happen if Chromo2 testing or Sanger sequencing of other men not on the tree show the SNP to be shared.

POS-REF-ALT (hg19) POS-REF-ALT (hg38) Blocks Names Region McDonald BED combBED STR1kG
HG03652
15364534-C-A 13252654-C-A BZ3070 Y24179 YY+
13143856-A-ACTCT 10633342-A-ACTCT +
3730202-C-G 3862161-C-G FT318287 +
4160248-G-A 4292207-G-A Y15624 +
4225539-G-C 4357498-G-C +
4414379-A-C 4546338-A-C FT320565 +
4435377-G-A 4567336-G-A FT320639 +
4563872-C-G 4695831-C-G FT321049 +
5039925-A-G 5171884-A-G FT322515 +
5698478-C-T 5830437-C-T +
6502668-A-G 6634627-A-G +
6782122-G-A 6914081-G-A FTA9486 YY+
6894817-G-A 7026776-G-A F853 YY+
6907241-A-T 7039200-A-T YP754 YY+
7023447-G-A 7155406-G-A Z36065 Y+
7207321-A-G 7339280-A-G Z36066 YY+
7406138-G-A 7538097-G-A YP755 YY+
8154592-C-T 8286551-C-T Y15680 Z36068 YY+
8154602-G-T 8286561-G-T YP3944 Z36069 YY+
8362675-G-A 8494634-G-A YY+
8457561-T-C 8589520-T-C FT311067 YY+
8678500-C-G 8810459-C-G FT311155 Y+
8781774-A-G 8913733-A-G FT311205 YY+
9004617-C-T 9167008-C-T FT311289 Y+
9829669-T-G 9992060-T-G FT311386 YY+
13198457-C-A 11042781-C-A +
13630840-A-C 11475164-A-C +
13657284-A-G 11501608-A-G YP3945 +
13799062-A-C 11678356-A-C +
13816049-A-G 11695343-A-G FT328481 +
13865301-C-A 11744595-C-A YP3940 +
13951517-A-T 11830811-A-T FT311464 Y+
14004156-T-G 11883450-T-G FT311501 YY+
14044496-C-T 11923790-C-T Y65832 YY+
14359707-G-A 12239002-G-A YY+
14440376-T-C 12319649-T-C YP3942 Y+
14512256-C-T 12400461-C-T FT311818 Y+
15092587-C-T 12980676-C-T Y24178 YY+
15909356-T-C 13797476-T-C YY+
16015605-T-C 13903725-T-C FT312443 Y+
16264317-G-A 14152437-G-A FT312522 YY+
16477700-G-A 14365820-G-A Y51914 YY+
16508420-T-G 14396540-T-G FT312642 YY+
16520565-C-A 14408685-C-A FT312653 YY+
16690784-T-G 14578904-T-G FT312718 YY+
16700362-C-T 14588482-C-T YY+
16755240-A-G 14643360-A-G YP3946 Z3946 YY+
16852041-C-T 14740161-C-T BY110580 YY+
16931520-T-A 14819640-T-A FT312820 Y+
17077545-T-C 14965665-T-C YP757 YY+
17114258-C-T 15002378-C-T FT312887 YY+
17129904-G-A 15018024-G-A FT312890 YY+
17144700-G-C 15032820-G-C FT312895 YY+
18719023-T-C 16607143-T-C FT313568 YY+
18933374-G-A 16821494-G-A FT313660 YY+
21282090-C-T 19120204-C-T FGC60880 YY+
21308815-T-C 19146929-T-C FT314107 YY+
21582518-G-A 19420632-G-A FT314266 Y+
21657604-C-T 19495718-C-T FT314297 YY+
22136625-T-C 19974739-T-C FT314507 YY+
22442526-C-A 20280640-C-A BZ50023 DYZ19 +
22483639-G-A 20321753-G-A YP758 DYZ19 +
22485642-C-A 20323756-C-A BY224714 DYZ19 +
22534639-G-A 20372753-G-A Y+
22698462-A-G 20536576-A-G FT314637 YY+
22761842-A-T 20599956-A-T YP3949 YY+
23194644-G-A 21032758-G-A FT314880 Y+
23364421-C-T 21202535-C-T FT314946 YY+
23461676-G-A 21299790-G-A YP759 YY+
23640542-T-C 21478656-T-C FT332425 Y+
23888216-A-G 21726330-A-G Y+
24005317-A-G 21859170-A-G Y+
28533617-G-A 26387470-G-A +
58991468-T-C 56845321-T-C +

In the table above, the meaning of the confidence field depends on whether the data comes from an FTDNA kit or an FGC kit. For FTDNA kits, + implies a "PASS" result with just one possible variant, * indicates a "PASS" but with multiple variants, ** indicates "REJECTED" with just a single variant, and *** indicates "REJECTED" with multiple possible variants. 'A*' are heterozygous variants not called by FTDNA, but still pulled from the VCF file. For FGC kits, + indicates over 99% likely genuine (95% for INDELs); * over 95% likely genuine (90% for INDELs); ** about 40% likely genuine; *** about 10% likely genuine. Manual entries read directly from a BAM file will be either + indicating positive, or * indicating that the data show a mixture of possible variants.

For the FTDNA kits, the BED data is encoded in the background color of the cells. Those cells with a white background have coverage, those with a grey background indicate no coverage in the BED file, and those with a pink background indicate the mutation is on the edge of a coverage region. These pink regions often indicate that the individual may be positive for a SNP even if there is no corresponding entry in the vcf file.

The combBED column indicates whether or not the mutation is a SNP and falls in the combBED region defined in Defining a New Rate Constant for Y-Chromosome SNPs based on Full Sequencing Data by Dmitry Adamov, Vladimir Guryanov, Sergey Karzhavin, Vladimir Tagankin, Vadim Urasin.

The McDonald BED column indicates whether or not the mutation is a SNP and falls in the BED region used by Dr. Iain McDonald in the age analysis he does for R-U106 men.