Tree Position

R-P312/S116 > Z40481 > ZZ11 > U152/S28 > L2/S139 > S14469 > FGC8158 > 11057694-G-T

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 STRBigY3
28785381-G-T 26639234-G-T +
18063236-G-A 15951356-G-A FT24018 YY+
9474214-T-G 9636605-T-G FT20428 +
9732644-G-A 9895035-G-A FT20493 IR3_Prx +
10010019-G-A 10172410-G-A BY156116 Y+
14171448-A-C 12050742-A-C FT21105 YY+
14678142-T-C 12566208-T-C FT21550 Y+
15267560-A-G 13155649-A-G FT21898 YY+
15275397-A-G 13163486-A-G FT21903 YY+
15365357-C-T 13253477-C-T FT21975 YY+
17099007-C-T 14987127-C-T YY+
17391925-C-T 15280045-C-T FT23436 YY+
17616345-T-C 15504465-T-C FT23653 YY+
17816805-C-T 15704925-C-T BY167696 YY+
18192596-G-A 16080716-G-A FT24160 YY+
8181708-A-C 8313667-A-C FT19691 YY+
18642528-A-G 16530648-A-G FT24355 YY+
18762370-C-A 16650490-C-A FT24436 YY+
18907936-T-C 16796056-T-C FT24519 YY+
18994252-C-G 16882372-C-G FT24586 YY+
19334255-A-G 17222375-A-G FT24892 YY+
21628948-G-A 19467062-G-A FT25557 YY+
21777531-C-T 19615645-C-T FT25642 YY+
21948731-G-A 19786845-G-A FGC73175 YY+
22602330-CGAGG-C 20440444-CGAGG-C +
23071838-TCTTA-T 20909952-TCTTA-T +
24889239-C-T 22743092-C-T g1 +
28558146-G-C 26411999-G-C FT27134 +
8557938-A-G 8689897-A-G FT19972 YY+
13902935-C-T 11782229-C-T FT20790 YY+
7559497-T-C 7691456-T-C FT19271 YY+
6899442-C-A 7031401-C-A FT18820 YY+
5294139-G-A 5426098-G-A FT17410 +
7554326-T-C 7686285-T-C FT19266 YY+
5231816-T-C 5363775-T-C FT17320 +
5871101-C-T 6003060-C-T FT18109 +
5877341-C-T 6009300-C-T FT18119 +
6252123-AC-A 6384082-AC-A IR3_Dst +
4557625-G-A 4689584-G-A FT16612 +
4237375-CA-C 4369334-CA-C +
3616154-C-T 3748113-C-T FT15488 +
3528437-A-C 3660396-A-C FT15382 +
5741398-T-C 5873357-T-C FT17960 +
2724075-G-A 2856034-G-A FT14590 YY+
13596631-C-A 11440955-C-A +
7293880-G-A 7425839-G-A FT19108 YY+
10788806-T-C +
21540906-C-T 19379020-C-T FT25453 YY+
14265259-T-A 12144553-T-A Y90863 YY+
7359522-C-T 7491481-C-T FT19164 YY+
5336450-T-C 5468409-T-C FT17459 +
22340438-A-T 20178552-A-T DYZ19 *
6826834-T-C 6958793-T-C S190S3028 Z633 FGC3177 Z36425 YY*
6826854-T-C 6958813-T-C Z14863 YY*
6826864-C-T 6958823-C-T FT12507 YY*
10684924-C-CTCCAT *
16912569-T-G 14800689-T-G **
25856758-G-T 23710611-G-T P1_Y1 **
25856753-G-T 23710606-G-T P1_Y1 **
9411036-T-G 9573427-T-G **
22620998-A-G 20459112-A-G **
9730973-A-G 9893364-A-G IR3_Prx **
21467845-C-T 19305959-C-T **
16470622-G-A 14358742-G-A **
19424446-G-T 17312566-G-T **
15029887-T-TA 12917975-T-TA **
13420557-G-C 11264881-G-C **
17697398-C-T 15585518-C-T **
8389569-CTTTTT-C,CTTTT 8521528-CTTTTT-C,CTTTT 25×T***
12371950-CAA-C,CA ***
21523762-CA-C,CAA 19361876-CA-C,CAA 15×A***
18683522-GA-G 16571642-GA-G 10×A***
3640829-T-C 3772788-T-C ***
7164467-CAAA-C,CA 7296426-CAAA-C,CA 24×A***
17839766-G-T 15727886-G-T ***
7347377-G-T 7479336-G-T ***
15906051-A-G 13794171-A-G ***
17797457-A-G 15685577-A-G ***
16432114-A-G 14320234-A-G ***
22548112-G-A 20386226-G-A ***

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.

Age Analysis Information (work in progress)

Kit: 4024581503449494154998328920
Used in age calculations1503449494154998328920
Counts of SNPs3432
Variant counts last updated 2020-07-03 02:52:00.

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