Tree Position

R-P312/S116 > Z40481 > ZZ11 > DF27/S250 > ZZ12 > ZZ51 > DF83 > Z2563 > 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 STRBigY3
13864179-T-A 11743473-T-A BY186972 +
19313336-T-A 17201456-T-A BY188026 YY+
6074090-T-A 6206049-T-A FT8175 +
21612679-T-C 19450793-T-C BY188211 YY+
14506379-C-A 12394584-C-A FT9303 YY+
21317068-A-G 19155182-A-G FT31906 YY+
21315483-T-A 19153597-T-A BY188147 YY+
7555178-C-G 7687137-C-G BY186420 YY+
8238992-C-T 8370951-C-T BY186609 YY+
8373923-T-C 8505882-T-C BY186636 YY+
8624317-C-A 8756276-C-A BY186726 YY+
8708869-A-G 8840828-A-G BY186749 YY+
19500416-G-A 17388536-G-A BY188067 YY+
18075691-G-C 15963811-G-C BY187785 YY+
21741494-C-G 19579608-C-G BY188230 YY+
17174429-C-A 15062549-C-A BY187578 YY+
13232853-C-T 11077177-C-T BY210056 +
17127705-A-G 15015825-A-G BY187571 YY+
17082763-G-T 14970883-G-T BY187564 YY+
16232562-C-A 14120682-C-A FT9669 YY+
13814322-G-T 11693616-G-T BY186949 +
15860458-G-A 13748578-G-A BY187350 YY+
15181445-T-C 13069531-T-C BY187233 YY+
14612226-T-A 12500432-T-A BY211500 YY+
14203060-T-C 12082354-T-C FT9185 YY+
5432285-T-G 5564244-T-G FT7901 +
6447172-A-G 6579131-A-G FT8237 +
4400714-C-T 4532673-C-T FGC25031 +
22460015-T-A 20298129-T-A BY32501 DYZ19 +
28618362-G-T 26472215-G-T FT11390 Y+
23442554-A-C 21280668-A-C FT11176 YY+
22952709-G-A 20790823-G-A BY188515 YY+
22943765-G-A 20781879-G-A BY188512 YY+
6888466-A-G 7020425-A-G BY186312 YY+
3629619-G-A 3761578-G-A FT7102 +
22461807-G-A 20299921-G-A BY220752 DYZ19 +
14391869-G-C 12271165-G-C FT9268 YY+
13820229-G-A 11699523-G-A BY40044 +
18423031-C-T 16311151-C-T BY207791 P6_Gap +
22228733-T-G 20066847-T-G BY188338 DYZ19 +
15729241-G-T 13617361-G-T FT9575 YY+
2809777-C-T 2941736-C-T BY186194 YY+
18743597-T-TCTAC 16631717-T-TCTAC *
25511125-A-G 23364978-A-G P1_gr1 *
3413717-G-A 3545676-G-A *
13691970-AG-A 11536294-AG-A *
22234037-A-T 20072151-A-T DYZ19 *
22275792-C-T 20113906-C-T DYZ19 *
22302058-G-T 20140172-G-T DYZ19 *
3249466-T-TTG 3381425-T-TTG 17×TG*
13713217-TG-T 11557541-TG-T *
14569611-T-C 12457811-T-C **
28724467-C-T 26578320-C-T BY188746 **
26101326-G-T 23955179-G-T P1_Y1 **
17030673-C-T 14918793-C-T **
17030672-G-A 14918792-G-A **
18130483-C-A 16018603-C-A BY187803 **
17061488-A-G 14949608-A-G **
20645041-G-T 18483155-G-T P4_Prx **
17270463-T-C 15158583-T-C **
22464140-G-C 20302254-G-C BY221259 DYZ19 **
22479710-G-A 20317824-G-A BY224287 DYZ19 **
22509334-C-T 20347448-C-T BY225551 DYZ19 **
17858433-A-G 15746553-A-G **
13486660-A-G 11330984-A-G **
18846011-CAA-C 16734131-CAA-C 25×A**
13370759-T-A 11215083-T-A **
6405824-G-A 6537783-G-A FT18453 **
6642046-A-G 6774005-A-G **
6686163-A-G 6818122-A-G **
13486680-G-C 11331004-G-C **
14183071-C-T 12062365-C-T **
7713424-G-T 7845383-G-T **
10631368-G-C **
2888906-T-C 3020865-T-C **
9969392-A-AT 10131783-A-AT **
10069223-G-A 10231614-G-A **
24241286-A-AC 22095139-A-AC P3_b1 **
10631361-C-G **
14302428-G-T 12181722-G-T ***
19265590-CAGAG-C 17153710-CAGAG-C 9×AG***
18060382-ATG-A,ATC 15948502-ATG-A,ATC ***
5318972-G-GT 5450931-G-GT 10×T***
12903343-CTT-C,CT 25×T***
21104437-TAA-T,TA 18942551-TAA-T,TA 22×A***
22565462-C-CT 20403576-C-CT ***
22982164-A-C 20820278-A-C ***
23241947-CTTT-C,CT 21080061-CTTT-C,CT 27×T***
13475546-C-A 11319870-C-A ***
13475504-C-A 11319828-C-A ***
15190047-ATT-A,AT 13078133-ATT-A,AT 15×T***
23761776-CCACA-C 21599890-CCACA-C 12×CA***
5563117-T-TAC 5695076-T-TAC 16×AC***
28791226-TGGAAA-T,TGGAAT 26645079-TGGAAA-T,TGGAAT ***
22263480-A-G 20101594-A-G DYZ19 ***
20804885-GTATA-G,GTA 18642999-GTATA-G,GTA P4_Gap 15×TA***
13475519-A-G 11319843-A-G ***
13475509-G-T 11319833-G-T ***
14900644-ATT-A,ATTT 12788711-ATT-A,ATTT 27×T***
14054923-T-C 11934217-T-C ***
15317608-TG-T 13205714-TG-T ***
16021987-G-T 13910107-G-T ***
13475560-G-A 11319884-G-A ***
16290874-A-G 14178994-A-G ***
16881614-G-T 14769734-G-T ***
13475501-C-A 11319825-C-A ***
4983174-ATTT-A,AT 5115133-ATTT-A,AT 28×T***
13470088-C-T 11314412-C-T ***
13458100-C-G 11302424-C-G ***
11009113-G-A,T ***
10969946-G-C,T ***
17624675-A-G 15512795-A-G ***
17914250-TTG-T 15802370-TTG-T ***
9508531-CTTTT-C,CT 9670922-CTTTT-C,CT 25×T***
9340435-T-G 9502826-T-G ***
28813007-G-C 26666860-G-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.

Age Analysis Information (work in progress)

Kit: 1709681496119093703108312437
Used in age calculations1496119093703108312437
Counts of SNPs2829
Variant counts last updated 2019-07-19 21:39:52.

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