Tree Position

R-P312/S116 > Z40481 > ZZ11 > DF27/S250 > Z195/S355 > Z272 > S450 > Z295/S1217 > S25783 > CTS4065 > 15548847GACAC-G > FGC15710 > CTS10029 > BY3190 > FGC29721 > FT33763

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
B413268
13449582-C-G 11293906-C-G A*
21148719-A-AT 18986833-A-AT 10×TA*
6235755-C-A 6367714-C-A IR3_Dst A*
3453531-A-G 3585490-A-G A*
18316888-G-A 16205008-G-A P6_Prx A*
19637143-C-A 17525263-C-A P5_Prx A*
19659794-G-T 17547914-G-T P5_Prx A*
19683534-A-G 17571654-A-G P5_Prx A*
19911807-G-C 17799927-G-C P5_Prx A*
20719694-C-A 18557808-C-A P4_Prx A*
20645123-A-AT 18483237-A-AT P4_Prx 9×TA*
28816581-G-A 26670434-G-A A*
23176648-C-G 21014762-C-G YA*
26293546-A-G 24147399-A-G P1_Y1 A*
15740482-G-A 13628602-G-A FT128784 Y+
14363906-G-A 12243201-G-A FT128636 YY+
17032615-G-A 14920735-G-A FT128928 YY+
15394786-C-T 13282906-C-T FT128738 Y+
16484303-T-C 14372423-T-C FT128864 YY+
7032158-G-A 7164117-G-A FT128317 Y+
7160033-A-G 7291992-A-G FT36417 YY+
8411354-TG-T 8543313-TG-T +
7340054-T-G 7472013-T-G FT128343 Y+
8820598-C-G 8952557-C-G FT128488 YY+
15604955-A-G 13493075-A-G FT128765 YY+
10805732-A-T +
17385682-G-A 15273802-G-A FT128968 YY+
9965787-C-T 10128178-C-T Y+
8524743-A-G 8656702-A-G FT128460 YY+
5067990-T-C 5199949-T-C FT128116 +
9127093-G-A 9289484-G-A FT128512 Y+
15035916-C-G 12924004-C-G FT128701 YY+
22861793-A-G 20699907-A-G FT129332 YY+
17502351-G-A 15390471-G-A FT128987 Y+
17556197-G-A 15444317-G-A FT128990 YY+
19211902-C-T 17100022-C-T Z9514 YY+
17825564-C-T 15713684-C-T FT129013 Y+
15383887-C-T 13272007-C-T FT128735 YY+
17840163-C-A 15728283-C-A FT181226 YY+
13688939-T-A 11533263-T-A +
3864920-AT-A 3996879-AT-A +
20921003-G-A 18759117-G-A P4_Dst +
21888978-T-C 19727092-T-C FT129262 YY+
56841938-G-A *
26013383-A-G 23867236-A-G P1_Y1 **
17390064-T-A 15278184-T-A **
22633867-T-C 20471981-T-C **
22245524-T-G 20083638-T-G DYZ19 **
16996982-T-C 14885102-T-C **
17026883-T-TG 14915003-T-TG **
19155825-T-C 17043945-T-C **
24008-AT-A **
6260318-A-C 6392277-A-C IR3_Dst **
4729739-G-A 4861698-G-A **
14256381-G-C 12135675-G-C **
24624535-TTG-T 22478388-TTG-T P3_t2 10×TG**
6525768-C-CA 6657727-C-CA 24×A**
6260304-G-C 6392263-G-C IR3_Dst **
8901018-T-A 9032977-T-A **
15297284-ATTTTT-A 13185383-ATTTTT-A 27×T**
6260299-T-A 6392258-T-A IR3_Dst **
6260304-G-GAT 6392263-G-GAT IR3_Dst **
4237208-C-G 4369167-C-G ***
27482688-A-G 25336541-A-G P1_Y2 ***
3963833-C-CA 4095792-C-CA 22×A***
19510264-CTTT-C 17398384-CTTT-C 27×T***
7379610-CT-C 7511569-CT-C 11×T***
22436590-T-C 20274704-T-C BY189604 DYZ19 ***
22271570-T-A 20109684-T-A DYZ19 ***
28581630-GATATAT-G,GAT 26435483-GATATAT-G,GAT 19×AT***
4191423-A-G 4323382-A-G ***
22767501-TAAA-T 20605615-TAAA-T 17×A***
14566770-C-CAA 12454970-C-CAA 13×A***
13339020-A-T 11183344-A-T ***
28764026-C-CA 26617879-C-CA 10×A***
7137292-C-CAT 7269251-C-CAT ***
13481660-C-A 11325984-C-A ***
5147441-CAA-C 5279400-CAA-C 30×A***
6532451-C-G 6664410-C-G FT326838 ***
18589693-T-C 16477813-T-C ***
13481636-C-T 11325960-C-T ***
13481650-T-A 11325974-T-A ***
22540529-T-C 20378643-T-C ***
4983777-CTTTTTT-C,CTTTTT 5115736-CTTTTTT-C,CTTTTT 22×T***
5387430-CAAA-C,CA 5519389-CAAA-C,CA 18×A***
6485445-G-GTA 6617404-G-GTA ***
13481642-G-A 11325966-G-A BY86080 ***
13481626-T-C 11325950-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.

Age Analysis Information (work in progress)

AllMcDonaldYFull
Kit: B4132681511428994563758358140
Used in age calculations1511428994563758358140
Counts of SNPs2316
Variant counts last updated 2020-06-22 02:44:43.



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