Tree Position

R-U106/S21 > Z2265 > Z381/S263 > Z301/S499 > L48 > Z9 > Z347 > Z328 > FGC10367 > Z319 > S1734 > FGC363 > Z81 > 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 STRFGC
567567JLA
14605071-C-G 12493273-C-G FGC372 YY+
16318491-G-A 14206611-G-A FGC374 Y+
5169682-T-A 5301641-T-A FGC366 +
7991511-G-A 8123470-G-A FGC367 YY+
8367532-C-G 8499491-C-G FGC368 YY+
8691400-G-C 8823359-G-C FGC369 YY+
14078696-G-T 11957990-G-T FGC370 YY+
14399997-T-G 12279294-T-G FGC371 YY+
15361865-A-T 13249985-A-T FGC373 YY+
17259748-C-A 15147868-C-A FGC375 Y+
3342291-T-A 3474250-T-A FGC364 +
17383554-C-A 15271674-C-A FGC376 YY+
18106025-G-C 15994145-G-C FGC377 YY+
18164753-G-A 16052873-G-A FGC378 YY+
23059975-A-G 20898089-A-G FGC384 YY+
21799701-T-G 19637815-T-G FGC379 YY+
21822553-C-A 19660667-C-A FGC380 YY+
22100015-A-C 19938129-A-C FGC381 YY+
23001361-G-T 20839475-G-T FGC383 YY+
5004457-G-C 5136416-G-C FGC365 +
22839535-T-A 20677649-T-A FGC382 Y+
18928177-TA-T 16816297-TA-T +
27546140-TC-T 25399993-TC-T FGC389 P1_Y2 *
9342740-C-G 9505131-C-G **
5474456-C-T 5606415-C-T **
28802831-A-G 26656684-A-G **
5224822-A-T 5356781-A-T **
6394153-C-A 6526112-C-A **
9342742-C-T 9505133-C-T **
9342741-T-C 9505132-T-C **
22227967-G-A 20066081-G-A DYZ19 **
13441019-A-G 11285343-A-G **
22362653-C-T 20200767-C-T DYZ19 **
21824255-C-CAAAA 19662369-C-CAAAA 30×A**
22739716-C-CAAAAAAAAA 20577830-C-CAAAAAAAAA 24×A**
25546519-T-C 23400372-T-C P1_gr1 **
23016338-C-T 20854452-C-T **
26310632-C-CTTTT 24164485-C-CTTTT P1_Y1 28×T**
22984045-T-A 20822159-T-A **
19030225-G-GT 16918345-G-GT 9×T**
13440658-T-C 11284982-T-C **
28491352-G-A 26345205-G-A **
23225335-T-C 21063449-T-C CTS11685 **
13398025-T-C 11242349-T-C FGC1090 **
9403152-A-ATGTG 9565543-A-ATGTG 14×TG**
7032333-A-ATTTTTTTTTTTT 7164292-A-ATTTTTTTTTTTT 22×T***
28815014-G-C 26668867-G-C ***
28752370-A-T 26606223-A-T ***
13489356-TGCG-GGCT 11333680-TGCG-GGCT ***
22248729-AAGG-CAGT 20086843-AAGG-CAGT DYZ19 ***
27546165-T-G 25400018-T-G P1_Y2 ***
22251449-GAGAGTGT-G 20089563-GAGAGTGT-G DYZ19 ***
13562335-CTTAC-TTTAG 11406659-CTTAC-TTTAG ***
13562698-CAGA-TGGG 11407022-CAGA-TGGG ***
13921125-C-CAAAAAAAA 11800419-C-CAAAAAAAA 10×A***
58827718-A-G 56763153-T-C ***
22309137-TTGT-GATC 20147251-TTGT-GATC DYZ19 ***
14425195-C-CAAAAA 12304470-C-CAAAAA 15×A***
14613459-C-CA 12501657-C-CA 26×T***
15468678-C-CGCAAAA 13356798-C-CGCAAAA 23×A***
23747205-C-CTT 21585319-C-CTT 29×T***
24244600-C-CTTTTT 22098453-C-CTTTTT P3_b1 19×T***
28791279-CAC-AAT 26645132-CAC-AAT ***
16321779-C-CA 14209899-C-CA 38×A***
17604931-G-GTTTT 15493051-G-GTTTT 24×T***
58823251-A-T 56767620-T-A ***
58865809-A-C 56725062-T-G ***
58847573-T-A 56743298-A-T ***
19052414-C-CAAAA 16940534-C-CAAAA 24×A***
6858592-C-CTTTTTT 6990551-C-CTTTTTT 25×T***
7199342-C-CTTTTT 7331301-C-CTTTTT 24×T***
6597340-TAAAAAAAA-T 6729299-TAAAAAAAA-T 28×A***
5563117-T-TAC 5695076-T-TAC 16×AC***
5261698-C-CAAAAAAAAAAAAAAAAAAAAAAAAAAA 5393657-C-CAAAAAAAAAAAAAAAAAAAAAAAAAAA 48×A***
5010115-A-AACAC 5142074-A-AACAC ***
4067369-T-TAAAA 4199328-T-TAAAA 26×A***
8030030-T-TAAAAAAAAAAA 8161989-T-TAAAAAAAAAAA 26×A***
58894010-A-C 56696861-T-G ***
6929158-T-TTTTTTTTTG 7061117-T-TTTTTTTTTG ***
58874493-G-C 56716378-C-G ***
17764100-AATC-A 15652220-AATC-A ***
20332111-C-CAAAAAAAAAGAAAAAAAAAAAA 18170225-C-CAAAAAAAAAGAAAAAAAAAAAA P5_Dst 30×A***
58868365-T-A 56722506-A-T ***
9935071-GTGG-ATGA 10097462-GTGG-ATGA ***
58867106-T-G 56723765-A-C ***
21115307-A-AT 18953421-A-AT ***
13222655-CAGAGGG-GAGATGA 11066979-CAGAGGG-GAGATGA ***
13478443-GCG-ACC 11322767-GCG-ACC ***
20025478-T-TCCTCCCCCCC 17913598-T-TCCTCCCCCCC P5_Prx ***
58876822-C-T 56714049-G-A ***
22361102-G-T 20199216-G-T DYZ19 ***
13364088-G-A 11208412-G-A ***
13378549-A-G 11222873-A-G ***
13722877-AGAATG-A 11567201-AGAATG-A 10×GAATG***
5453891-C-CTTTTT 5585850-C-CTTTTT 19×T***
22248784-G-GA 20086898-G-GA DYZ19 ***
22248781-TC-T 20086895-TC-T DYZ19 ***
9403521-G-GTTTTTT 9565912-G-GTTTTTT 21×T***
22248764-G-T 20086878-G-T DYZ19 ***
15171226-C-CTTTT 13059312-C-CTTTT 19×T***
22480975-TCAGT-ACACA 20319089-TCAGT-ACACA DYZ19 ***
3428687-GATATATAT-G 3560646-GATATATAT-G 22×AT***
22367518-T-A 20205632-T-A DYZ19 ***
13379995-T-C 11224319-T-C ***
22343307-A-T 20181421-A-T DYZ19 ***
22268478-A-ACG 20106592-A-ACG DYZ19 ***
9764343-A-AAAGGAAGG 9926734-A-AAAGGAAGG 10×AAGG***
58894087-T-G 56696784-A-C ***
22481742-T-A 20319856-T-A DYZ19 ***
22481715-GA-G 20319829-GA-G DYZ19 ***
22361066-C-T 20199180-C-T DYZ19 ***
22480975-T-A 20319089-T-A DYZ19 ***
22366791-C-T 20204905-C-T DYZ19 ***
22268380-T-A 20106494-T-A DYZ19 ***
27583000-CTT-C 25436853-CTT-C P1_Y2 22×T***
58972565-T-TATTCC 56826418-T-TATTCC ***
13423850-C-T 11268174-C-T ***
22357668-T-A 20195782-T-A DYZ19 ***
22251489-G-T 20089603-G-T DYZ19 ***
9191010-C-A 9353401-C-A ***
22251459-C-G 20089573-C-G DYZ19 ***
22248479-A-C 20086593-A-C DYZ19 ***
21421031-A-G 19259145-A-G ***
20025477-C-T 17913597-C-T P5_Prx ***
19937295-C-A 17825415-C-A P5_Prx ***
26463097-C-CTTTT 24316950-C-CTTTT P1_Y1 36×T***
13562691-A-C 11407015-A-C ***
13489519-A-G 11333843-A-G ***
13398064-G-T 11242388-G-T ***
13222650-G-A 11066974-G-A ***
9999793-C-T 10162184-C-T ***
7003383-C-G 7135342-C-G ***
9999653-C-T 10162044-C-T ***
6115173-G-C 6247132-G-C ***
28815103-GTAGC-CTAGT 26668956-GTAGC-CTAGT ***
13701537-GGG-TGC 11545861-GGG-TGC ***
27546166-G-T 25400019-G-T P1_Y2 ***
18735674-C-CTTTTTT 16623794-C-CTTTTTT 24×T***
8901991-C-CTTTTTT 9033950-C-CTTTTTT 19×T***
13222801-G-A 11067125-G-A ***
23519008-C-G 21357122-C-G ***
14245267-AGGAG-A 12124561-AGGAG-A 5×GGAG***
13503599-GTA-G 11347923-GTA-G ***
13427940-A-C 11272264-A-C ***
13389870-T-G 11234194-T-G ***
58841035-CCATTG-C 56749826-GAATGC-G ***

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: 567567JLA*16000000100000008300000
Used in age calculations16000000100000008300000
Counts of SNPs1815
Variant counts last updated 2019-06-16 23:15:04.

* BED data not available. Using default values.


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