Tree Position

R-U106/S21 > Z2265 > Z18 > ZP156 > 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 STRFTDNA
15264278-G-T 13152368-G-T BY100528 YY+
22238177-G-A 20076291-G-A BY213774 DYZ19 +
21834831-C-T 19672945-C-T BY135783 Y+
9445140-A-G 9607531-A-G BY79433 YY+
22457680-C-G 20295794-C-G DYZ19 +
22438783-C-T 20276897-C-T BY218581 DYZ19 +
14835294-T-C 12723361-T-C BY97884 YY+
15085927-C-G 12974017-C-G BY99646 YY+
15925083-A-C 13813203-A-C BY104921 YY+
6932216-G-C 7064175-G-C BY62299 YY+
21970252-G-A 19808366-G-A BY136720 YY+
18033389-G-A 15921509-G-A BY119320 YY+
19185387-C-T 17073507-C-T BY127037 Y+
21855577-T-G 19693691-T-G BY135935 YY+
21218129-A-G 19056243-A-G BY131187 YY+
21491790-T-C 19329904-T-C BY133358 YY+
21727355-C-T 19565469-C-T BY135033 YY+
7427479-G-A 7559438-G-A BY243 YY+
7793340-C-T 7925299-C-T BY67686 YY+
6806180-T-C 6938139-T-C BY61432 YY+
23486075-G-A 21324189-G-A BY145662 YY+
23861417-G-T 21699531-G-T BY148494 Y+
23831003-C-A 21669117-C-A BY148137 Y+
22599140-A-C 20437254-A-C BY139398 YY+
21756766-AT-A 19594880-AT-A +
23352860-G-A 21190974-G-A BY144779 YY+
23232839-G-A 21070953-G-A Y+
8387539-GGGA-G 8519498-GGGA-G 5×GGA*
26440522-CTTTT-C 24294375-CTTTT-C P1_Y1 **
25885852-A-AAAGG 23739705-A-AAAGG P1_Y1 7×AAGG**
22449857-C-T 20287971-C-T DYZ19 **
14574277-A-T 12462477-A-T BY96540 **
13872610-C-T 11751904-C-T BY91790 **
22290137-G-T 20128251-G-T DYZ19 **
22250341-C-A 20088455-C-A DYZ19 ***
22436055-G-T 20274169-G-T DYZ19 ***
25210981-G-A 23064834-G-A P2_r1 ***
25260533-AT-A 23114386-AT-A P2_r1 ***
25933519-C-T 23787372-C-T P1_Y1 ***
26171959-A-G 24025812-A-G P1_Y1 ***
26204498-A-T 24058351-A-T P1_Y1 ***
27757927-T-A 25611780-T-A P1_Y2 ***
22305561-C-T 20143675-C-T DYZ19 ***
22328792-C-A 20166906-C-A DYZ19 ***
25051068-C-A 22904921-C-A g1 ***
13808728-T-TGGAATGATAC 11688022-T-TGGAATGATAC ***
20035362-G-C 17923482-G-C P5_Prx ***
13458118-TTCCAG-T 11302442-TTCCAG-T ***
13808750-G-A 11688044-G-A ***
13830179-C-T 11709473-C-T FGC45786 ***
19645682-CTT-C 17533802-CTT-C P5_Prx 14×T***
13811710-G-A 11691004-G-A ***
9937948-C-G 10100339-C-G ***
13458491-C-G 11302815-C-G ***
13715544-G-T 11559868-G-T ***
9936617-G-A 10099008-G-A ***
22489983-G-T 20328097-G-T DYZ19 ***
7311335-A-ATTCCTTCC 7443294-A-ATTCCTTCC 11×TTCC***
9203953-T-C 9366344-T-C ***
4472645-A-G 4604604-A-G ***
13453723-T-C 11298047-T-C ***
13458513-T-G 11302837-T-G ***
13723371-T-G 11567695-T-G ***
13735756-G-C 11580080-G-C ***
13813907-G-A 11693201-G-A ***
13820791-A-G 11700085-A-G ***
13865958-C-A,T 11745252-C-A,T ***
13808734-G-A 11688028-G-A ***
28785696-AAAGTG-A 26639549-AAAGTG-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: N653751015447872615377313162
Used in age calculations1015447872615377313162
Counts of SNPs2120
Variant counts last updated 2019-09-27 02:59:58.

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