Tree Position

R-P312/S116 > Z40481 > ZZ11 > U152/S28 > L2/S139 > Z367/S255 > L20/S144 > Z1909 > BY53474

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
837898
21756183-G-C A+
21756185-T-A A+
3237553-G-A 3369512-G-A A+
5089591-T-A 5221550-T-A A+
21755965-T-C A*
56859868-T-G A*
21755985-G-C A*
21755982-A-C A*
21755974-A-G A*
4692517-A-G 4824476-A-G A*
17543962-T-TA 15432082-T-TA 11×AA*
18321322-C-T 16209442-C-T P6_Prx A*
28006373-T-TAC 25860226-T-TAC P1_Y2 16×ACA*
28817478-C-T 26671331-C-T A*
16099807-G-GT 13987927-G-GT P8_Prx 9×TA*
26426642-C-T 24280495-C-T P1_Y1 A*
28071400-G-A 25925253-G-A P1_Y2 A*
26491898-G-A 24345751-G-A P1_Y1 A*
25890977-C-T 23744830-C-T P1_Y1 A*
21755975-T-C A*
20650657-A-AGTG 18488771-A-AGTG P4_Prx A*
20727430-C-T 18565544-C-T P4_Prx A*
7564230-G-C 7696189-G-C FTB32688 YY+
10807147-C-T +
10008215-G-T 10170606-G-T Y+
7324733-G-A 7456692-G-A FTB32652 YY+
7106317-G-T 7238276-G-T FTB32606 YY+
13505321-A-G 11349645-A-G +
7748708-C-A 7880667-C-A FTB32724 YY+
4976066-C-G 5108025-C-G +
10882230-TATTCCATTTCATTCC-T +
17359287-A-T 15247407-A-T DC135F2458 M1132 YY+
14310881-T-C 12190175-T-C FTB33114 YY+
14365944-A-G 12245239-A-G FTB33134 YY+
15760586-A-C 13648706-A-C FTB33391 Y+
16835450-A-C 14723570-A-C FTB33582 YY+
17547289-T-C 15435409-T-C FTB33706 YY+
18561449-A-G 16449569-A-G FTB33876 YY+
19171118-G-A 17059238-G-A Y+
19415476-C-T 17303596-C-T FT111970 YY+
21316067-A-T 19154181-A-T YY+
21597811-G-GA 19435925-G-GA +
22009343-C-A 19847457-C-A BY137064 YY+
23298075-G-A 21136189-G-A FTB34503 YY+
28637820-G-C 26491673-G-C FTB34689 +
28798205-T-C 26652058-T-C +
4711294-G-T 4843253-G-T FTB42290 +
5717129-G-A 5849088-G-A FTB42395 +
4532060-T-A 4664019-T-A FTB42271 +
3846330-T-C 3978289-T-C FTB42218 +
18077895-C-A 15966015-C-A Z25830 F14723 YY+
27535800-G-A 25389653-G-A FT202927 P1_Y2 *
6983589-C-CTGTG 7115548-C-CTGTG 20×TG*
10818399-T-C FT375060 *
13694741-GG-T 11539065-GG-T *
10818394-CTCCAT-C *
3064572-T-G 3196531-T-G *
2812777-ATTTTTTTT-A,AT 2944736-ATTTTTTTT-A,AT 30×T*
25560806-T-C 23414659-T-C P1_gr1 **
26411935-G-T 24265788-G-T P1_Y1 **
27583000-C-CT 25436853-C-CT P1_Y2 22×T**
19792083-G-T 17680203-G-T P5_Prx **
19669918-A-C 17558038-A-C P5_Prx **
18321234-G-T 16209354-G-T P6_Prx **
18321230-A-T 16209350-A-T P6_Prx **
28628506-AT-A 26482359-AT-A 14×T**
10903967-A-G **
10056441-T-C 10218832-T-C **
18056730-AT-A 15944850-AT-A **
10903978-T-A **
27902193-TAGTC-T 25756046-TAGTC-T P1_Y2 **
13538088-A-G 11382412-A-G **
13465900-A-C 11310224-A-C **
14738413-CTT-C 12626481-CTT-C 17×T**
13465891-T-G 11310215-T-G **
22316563-A-G 20154677-A-G DYZ19 ***
15336019-CA-C 13224137-CA-C 30×A***
23415306-ATGTATG-A,ATGTA 21253420-ATGTATG-A,ATGTA ***
23425354-AAAAC-A 21263468-AAAAC-A ***
10056291-T-G 10218682-T-G ***
13923530-CAAAA-C 11802824-CAAAA-C 29×A***
7573145-CA-C 7705104-CA-C 22×A***
2984950-CTA-C,CTATA 3116909-CTA-C,CTATA 16×TA***
22233416-G-C 20071530-G-C DYZ19 ***
17950825-AATATATATAT-A 15838945-AATATATATAT-A 27×AT***
28477992-CAAA-C,CAA 26331845-CAAA-C,CAA 17×A***
5683823-T-G 5815782-T-G ***
3809136-AT-A,ATT 3941095-AT-A,ATT 31×T***
22233417-G-T 20071531-G-T DYZ19 ***
10056430-A-T 10218821-A-T ***
4848351-A-AAT 4980310-A-AAT 16×AT***
14425195-C-CA 12304470-C-CA 15×A***
14639064-CTT-C,CT 12527133-CTT-C,CT 18×T***
13194499-T-C 11038823-T-C 4×CATTC***
56830290-TTCCAC-T ***
10056446-C-AT 10218837-C-AT ***
10056455-A-C 10218846-A-C ***
56829063-C-A ***
23425355-AAAC-A 21263469-AAAC-A ***
10904175-A-G ***
13205598-AT-A,AA 11049922-AT-A,AA ***
13223325-C-A 11067649-C-A ***
10904161-G-C ***
15859443-T-C 13747563-T-C ***
13222625-GGGAGAGGA-G,GAGGA 11066949-GGGAGAGGA-G,GAGGA ***
56861584-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: 8378981520648995476958414510
Used in age calculations1520648995476958414510
Counts of SNPs1815
Variant counts last updated 2022-07-19 03:19:56.



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