Tree Position

R-P312/S116 > Z290 > L21/S145 > DF13 > DF21/S192 > S971 > Z16267 > Z3000/S951 > Z3006 > Z3004 > Z16274 > Z16276 > Z16278 > BY20667

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 STRBigY2
878139
20114104-A-C 18002224-A-C P5_Dst A+
13448544-C-G 11292868-C-G A*
5631691-A-AT 5763650-A-AT A*
13450270-A-G 11294594-A-G A*
56832307-T-C A*
13695076-C-T 11539400-C-T A*
22276920-G-C 20115034-G-C DYZ19 A*
18861371-C-CT 16749491-C-CT 11×TA*
13449197-G-A 11293521-G-A A*
56835652-C-CCACTA A*
56832718-C-G A*
58980119-T-C 56833972-T-C A*
56830776-A-C A*
13451407-A-C 11295731-A-C A*
28078722-G-GA 25932575-G-GA P1_Y2 17×AA*
21755963-A-G A*
13451362-G-T 11295686-G-T A*
13449716-T-C 11294040-T-C A*
56834474-A-G A*
22231781-C-T 20069895-C-T DYZ19 A*
13451358-C-T 11295682-C-T A*
13449700-A-T 11294024-A-T A*
19809172-A-AT 17697292-A-AT P5_Prx 10×TA*
13451056-C-A 11295380-C-A A*
13451010-C-G 11295334-C-G A*
13450536-T-C 11294860-T-C A*
13450534-C-T 11294858-C-T A*
13450281-T-C 11294605-T-C A*
13450023-C-T 11294347-C-T A*
13449202-C-A 11293526-C-A A*
56836132-G-GTTCCT A*
6206565-C-T 6338524-C-T IR3_Dst A*
13450543-C-A 11294867-C-A A*
21756061-G-A A*
56826713-A-T A*
56832461-T-C A*
13449922-C-T 11294246-C-T A*
13451659-C-A 11295983-C-A A*
13449683-T-A 11294007-T-A A*
19696433-T-TA 17584553-T-TA P5_Prx 14×AA*
59006061-T-A 56859914-T-A A*
26395318-C-CAT 24249171-C-CAT P1_Y1 A*
13449728-C-G 11294052-C-G A*
9605871-T-TA 9768262-T-TA IR3_Prx 16×AA*
26395349-C-T 24249202-C-T P1_Y1 A*
13686949-A-G 11531273-A-G A*
3671886-C-T 3803845-C-T A*
6600661-T-C 6732620-T-C A*
4409982-C-T 4541941-C-T A*
59006063-T-C 56859916-T-C A*
19713343-G-GT 17601463-G-GT P5_Prx 11×TA*
56826614-A-T A*
56829677-A-T A*
21755965-T-C A*
24337315-A-AT 22191168-A-AT P3_t1 10×TA*
4742850-G-GT 4874809-G-GT 10×TA*
56834138-C-A A*
25520279-C-CT 23374132-C-CT P1_gr1 11×TA*
16118570-A-AT 14006690-A-AT P8_Prx 31×TA*
21755974-A-G A*
21755982-A-C A*
21755985-G-C A*
58977079-G-C 56830932-G-C A*
21755998-G-A A*
13449709-C-T 11294033-C-T A*
25561299-G-T 23415152-G-T P1_gr1 A*
3094542-G-A 3226501-G-A FT14892 +
8198276-A-G 8330235-A-G FT19704 YY+
3224002-C-G 3355961-C-G FT15034 +
21506551-T-C 19344665-T-C FT25418 YY+
13212127-G-A 11056451-G-A +
3224089-A-G 3356048-A-G FT15035 +
9387575-T-G 9549966-T-G FT20372 Y+
8885056-C-T 9017015-C-T Y+
7644220-C-T 7776179-C-T FT19314 YY+
22086729-C-G 19924843-C-G FT25889 YY+
13329340-G-A 11173664-G-A +
15005351-G-T 12893436-G-T FT21753 YY+
23046549-C-A 20884663-C-A FT26355 YY+
19008159-G-A 16896279-G-A FT14515 YY+
17618357-T-C 15506477-T-C FT23655 Y+
15620471-A-C 13508591-A-C FT22159 YY+
16184183-G-A 14072303-G-A FT22507 Y+
15206749-A-G 13094835-A-G FT21867 YY+
3335108-A-G 3467067-A-G FT15175 +
21299601-C-T 19137715-C-T FT25243 YY+
22639528-C-T 20477642-C-T FT26073 Y+
3756412-G-A 3888371-G-A *
8710245-A-ATG 8842204-A-ATG DC355 13×TG*
3258383-G-A 3390342-G-A *
10934826-ACCATTCCATT-A *
3655664-T-C 3787623-T-C *
13463098-A-AGG 11307422-A-AGG *
22302783-C-T 20140897-C-T DYZ19 *
13488373-G-A 11332697-G-A *
4640974-G-A 4772933-G-A *
22802868-ATTTTTTTTTTTTT-A,AT 20640982-ATTTTTTTTTTTTT-A,AT 32×T*
10779018-C-T *
58986582-G-T 56840435-G-T *
5167481-C-CT 5299440-C-CT 9×T**
28819338-T-G 26673191-T-G **
13722278-G-A 11566602-G-A **
19811623-G-T 17699743-G-T P5_Prx **
17431901-T-C 15320021-T-C **
26089049-G-T 23942902-G-T P1_Y1 **
28819330-A-G 26673183-A-G **
9559492-TTGTG-T 9721883-TTGTG-T IR3_Prx 17×TG**
20509853-C-T 18347967-C-T P5_Dst **
20698698-T-G 18536812-T-G P4_Prx **
27762778-TACACAC-T 25616631-TACACAC-T P1_Y2 17×AC**
26348378-A-T 24202231-A-T P1_Y1 **
19751284-A-C 17639404-A-C P5_Prx **
3459669-A-ATT 3591628-A-ATT 13×T**
28819335-G-T 26673188-G-T **
28548846-A-G 26402699-A-G **
26295230-T-A 24149083-T-A P1_Y1 **
20778838-C-A 18616952-C-A P4_Prx **
22342130-C-A 20180244-C-A DYZ19 **
6191629-G-A 6323588-G-A BY59455 IR3_Dst **
22222911-C-T 20061025-C-T DYZ19 **
21746416-A-G 19584530-A-G **
4848351-AATAT-A 4980310-AATAT-A 16×AT**
21580292-C-T 19418406-C-T **
20995550-TC-T 18833664-TC-T P4_Dst **
22164376-CAA-C,CA 20002490-CAA-C,CA 22×A***
6985100-GGT-G 7117059-GGT-G 10×GT***
19387744-A-G 17275864-A-G ***
4414167-CTT-C 4546126-CTT-C 18×T***
13453186-T-C 11297510-T-C ***
5523917-CTT-C 5655876-CTT-C 24×T***
3922183-G-GA 4054142-G-GA 16×A***
13944051-CAAAA-C 11823345-CAAAA-C 22×A***
5453891-CT-C 5585850-CT-C 19×T***
9508531-CTT-C 9670922-CTT-C 25×T***
28606867-CT-C 26460720-CT-C 13×T***
19079234-CTTT-C 16967354-CTTT-C 19×T***
24264513-CT-C 22118366-CT-C P3_b1 18×T***
13222389-G-C 11066713-G-C ***
3662214-G-T 3794173-G-T ***
4389404-CA-C 4521363-CA-C 21×A***
19138349-CTA-C 17026469-CTA-C 11×TA***
13460154-G-T 11304478-G-T ***
13482315-G-T 11326639-G-T ***
8058452-CTT-C 8190411-CTT-C 15×T***
17628992-C-T 15517112-C-T ***
4848574-GTTT-G 4980533-GTTT-G 29×T***
15150640-T-A 13038727-T-A ***
13713438-G-T 11557762-G-T ***
13608377-C-A 11452701-C-A ***
13449513-ACTCC-A,ATTCC 11293837-ACTCC-A,ATTCC ***
4388944-T-A 4520903-T-A ***
4503310-GTATTAT-G,GTAT 4635269-GTATTAT-G,GTAT 16×TAT***
18630666-CT-C,CTT 16518786-CT-C,CTT 20×T***
14794351-CTT-C 12682422-CTT-C 14×T***
13450119-T-C 11294443-T-C ***
5937208-ATCTC-A,ATC 6069167-ATCTC-A,ATC 17×TC***
18972343-C-CGTGT 16860463-C-CGTGT 18×GT***
5211296-C-CT 5343255-C-CT 16×T***
12376216-ATT-A ***
10669540-ATTCCG-A ***
56873229-G-T ***

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: 8781391545109396651788411281
Used in age calculations1545109396651788411281
Counts of SNPs21
Variant counts last updated 2019-03-02 16:50:27.



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