Tree Position

R-P312/S116 > Z290 > L21/S145 > DF13 > ZZ10 > Z253 > BY4086 > FGC17436 > Z17693 > FGC73657 > BY23467

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
6294700-G-A 6426659-G-A IR3_Dst A*
25849748-C-T 23703601-C-T P1_Y1 A*
20619746-A-G 18457860-A-G P4_Prx A*
20325038-G-C 18163152-G-C P5_Dst A*
19893594-G-A 17781714-G-A P5_Prx A*
19666504-C-T 17554624-C-T P5_Prx A*
3960382-G-A 4092341-G-A A*
19606258-G-T 17494378-G-T P5_Prx YA*
20694207-T-C 18532321-T-C P4_Prx A*
20722723-G-A 18560837-G-A P4_Prx A*
26009526-G-A 23863379-G-A P1_Y1 A*
58977380-C-T 56831233-C-T A*
3960354-G-A 4092313-G-A FT238477 A*
3960332-A-G 4092291-A-G A*
26364759-G-C 24218612-G-C P1_Y1 A*
7595173-T-G 7727132-T-G FT104513 YY+
7596536-T-G 7728495-T-G FT104514 YY+
7888643-C-T 8020602-C-T FT104555 YY+
8107311-GTACAA-G 8239270-GTACAA-G +
18575100-T-G 16463220-T-G FT105660 YY+
8771564-T-C 8903523-T-C FT104700 YY+
7516387-A-G 7648346-A-G FT104501 Y+
17686515-C-T 15574635-C-T FT105531 YY+
19395536-G-A 17283656-G-A FT105844 YY+
7705713-C-T 7837672-C-T FT104532 YY+
18073675-G-A 15961795-G-A FGC30949Y11283 FGC30971 Z29878 YY+
8834941-A-C 8966900-A-C FT104709 YY+
13818455-T-C 11697749-T-C FT104816 +
15172327-G-A 13060413-G-A FT105107 YY+
14298741-G-GT 12178035-G-GT +
14205226-G-C 12084520-G-C FT104937 YY+
14185774-G-A 12065068-G-A FT104929 YY+
14045416-A-G 11924710-A-G FT104887 YY+
13921291-G-A 11800585-G-A FT104858 Y+
16496687-C-T 14384807-C-T FT105328 YY+
17080627-C-T 14968747-C-T FT105414 YY+
10811543-A-G +
10037130-G-C 10199521-G-C +
9927736-CAG-C 10090127-CAG-C +
9882842-C-T 10045233-C-T FT104803 YY+
16628411-G-T 14516531-G-T FT105347 YY+
19440214-G-C 17328334-G-C FT105854 YY+
16741546-C-G 14629666-C-G FT105365 YY+
4787175-C-T 4919134-C-T FT103958 +
6023613-G-T 6155572-G-T FT104241 +
21361521-C-T 19199635-C-T FT105944 YY+
23140617-C-G 20978731-C-G FT106234 YY+
15571387-G-A 13459507-G-A BY102602BY102602 YY+
22935363-G-C 20773477-G-C FT106194 YY+
22586070-G-GA 20424184-G-GA +
22519037-T-C 20357151-T-C FT106119 Y+
22044751-A-G 19882865-A-G FT106084 YY+
21962257-T-C 19800371-T-C FT106063 YY+
21741892-C-T 19580006-C-T FT106017 YY+
21613532-T-C 19451646-T-C FT105998 YY+
5783716-G-T 5915675-G-T FT104190 +
21581848-G-A 19419962-G-A FT105989 Y+
3210619-C-A 3342578-C-A FT103560 +
19460784-G-T 17348904-G-T FT105868 YY+
3273885-C-T 3405844-C-T FT103579 +
5572898-A-T 5704857-A-T FT104144 +
3517422-G-T 3649381-G-T FT103636 +
3544240-C-T 3676199-C-T FT103643 FGC74236 +
4349452-A-G 4481411-A-G FT103839 +
15820071-AAGAC-A 13708191-AAGAC-A +
5398374-C-T 5530333-C-T FT95712 +
5486696-C-CA 5618655-C-CA *
3483637-G-GAC 3615596-G-GAC 15×AC*
18132395-T-C 16020515-T-C **
25532612-T-G 23386465-T-G P1_gr1 **
26516770-G-T 24370623-G-T P1_Y1 **
27861000-G-T 25714853-G-T P1_Y2 **
16096932-T-A 13985052-T-A **
8826460-T-C 8958419-T-C **
15221432-T-C 13109518-T-C **
6228200-T-TAA 6360159-T-TAA IR3_Dst **
3320972-A-G 3452931-A-G Y2014 FGC1750 **
5797434-GATATAT-G 5929393-GATATAT-G 21×AT**
24389894-C-CT 22243747-C-CT 26×T**
13453239-C-A 11297563-C-A **
15335969-G-A 13224087-G-A **
4936053-CAA-C 5068012-CAA-C 26×A**
6599893-A-G 6731852-A-G **
9924068-T-C 10086459-T-C **
22288535-G-T 20126649-G-T DYZ19 **
22168388-G-A 20006502-G-A ***
5126457-C-CT 5258416-C-CT 11×T***
9427499-G-T 9589890-G-T ***
58987677-G-A 56841530-G-A ***
23272285-T-TTTTCTTTC 21110399-T-TTTTCTTTC 16×TTTC***
3174374-CTTTT-C 3306333-CTTTT-C 18×T***
20104244-AGG-A 17992364-AGG-A P5_Dst 13×G***
17622744-T-G 15510864-T-G ***
8974231-G-C 9136622-G-C ***
22429332-A-G 20267446-A-G DYZ19 ***
13480487-C-G 11324811-C-G ***
2810366-AT-A,ATT 2942325-AT-A,ATT 23×T***
8479399-CT-C,CTTT 8611358-CT-C,CTTT 18×T***
56838526-G-T ***
21698309-TAA-T,TA 19536423-TAA-T,TA 24×A***
8914172-C-CATTATT 9046131-C-CATTATT 13×ATT***
8974228-C-T 9136619-C-T ***
5492375-CT-C 5624334-CT-C 9×T***
5260410-CAAAA-C 5392369-CAAAA-C 20×A***
6089764-GTT-G,GT 6221723-GTT-G,GT 31×T***
10069233-T-A 10231624-T-A ***
8482269-CA-C 8614228-CA-C 8×A***
5207546-A-G 5339505-A-G ***
17150-G-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: 8977861500229493981008331416
Used in age calculations1500229493981008331416
Counts of SNPs3429
Variant counts last updated 2020-06-29 02:49:43.

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