Big Tree: Person Data

Tree Position

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	STR	BigY2 287885
9592085-A-C	9754476-A-C			IR3_Prx				A+
22222463-A-G	20060577-A-G			DYZ19				A+
22305690-A-T	20143804-A-T		BY10480	DYZ19				A+
6170195-C-A	6302154-C-A			IR3_Dst				A*
28817584-G-C	26671437-G-C							A*
7104310-A-AT	7236269-A-AT						9×T	A*
6216545-A-C	6348504-A-C			IR3_Dst				A*
13695012-T-A	11539336-T-A							A*
19588692-C-T	17476812-C-T			P5_Prx	Y			A*
20029595-A-G	17917715-A-G			P5_Prx				A*
20663162-C-A	18501276-C-A			P4_Prx				A*
22455496-A-G	20293610-A-G			DYZ19				A*
25534741-A-AT	23388594-A-AT			P1_gr1			8×T	A*
25591967-C-T	23445820-C-T			P1_gr1				A*
25956990-G-A	23810843-G-A			P1_Y1				A*
26253816-G-A	24107669-G-A			P1_Y1				A*
22462709-A-G	20300823-A-G		FT458039	DYZ19				+
2746212-A-C	2878171-A-C				Y	Y		+
2840471-G-GT	2972430-G-GT						8×T	+
6397717-C-G	6529676-C-G		BY46717					+
6837793-C-T	6969752-C-T		BY36799		Y	Y		+
6881004-T-C	7012963-T-C				Y	Y		+
7057516-A-C	7189475-A-C				Y	Y		+
7112896-A-T	7244855-A-T				Y	Y		+
7828001-T-A	7959960-T-A				Y	Y		+
7835822-C-T	7967781-C-T				Y	Y		+
8361232-A-G	8493191-A-G		BY36802		Y	Y		+
8381352-T-A	8513311-T-A				Y	Y		+
9403217-T-C	9565608-T-C				Y	Y		+
9899293-C-G	10061684-C-G		BY45237		Y			+
10060281-C-A	10222672-C-A							+
13232139-T-C	11076463-T-C		BY49106					+
13712912-T-C	11557236-T-C		BY49153					+
13814827-C-G	11694121-C-G							+
13825556-T-A	11704850-T-A		BY36806					+
13827363-G-A	11706657-G-A		BY36807					+
14151178-C-A	12030472-C-A				Y	Y		+
14293985-A-G	12173279-A-G				Y	Y		+
14652505-T-C	12540570-T-C		BY36809		Y	Y		+
16778184-C-T	14666304-C-T		BY36812		Y	Y		+
16787799-G-A	14675919-G-A				Y	Y		+
16866352-G-T	14754472-G-T		BY36813		Y	Y		+
16985766-G-A	14873886-G-A				Y	Y		+
17201114-G-A	15089234-G-A				Y	Y		+
17264399-C-G	15152519-C-G				Y	Y		+
17298093-TC-T	15186213-TC-T							+
17334394-A-T	15222514-A-T				Y	Y		+
17348012-G-T	15236132-G-T				Y	Y		+
17764925-C-T	15653045-C-T				Y	Y		+
17908433-CAG-C	15796553-CAG-C							+
17996440-T-C	15884560-T-C			P7_Gap	Y			+
18095343-G-C	15983463-G-C				Y	Y		+
18103793-G-A	15991913-G-A		BY36815		Y	Y		+
18109725-T-C	15997845-T-C		BY36816		Y	Y		+
18632172-A-G	16520292-A-G				Y	Y		+
18949413-T-C	16837533-T-C		BY36818		Y	Y		+
18995159-C-A	16883279-C-A				Y	Y		+
19264296-A-G	17152416-A-G		BY36819		Y	Y		+
19455301-G-A	17343421-G-A				Y	Y		+
20832523-C-A	18670637-C-A		BY36820	P4_Gap				+
21228371-A-G	19066485-A-G				Y	Y		+
21567271-G-A	19405385-G-A		BY36821		Y	Y		+
22228889-A-G	20067003-A-G		BY36822	DYZ19				+
22300494-G-A	20138608-G-A		BY36823	DYZ19				+
22442449-G-T	20280563-G-T		BY48570	DYZ19				+
22462023-T-C	20300137-T-C		BY49323	DYZ19				+
22844319-T-A	20682433-T-A				Y	Y		+
22914761-G-A	20752875-G-A				Y	Y		+
22957070-C-G	20795184-C-G				Y	Y		+
22966868-T-C	20804982-T-C				Y	Y		+
23234431-G-A	21072545-G-A				Y			+
23869694-AATGTATATGTAT-A	21707808-AATGTATATGTAT-A						5×ATGTAT	+
28812856-G-A	26666709-G-A		BY48103					+
19047817-CGTGTGT-C,CGT	16935937-CGTGTGT-C,CGT						16×GT	*
22479410-T-A	20317524-T-A			DYZ19				*
22480234-A-C	20318348-A-C			DYZ19				*
28795137-A-T	26648990-A-T							*
	10986396-T-C							**
	10803988-C-T							**
	10804008-C-T							**
	10804016-C-A							**
	10804028-A-T							**
	10986388-T-C							**
13487745-C-T	11332069-C-T							**
	10770728-C-T							**
	10770732-C-A							**
	10770738-CCTAA-C							**
	10770746-C-T							**
	10770750-T-C							**
	10770751-G-T							**
	10937667-C-CA							**
	10937682-T-C							**
	10937702-T-A							**
	10982189-A-C							**
	10992124-G-T							**
28798294-A-T	26652147-A-T							**
26204654-G-T	24058507-G-T			P1_Y1				**
	10982186-A-C							**
	10937661-A-T							**
	10937669-CA-C							**
	10937690-T-C							**
	10961284-T-C							**
	10961302-A-G							**
	10961305-C-A							**
	10785340-C-T							**
	10986387-A-G							**
7030607-G-T	7162566-G-T							**
	11037092-C-G							**
14531079-C-A	12419280-C-A							**
16148998-A-AG	14037118-A-AG			P8_Dst				**
22172729-C-A	20010843-C-A							**
	10661194-TTCCACTGCAC-T							**
	10944545-G-T							**
	10748025-C-G							**
	9109354-G-T							**
	10767676-C-CATTAT							**
	10785040-C-A							**
	56840149-C-A							**
5185480-C-A	5317439-C-A							**
7241815-C-T	7373774-C-T							**
	10911546-C-A							**
	10986425-A-G							**
	10880705-C-A							**
15831919-C-A	13720039-C-A							**
	10785062-C-A							**
22972996-C-A	20811110-C-A							**
3110277-T-C	3242236-T-C		FT81132					**
3961308-A-G	4093267-A-G							**
5482646-A-T	5614605-A-T						9×T	**
5528785-T-C	5660744-T-C							**
6542040-G-T	6673999-G-T							**
7090214-T-C	7222173-T-C							**
7410197-ACGTCAGTTTTTTAGAGATTCAGC-A	7542156-ACGTCAGTTTTTTAGAGATTCAGC-A							**
8719102-A-G	8851061-A-G							**
8835418-A-G	8967377-A-G							**
8985457-C-A	9147848-C-A							**
	10682700-A-C							**
	10796552-T-C							**
	10832443-C-A							**
	10877187-G-T							**
	10935682-C-T							**
	10962987-T-A							**
13445237-G-T	11289561-G-T							**
13456833-A-G	11301157-A-G		BY45940					**
13567469-G-C	11411793-G-C		BY48162					**
13577880-C-A	11422204-C-A							**
	11675567-G-A							**
13941527-G-T	11820821-G-T							**
14848313-G-T	12736379-G-T		BY36810					**
15485506-G-A	13373626-G-A							**
15722448-C-A	13610568-C-A							**
16618919-G-T	14507039-G-T							**
16703674-G-T	14591794-G-T							**
17296525-C-G	15184645-C-G							**
17649376-T-G	15537496-T-G							**
18166996-C-G	16055116-C-G							**
18249765-G-A	16137885-G-A							**
18790530-C-A	16678650-C-A							**
19131777-C-A	17019897-C-A							**
19199457-C-A	17087577-C-A		FTB24458					**
19426363-C-A	17314483-C-A							**
21531597-G-T	19369711-G-T							**
23777311-T-C	21615425-T-C							**
22425960-G-A	20264074-G-A		BY217951	DYZ19				***
15406939-T-TAA	13295059-T-TAA						20×A	***
	10882102-C-A							***
	11643773-G-A							***
17923876-GTT-G,GT	15811996-GTT-G,GT						18×T	***
	10882071-A-T							***
	10882099-C-G							***
	10882106-A-C							***
	10982181-C-A							***
	10980696-C-T							***
28798289-A-G	26652142-A-G							***
	10991260-C-CAGGTTA							***
	10669451-T-C							***
28798281-G-T	26652134-G-T							***
28798285-T-A	26652138-T-A							***
	10914254-G-T							***
	10825466-AT-A	Y134042						***
	10982205-A-T							***
	10982227-T-A							***
	10982242-T-G							***
	11643767-TG-T							***
	10796678-A-G,T							***
15476107-TA-T,TAA	13364227-TA-T,TAA						14×A	***
17028646-C-A	14916766-C-A							***
15209530-AT-A,ATT	13097616-AT-A,ATT						16×T	***
	10821919-T-A							***
6815700-C-A	6947659-C-A							***
13704988-A-T	11549312-A-T							***
	10821933-A-G							***
	11652644-C-A							***
	11031761-C-A							***
22555369-G-GT	20393483-G-GT						9×T	***
14847004-CAAAA-C,CAAAAA	12735070-CAAAA-C,CAAAAA						20×A	***
14985276-C-A	12873344-C-A							***
13570907-C-A	11415231-C-A							***
	10885167-GA-AA,G							***
	10794600-G-T							***
	10747991-C-G							***
7043647-G-T	7175606-G-T							***
	10997079-C-A							***
18534143-CAT-C,CATAT	16422263-CAT-C,CATAT			P6_Dst			8×AT	***
	10998023-C-G							***
23415274-CTATATA-C,CTATA	21253388-CTATATA-C,CTATA						12×TA	***
17946803-AT-A	15834923-AT-A						9×T	***
14716762-C-T	12604830-C-T							***
14694625-C-A	12582691-C-A							***
19223517-C-A	17111637-C-A							***
9018253-C-A	9180644-C-A							***
27860939-C-A	25714792-C-A			P1_Y2				***
16007330-C-A	13895450-C-A							***
21485814-C-A	19323928-C-A							***
17115290-C-A	15003410-C-A							***
22723386-CAAA-C,CAA	20561500-CAAA-C,CAA						17×A	***
14753064-C-A	12641133-C-A							***
22661493-ATGTGTGTGTGTGTGTG-A	20499607-ATGTGTGTGTGTGTGTG-A						26×TG	***
8498338-CAA-C,CAAA	8630297-CAA-C,CAAA						16×A	***
2864165-T-A	2996124-T-A							***
2880498-C-A	3012457-C-A							***
2980892-C-A	3112851-C-A							***
4687726-G-T	4819685-G-T							***
4769648-C-A	4901607-C-A							***
6688871-C-A	6820830-C-A							***
6967028-CT-C,CTT	7098987-CT-C,CTT						12×T	***
7075240-CAAAAAA-C,CAAAAA	7207199-CAAAAAA-C,CAAAAA						17×A	***
8095506-A-G	8227465-A-G							***
8779864-A-G	8911823-A-G							***
9166418-C-A	9328809-C-A							***
9864515-G-A	10026906-G-A							***
	10756125-TC-T							***
	10831370-C-A							***
	10892974-C-A							***
13459242-ATTCCG-A,ATTCCA	11303566-ATTCCG-A,ATTCCA							***
14201123-C-A	12080417-C-A							***
14319488-C-A	12198782-C-A							***
14453709-GA-G,GAAA	12332982-GA-G,GAAA						18×A	***
14953338-T-C	12841412-T-C							***
15361872-C-A	13249992-C-A							***
16340892-C-A	14229012-C-A							***
16373779-AC-A	14261899-AC-A							***
16781288-AT-A	14669408-AT-A							***
17086085-A-G	14974205-A-G							***
17242978-T-TACACAC	15131098-T-TACACAC						18×AC	***
17353822-C-T	15241942-C-T							***
18066289-G-A	15954409-G-A							***
19145311-C-A	17033431-C-A							***
19346004-T-C	17234124-T-C							***
21193510-C-A	19031624-C-A							***
21509059-C-A	19347173-C-A							***
21604448-T-C	19442562-T-C							***
21699638-C-A	19537752-C-A							***
22183984-C-A	20022098-C-A							***
23510435-C-A	21348549-C-A							***
23961303-AAAAAG-A	21815156-AAAAAG-A						4×AAAAG	***
24430255-A-G	22284108-A-G							***
27860945-T-C	25714798-T-C			P1_Y2				***
28796828-A-G	26650681-A-G							***
	56858554-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.

Schubert

Tree Position

Unique Mutations