Tree Position

R-P312/S116 > Z290 > L21/S145 > DF13 > Z39589 > L1335/S530 > L1065 > Z16325 > S744 > S764 > S756 > Z16328 > FGC32449 > BY154 > FGC17059

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 STRFGC
Y3XPA
5218499-C-A 5350458-C-A +
23558391-A-G 21396505-A-G YY+
3990456-G-A 4122415-G-A +
28478038-T-TATAGAG 26331891-T-TATAGAG 23×AG+
59024255-T-C 56878108-T-C +
21621068-AAC-A 19459182-AAC-A +
24420879-A-AT 22274732-A-AT 43×T+
58979700-C-T 56833553-C-T +
58979785-C-A 56833638-C-A +
58979791-A-T 56833644-A-T +
58979815-C-T 56833668-C-T +
58979816-T-G 56833669-T-G +
58979820-C-A 56833673-C-A +
15870866-C-CA 13758986-C-CA 8×A+
13702630-A-T 11546954-A-T +
13198431-G-A 11042755-G-A +
13690026-G-A 11534350-G-A *
13636667-T-C 11480991-T-C *
13709020-T-C 11553344-T-C *
13694876-C-T 11539200-C-T *
13708936-A-C 11553260-A-C *
13497182-C-A 11341506-C-A *
13709499-T-C 11553823-T-C *
13711799-G-A 11556123-G-A *
13510697-C-A 11355021-C-A *
13269822-T-G 11114146-T-G *
13449062-CCACTG-C 11293386-CCACTG-C *
13378005-A-C 11222329-A-C *
13377964-G-A 11222288-G-A *
13351955-A-T 11196279-A-T *
13342235-G-A 11186559-G-A *
17610094-A-C 15498214-A-C YY*
13267523-C-T 11111847-C-T *
13204096-G-A 11048420-G-A *
13196366-G-T 11040690-G-T *
13196248-C-A 11040572-C-A *
13196227-C-T 11040551-C-T *
13195931-A-C 11040255-A-C *
13195894-G-A 11040218-G-A *
13195842-A-T 11040166-A-T *
13195778-T-A 11040102-T-A *
13711901-C-G 11556225-C-G *
23886722-AT-A 21724836-AT-A 13×T*
21697086-T-C 19535200-T-C YY*
58986230-C-T 56840083-C-T *
13448267-T-C 11292591-T-C *
13435717-G-A 11280041-G-A *
13362514-CA-C 11206838-CA-C 11×A*
9995978-A-G 10158369-A-G Y*
9995972-G-C 10158363-G-C Y*
13711493-G-A 11555817-G-A *
6402987-T-C 6534946-T-C *
5777425-A-G 5909384-A-G *
5480908-C-CT 5612867-C-CT 16×T*
28814871-A-G 26668724-A-G *
2930319-GTTTT-G 3062278-GTTTT-G 26×T*
58986258-C-G 56840111-C-G *
58986257-T-A 56840110-T-A *
58986221-T-C 56840074-T-C *
21697092-T-C 19535206-T-C YY*
58986168-A-C 56840021-A-C *
58986117-T-G 56839970-T-G *
58986111-G-T 56839964-G-T *
58986103-G-A 56839956-G-A *
58980029-T-C,G 56833882-T-C,G *
58979189-TA-T 56833042-TA-T *
28815500-G-A 26669353-G-A *
28812387-T-A 26666240-T-A *
28812187-G-T 26666040-G-T *
27506515-C-CA 25360368-C-CA P1_Y2 24×A*
13195759-C-T 11040083-C-T *
22508738-G-C 20346852-G-C DYZ19 *
22508404-T-G 20346518-T-G DYZ19 *
22444151-T-A 20282265-T-A DYZ19 *
13195764-T-G 11040088-T-G *
5460982-A-AT 5592941-A-AT 12×T*
13195658-C-T 11039982-C-T *
22509074-G-C 20347188-G-C DYZ19 *
18565061-C-CA 16453181-C-CA 27×A*
14425195-C-CA 12304470-C-CA 15×A*
13489192-G-T 11333516-G-T *
22510212-A-C 20348326-A-C DYZ19 *
9941885-C-A 10104276-C-A Y*
9941869-C-T 10104260-C-T Y*
9941860-T-A 10104251-T-A Y*
9941854-T-C 10104245-T-C Y*
9941848-A-G 10104239-A-G Y*
4103175-CTT-C,CT 4235134-CTT-C,CT 13×T*
22422585-G-T 20260699-G-T DYZ19 *
13449509-TTCCAC-T 11293833-TTCCAC-T *
5532646-C-CT 5664605-C-CT 15×T*
13239531-G-A 11083855-G-A *
13448203-T-TACATC 11292527-T-TACATC *
58975801-T-A 56829654-T-A *
4640099-G-GT 4772058-G-GT 11×T*
58883592-C-G 56707279-G-C *
13142976-T-A 10632462-T-A *
28801261-A-T 26655114-A-T *
28801230-A-T 26655083-A-T *
28801222-A-C 26655075-A-C *
6089764-GT-G 6221723-GT-G 31×T*
5904031-CA-C 6035990-CA-C 27×A*
3079561-T-TA 3211520-T-TA 18×A*
22490659-T-A 20328773-T-A DYZ19 *
13489246-G-T 11333570-G-T *
58996554-A-G 56850407-A-G *
58986175-G-T 56840028-G-T *
22703595-C-CA 20541709-C-CA 30×A*
6091720-ATT-A 6223679-ATT-A 28×T*
13485754-C-T 11330078-C-T *
5502254-C-CA 5634213-C-CA 16×A*
5468173-CT-C 5600132-CT-C 26×T*
3419982-G-GT 3551941-G-GT 12×T*
58986091-C-A 56839944-C-A *
4425038-AT-A 4556997-AT-A 13×T*
13485652-C-A 11329976-C-A *
2769237-G-GA 2901196-G-GA 11×A*
3837722-CA-C 3969681-CA-C 13×A*
15859437-CT-C,CTT 13747557-CT-C,CTT 17×T*
58986101-A-T 56839954-A-T *
5945467-C-CT 6077426-C-CT 25×T*
3930083-CT-C 4062042-CT-C 12×T*
3984667-GA-G 4116626-GA-G 12×A*
3570934-AT-A 3702893-AT-A 13×T*
28818139-G-A 26671992-G-A *
13448667-T-G 11292991-T-G *
58986090-G-A 56839943-G-A *
13196371-G-T 11040695-G-T *
13710114-C-G 11554438-C-G *
13450174-C-G 11294498-C-G *
13195753-C-A 11040077-C-A *
21574498-G-GT 19412612-G-GT 10×T*
13204232-G-A 11048556-G-A *
6457773-T-TA 6589732-T-TA 15×A*
13450394-C-T 11294718-C-T *
58978132-C-T 56831985-C-T *
28553992-C-CA 26407845-C-CA 28×A*
28619573-CA-C 26473426-CA-C 16×A*
13465178-G-A 11309502-G-A *
58976859-T-A 56830712-T-A *
13572046-T-A 11416370-T-A *
13418431-G-C 11262755-G-C *
13709434-A-T 11553758-A-T *
13704921-G-A 11549245-G-A *
13696925-G-C 11541249-G-C *
13607598-C-CAA 11451922-C-CAA 18×A*
13471841-C-T 11316165-C-T *
13465100-G-C 11309424-G-C *
13465073-G-A 11309397-G-A *
13449282-C-T 11293606-C-T *
13448994-G-T 11293318-G-T *
13448914-C-A 11293238-C-A *
13448718-C-T 11293042-C-T *
13448662-T-G 11292986-T-G *
13403860-C-T 11248184-C-T *
13748406-T-C 11592730-T-C *
13314853-T-C 11159177-T-C *
13258348-C-A 11102672-C-A *
13196379-T-C 11040703-T-C *
13196375-A-T 11040699-A-T *
13196349-T-C 11040673-T-C *
13196185-C-A 11040509-C-A *
13196178-C-T 11040502-C-T *
13196100-T-C 11040424-T-C *
13142215-T-C 10631701-T-C *
13142212-C-T 10631698-C-T *
13142132-C-G 10631618-C-G *
9429665-T-A 9592056-T-A Y*
9340732-A-AAC 9503123-A-AAC 15×AC*
13719245-G-T 11563569-G-T *
14418140-GTATATATATATGTATATATATATA-G,GTA *
8403272-CA-C,CAA 8535231-CA-C,CAA 28×A*
28800097-G-C 26653950-G-C *
59007977-A-G 56861830-A-G *
59005498-G-C 56859351-G-C *
58980031-C-T 56833884-C-T *
58977008-A-C 56830861-A-C *
58976889-C-A 56830742-C-A *
58975880-C-A 56829733-C-A *
28813839-A-C 26667692-A-C *
28812197-G-A 26666050-G-A *
28811085-G-A 26664938-G-A *
28801237-T-C 26655090-T-C *
28801208-T-G 26655061-T-G *
28800122-G-T 26653975-G-T *
28800120-T-A 26653973-T-A *
28800092-G-A 26653945-G-A *
15698757-GACACAC-G,GAC 13586877-GACACAC-G,GAC 24×AC*
28800091-G-A 26653944-G-A *
28800079-A-C 26653932-A-C *
28800061-G-A 26653914-G-A *
28800058-A-T 26653911-A-T *
28711545-GGTGT-G,GGT 26565398-GGTGT-G,GGT 21×GT*
28677248-G-GT 26531101-G-GT 12×T*
28461722-C-CT 26315575-C-CT 19×T*
27264837-T-TA 25118690-T-TA P1_g3 12×A*
22859809-T-G 20697923-T-G YY*
22661493-ATGTG-A,ATG 20499607-ATGTG-A,ATG 26×TG*
21766533-A-AAT,AATATAT 19604647-A-AAT,AATATAT 19×AT*
17580765-A-AT,ATT 15468885-A-AT,ATT 16×T*
16063171-GTTTCTTTC-G,GTTTC 13951291-GTTTCTTTC-G,GTTTC 14×TTTC*
9200475-A-T 9362866-A-T Y*
7758491-G-GTT 7890450-G-GTT 17×T*
13572309-C-T 11416633-C-T *
6401842-G-A 6533801-G-A *
13708897-A-C 11553221-A-C *
13706209-G-T 11550533-G-T *
13688915-G-A 11533239-G-A *
13688859-C-A 11533183-C-A *
13688774-T-A 11533098-T-A *
13485670-A-G 11329994-A-G *
13347573-G-T 11191897-G-T *
13347567-G-A 11191891-G-A *
13332044-G-T 11176368-G-T *
13196277-CCAACTT-C 11040601-CCAACTT-C *
13196201-T-C 11040525-T-C *
9995971-T-G 10158362-T-G Y*
6403301-T-C 6535260-T-C *
6177481-T-TTG,TTGTG 6309440-T-TTG,TTGTG IR3_Dst 23×TG*
28801235-C-T 26655088-C-T *
5043406-C-CT 5175365-C-CT 13×T*
2957650-A-G 3089609-A-G *
58986085-T-C 56839938-T-C *
58983151-T-G 56837004-T-G *
58981175-C-A 56835028-C-A *
58976927-C-T 56830780-C-T *
58976900-T-C 56830753-T-C *
58996381-C-G 56850234-C-G *
22510099-C-T 20348213-C-T DYZ19 *
22510026-C-T 20348140-C-T DYZ19 *
14990021-T-C 12878106-T-C YY*
13734365-T-G 11578689-T-G *
13690070-G-T 11534394-G-T *
13734337-G-T 11578661-G-T *
28801267-G-C 26655120-G-C *
7128621-CGTGT-C,CGT 7260580-CGTGT-C,CGT 23×GT*
2708411-CGAGAGA-C,CGA 2840370-CGAGAGA-C,CGA 23×GA*
6074688-ATGTGTG-A,ATG 6206647-ATGTGTG-A,ATG 22×TG*
6040928-C-CA 6172887-C-CA 12×A*
5797434-GAT-G,GATAT 5929393-GAT-G,GATAT 21×AT*
5569385-G-GA 5701344-G-GA 10×A*
5278189-A-C 5410148-A-C *
5260410-CA-C,CAA 5392369-CA-C,CAA 20×A*
4981838-GGTGT-G,GGT 5113797-GGTGT-G,GGT 14×GT*
4615111-T-C 4747070-T-C *
4136641-TACAC-T,TAC 4268600-TACAC-T,TAC 20×AC*
3558246-T-TAA 3690205-T-TAA 16×A*
3283471-G-A 3415430-G-A *
3141361-G-A 3273320-G-A *
2945859-T-C 3077818-T-C *
58986031-C-T 56839884-C-T *
28801269-A-G 26655122-A-G *
13719254-C-G 11563578-C-G *
13697143-T-C 11541467-T-C *
6043970-CTT-C 6175929-CTT-C 22×T*
4377969-CTT-C 4509928-CTT-C 19×T*
58986069-G-A 56839922-G-A *
58986064-A-T 56839917-A-T *
58986058-C-T 56839911-C-T *
58986046-C-T 56839899-C-T *
58978154-C-A 56832007-C-A *
58970180-A-G 56824033-A-G *
28805690-G-A 26659543-G-A *
28805688-G-C 26659541-G-C *
28805488-G-T 26659341-G-T *
58996386-A-C 56850239-A-C *
9992037-T-C 10154428-T-C Y*
58996364-C-T 56850217-C-T *
3103156-T-C 3235115-T-C *
13304394-T-C 11148718-T-C *
13293266-G-C 11137590-G-C *
13269787-T-C 11114111-T-C *
13268004-A-T 11112328-A-T *
13195033-A-T 11039357-A-T *
9941783-A-G 10104174-A-G Y*
6599779-C-G 6731738-C-G *
6403090-G-A 6535049-G-A *
6403070-T-C 6535029-T-C *
6401062-A-G 6533021-A-G *
5554449-C-T 5686408-C-T *
3103153-G-T 3235112-G-T *
13415419-G-A 11259743-G-A *
13489207-G-T 11333531-G-T *
13723233-G-A 11567557-G-A *
28503399-CAA-C 26357252-CAA-C 19×A*
3912233-CT-C 4044192-CT-C 14×T*
13398180-G-C 11242504-G-C *
13196316-C-T 11040640-C-T *
59028960-G-A 56882813-G-A *
59009176-T-C 56863029-T-C *
59009175-G-C 56863028-G-C *
22444154-G-T 20282268-G-T DYZ19 *
3012053-A-G 3144012-A-G *
13332090-C-T 11176414-C-T *
13443741-G-C 11288065-G-C *
13710297-A-G 11554621-A-G *
13718471-G-C 11562795-G-C *
58986106-G-C 56839959-G-C *
6403289-A-G 6535248-A-G *
28817939-G-T 26671792-G-T *
28817936-G-T 26671789-G-T *
28817910-C-A 26671763-C-A *
28796866-T-G 26650719-T-G *
28793496-G-T 26647349-G-T *
22508488-G-A 20346602-G-A DYZ19 *
6403276-A-T 6535235-A-T *
14107068-A-C 11986362-A-C YY*
13718806-G-A 11563130-G-A *
13706817-G-A 11551141-G-A *
13445666-A-G 11289990-A-G *
13705848-G-T 11550172-G-T *
13705589-T-A 11549913-T-A *
13694527-G-T 11538851-G-T *
13690596-C-G 11534920-C-G *
2960755-C-T 3092714-C-T *
13635012-G-A 11479336-G-A *
13592968-C-T 11437292-C-T *
2988490-C-G 3120449-C-G *
13447998-C-T 11292322-C-T *
13446371-T-G 11290695-T-G *
13446325-G-A 11290649-G-A *
13951501-GTA-G 11830795-GTA-G 9×TA*
13641120-T-C 11485444-T-C *
58986127-C-G 56839980-C-G *
5634963-A-G 5766922-A-G *
3830130-C-T 3962089-C-T YFS096886 *
4611504-G-A 4743463-G-A *
13259570-A-G 11103894-A-G *
4632812-G-A 4764771-G-A *
4632859-C-T 4764818-C-T *
5262270-C-T 5394229-C-T *
9974102-T-A 10136493-T-A Y*
5264527-C-G 5396486-C-G *
5554426-C-T 5686385-C-T *
5564088-A-G 5696047-A-G *
5630603-G-A 5762562-G-A *
5637400-T-C 5769359-T-C *
3577835-T-C 3709794-T-C *
5637628-C-G 5769587-C-G *
5653464-T-C 5785423-T-C *
6600473-C-T 6732432-C-T 9×T*
5653482-T-C 5785441-T-C *
6537379-G-A 6669338-G-A *
5770228-C-A 5902187-C-A *
5773148-T-C 5905107-T-C *
5943469-CTT-C 6075428-CTT-C *
6401066-T-C 6533025-T-C *
6403003-C-G 6534962-C-G *
6403049-G-A 6535008-G-A *
3580080-A-G 3712039-A-G *
3555279-G-A 3687238-G-A *
13641105-A-C 11485429-A-C *
13415445-C-T 11259769-C-T *
13640780-T-A 11485104-T-A *
13570641-C-T 11414965-C-T *
13569683-C-T 11414007-C-T *
13510820-T-C 11355144-T-C *
13510670-A-C 11354994-A-C *
13503433-T-C 11347757-T-C *
13445771-T-C 11290095-T-C *
13443535-T-G 11287859-T-G *
13435066-A-G 11279390-A-G *
13423471-G-T 11267795-G-T Z11551 *
13415491-C-A 11259815-C-A *
13415296-T-G 11259620-T-G *
13267464-GT-G 11111788-GT-G *
3061098-A-G 3193057-A-G *
13403722-A-G 11248046-A-G *
3072957-G-A 3204916-G-A *
13399342-C-T 11243666-C-T *
13399334-C-T 11243658-C-T *
3102808-A-G 3234767-A-G *
13398320-C-T 11242644-C-T *
3194136-C-G 3326095-C-G *
13398311-G-T 11242635-G-T *
13392768-CA-C 11237092-CA-C 11×A*
13367946-G-C 11212270-G-C *
14443816-T-A 12323089-T-A CTS2721 Y*
13688976-G-T 11533300-G-T *
58986211-A-C 56840064-A-C *
58992807-CG-C 56846660-CG-C *
5634005-C-A 5765964-C-A *
5653551-A-G 5785510-A-G *
6059545-C-CA 6191504-C-CA 12×A*
9931516-T-A 10093907-T-A Y*
13884529-C-CA 11763823-C-CA 17×A*
9931469-T-A 10093860-T-A Y*
9931467-T-A 10093858-T-A Y*
58996551-C-A 56850404-C-A *
2945865-C-A 3077824-C-A *
5227087-CAA-C 5359046-CAA-C 21×A*
14443801-T-A 12323074-T-A CTS2719 Y*
13711457-T-A 11555781-T-A *
3064734-G-A 3196693-G-A *
13375642-G-A 11219966-G-A *
13694687-G-A 11539011-G-A *
23551402-C-CT 21389516-C-CT 11×T*
28817647-AGGAATGGAATGGAATGGAATGGAAT-A,AGGAATGGAATGGAAT 26671500-AGGAATGGAATGGAATGGAATGGAAT-A,AGGAATGGAATGGAAT 9×GGAAT*
14443806-G-A 12323079-G-A CTS2720 Y*
16051188-A-C 13939308-A-C YY*
25379042-A-G 23232895-A-G P2_r2 *
59032893-A-G 56886746-A-G *
22490462-A-T 20328576-A-T BY3865BY13537 DYZ19 *
28571566-AT-A 26425419-AT-A 14×T*
13715058-A-G 11559382-A-G *
22989652-C-CT 20827766-C-CT 14×T*
13715059-C-T 11559383-C-T *
23127414-C-A 20965528-C-A YY24×A*
5795860-CTTT-C 5927819-CTTT-C 18×T*
13923558-A-T 11802852-A-T Y20×AT*
9179421-C-G 9341812-C-G Y*
13489327-C-T 11333651-C-T *
5055675-C-CA 5187634-C-CA 12×A*
13478262-G-A 11322586-G-A *
13472005-G-A 11316329-G-A *
58986066-G-C 56839919-G-C *
59009108-T-C 56862961-T-C *
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17218148-G-A 15106268-G-A ***
17246168-G-T 15134288-G-T ***
17372966-C-T 15261086-C-T ***
17452488-C-T 15340608-C-T ***
17639012-G-T 15527132-G-T ***
17679167-T-A 15567287-T-A 11×A***
24420865-C-A 22274718-C-A ***
17966117-G-T 15854237-G-T ***
13449374-C-T 11293698-C-T ***
59031195-G-A 56885048-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)

AllMcDonaldYFull
Kit: Y3XPA1547354894707118390270
Used in age calculations1547354894707118390270
Counts of SNPs5411
Variant counts last updated 2018-01-30 17:08:11.



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