van den Hoek

BigY2: 246922
MDKA Birth: Netherlands

Tree Position

R-P312/S116 > Z40481 > ZZ11 > DF27/S250 > ZZ12 > Z46512 > FGC20747 > A11751

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
246922
22265996-C-A 20104110-C-A DYZ19 A*
13687677-G-A 11532001-G-A A*
19574402-C-G 17462522-C-G P5_Prx YA*
19617823-T-A 17505943-T-A P5_Prx YA*
19691238-T-C 17579358-T-C P5_Prx A*
22224319-C-A 20062433-C-A DYZ19 A*
22315833-G-C 20153947-G-C DYZ19 A*
26164627-G-A 24018480-G-A P1_Y1 A*
2702221-G-A 2834180-G-A BY55871 YY+
7172700-C-T 7304659-C-T YY+
7178192-T-C 7310151-T-C BY42480 YY+
7336574-T-C 7468533-T-C Y20867 YY+
7367926-C-A 7499885-C-A BY42481 YY+
7408273-T-C 7540232-T-C BY42482 YY+
7541833-AG-A 7673792-AG-A +
7635379-C-T 7767338-C-T Y84520 YY+
7870551-A-C 8002510-A-C BY42483 YY+
7942714-G-A 8074673-G-A BY68941 YY+
8625243-C-T 8757202-C-T BY74681 YY+
13409486-A-G 11253810-A-G BY42484 +
13422741-A-T 11267065-A-T BY85297 +
14654864-C-G 12542929-C-G BY96995 YY+
14924978-G-A 12813043-G-A YSC0000688 YY+
16778876-G-A 14666996-G-A BY42485 YY+
16880346-A-G 14768466-A-G BY42486 YY+
17303166-A-G 15191286-A-G BY113644 YY+
18214599-A-T 16102719-A-T BY120918 YY+
19525758-A-T 17413878-A-T YY+
21710429-C-A 19548543-C-A BY42488 YY+
22072204-A-G 19910318-A-G S23942 YY+
22887763-C-CA 20725877-C-CA +
23035571-A-G 20873685-A-G BY42489 YY+
23986572-A-T 21840425-A-T BY42490 Y+
27855297-T-C 25709150-T-C BY42491 P1_Y2 +
28784702-A-G 26638555-A-G BY42492 +
22984-G-T +
13455793-C-CTATTCCA 11300117-C-CTATTCCA *
22257722-G-T 20095836-G-T BY6720 DYZ19 *
15336019-C-CAA 13224137-C-CAA 30×A**
14019380-C-A 11898674-C-A **
13457699-T-G 11302023-T-G **
23123178-C-A 20961292-C-A **
9077316-G-T 9239707-G-T **
10844885-A-T **
10660847-C-A **
11024508-G-A FGC80171 **
14888143-C-A 12776209-C-A **
13577760-C-A 11422084-C-A **
15193614-T-G 13081700-T-G **
16048939-C-A 13937059-C-A **
10828979-G-T FT390886 **
10763033-T-C **
16603330-C-A 14491450-C-A **
2708705-G-C 2840664-G-C **
2708706-C-T 2840665-C-T **
2708717-G-A 2840676-G-A **
2708724-C-A 2840683-C-A **
2708727-C-G 2840686-C-G **
2729646-G-T 2861605-G-T **
2860184-A-G 2992143-A-G FGC41620 **
2914912-C-A 3046871-C-A **
3164749-C-A 3296708-C-A **
3354243-C-A 3486202-C-A **
3518186-C-A 3650145-C-A **
3625962-T-C 3757921-T-C **
3804622-AATAATTAAAATTAAAAATTAAACTAATAAAAC-A 3936581-AATAATTAAAATTAAAAATTAAACTAATAAAAC-A **
3876101-A-C 4008060-A-C **
3877049-G-A 4009008-G-A **
3927834-AT-A 4059793-AT-A **
4215868-G-T 4347827-G-T **
4215916-C-T 4347875-C-T **
4215945-G-T 4347904-G-T **
4223225-C-A 4355184-C-A **
4270761-C-A 4402720-C-A **
4357863-G-C 4489822-G-C FT85883 **
4433902-C-A 4565861-C-A **
4928963-A-T 5060922-A-T **
4990413-T-A 5122372-T-A **
5081843-GA-G 5213802-GA-G 10×A**
5292181-C-A 5424140-C-A **
5294374-C-A 5426333-C-A **
5585991-C-A 5717950-C-A **
5592928-G-T 5724887-G-T **
5782069-TA-T 5914028-TA-T **
6062993-G-T 6194952-G-T **
6395169-C-A 6527128-C-A **
6775346-C-A 6907305-C-A **
6922652-C-A 7054611-C-A **
6934659-A-C 7066618-A-C **
7167167-C-A 7299126-C-A **
7186219-C-A 7318178-C-A **
7255403-G-A 7387362-G-A **
7314595-A-G 7446554-A-G **
7318616-T-C 7450575-T-C **
7319277-G-T 7451236-G-T **
7420638-A-G 7552597-A-G **
7433466-C-A 7565425-C-A **
7451282-T-C 7583241-T-C IR1_L **
7453564-GCA-G 7585523-GCA-G IR1_L **
7617699-C-A 7749658-C-A **
7764516-C-A 7896475-C-A **
8078650-G-T 8210609-G-T **
8525337-T-A 8657296-T-A **
8692433-G-T 8824392-G-T **
8987187-G-C 9149578-G-C **
9015927-T-C 9178318-T-C **
9040235-T-A 9202626-T-A **
9172396-C-A 9334787-C-A **
9927323-A-C 10089714-A-C **
9945717-G-A 10108108-G-A **
9965991-C-A 10128382-C-A **
9986186-G-T 10148577-G-T **
10012919-T-A 10175310-T-A **
10024359-G-T 10186750-G-T **
10057938-C-A 10220329-C-A **
10652675-T-C **
10652680-T-C **
10652684-A-G **
10652689-C-T **
10652695-C-T **
10659129-T-C FT428403 **
10659135-A-C FT428404 **
10660835-T-G **
10661174-T-A **
10663327-T-C **
10666693-GTATTT-G **
10679369-GTCCAT-G **
10683695-T-A **
10683697-T-C **
10683702-T-C **
10683710-T-C **
10683717-C-T **
10683719-G-C **
10689495-ACTC-A **
10689501-TTC-T **
10689510-A-T **
10689515-A-T **
10689524-A-C **
10689536-T-C **
10689541-C-G **
10748270-T-A **
10748274-T-C **
10748281-C-G **
10749054-C-A **
10753307-C-A **
10753552-T-A **
10753568-C-G **
10754936-C-T **
10754947-CA-C **
10754950-T-TC **
10754972-C-G **
10759817-T-A **
10759843-T-C **
10764839-C-A **
10770759-C-T **
10770764-C-T FT430457 **
10770780-A-T **
10770790-A-T **
10771054-C-A **
10776975-C-A **
10795519-C-A **
10799887-C-A **
10825573-G-T **
10825724-C-A **
10828973-C-T **
10830675-T-TC **
10830684-C-A **
10830686-A-T **
10830720-CTTTCT-C **
10830730-T-A **
10830734-C-A **
10830738-C-T **
10830746-G-A **
10844844-A-G **
10844883-C-A **
10871111-C-T **
10877817-C-T **
10883633-T-A **
10883644-C-T **
10890370-C-A **
10892559-A-ACTC **
10892560-T-TAC **
10892577-C-CCACTA **
10895181-A-G **
10895295-C-A **
10895852-A-AC **
10896090-C-A **
10906554-G-T **
10918212-G-T **
10918256-T-C **
10924298-A-T **
10925932-T-G **
10925935-C-G **
10927800-T-A **
10931110-C-A **
10940504-T-G **
10942688-A-G **
10942693-A-T **
10950148-C-A **
10956319-C-T **
10956564-C-A **
10958567-A-C **
10972917-C-A **
10974763-C-A **
10975391-C-G **
10976017-T-G **
10977872-G-T **
10993116-A-T **
10996603-C-A **
11003447-T-C **
11009360-C-T **
11015207-CT-C **
11015214-GCAC-G **
11015224-C-CCG **
11015227-TC-T **
11015233-T-A **
11015273-T-G **
11018145-C-G **
11018147-T-C **
11018149-T-A **
11018160-TTTCTG-T **
11024505-C-G **
11025036-T-G **
11025039-A-G **
11029610-TTCCCC-T **
13255557-C-A 11099881-C-A **
13315689-C-A 11160013-C-A FT442797 **
13454791-C-A 11299115-C-A **
13457693-T-A 11302017-T-A **
13478169-G-A 11322493-G-A **
13527622-C-A 11371946-C-A **
13557801-C-T 11402125-C-T **
13594640-T-C 11438964-T-C **
13602130-C-G 11446454-C-G BY86659 **
13643412-T-A 11487736-T-A **
11657330-A-C **
11657348-A-C **
13902952-G-T 11782246-G-T **
14093475-TTACA-T 11972769-TTACA-T **
14159668-C-T 12038962-C-T **
14270593-C-A 12149887-C-A **
14273001-G-T 12152295-G-T **
14420425-C-A 12299700-C-A **
14491361-C-A 12379558-C-A **
14512522-C-A 12400727-C-A **
14702487-C-A 12590553-C-A **
14712181-G-A 12600248-G-A **
14730581-T-A 12618649-T-A **
14743037-C-G 12631105-C-G **
14743833-G-A 12631902-G-A **
14764377-C-A 12652446-C-A **
15131688-C-A 13019775-C-A **
15138122-C-A 13026209-C-A **
15158839-C-A 13046925-C-A **
15171425-G-A 13059511-G-A **
15193599-T-G 13081685-T-G **
15193604-T-G 13081690-T-G **
15215550-C-A 13103636-C-A **
15338801-C-A 13226919-C-A **
15394336-C-A 13282456-C-A **
15442310-C-G 13330430-C-G **
15600036-C-A 13488156-C-A **
15659117-C-A 13547237-C-A **
15689056-C-A 13577176-C-A **
15731295-T-A 13619415-T-A **
15903965-C-A 13792085-C-A **
15924153-C-A 13812273-C-A **
16004559-G-T 13892679-G-T **
16084212-G-T 13972332-G-T **
16269362-C-A 14157482-C-A **
16344612-C-A 14232732-C-A **
16424574-G-T 14312694-G-T **
16571772-A-C 14459892-A-C **
16876976-T-G 14765096-T-G **
16988839-G-A 14876959-G-A **
17053208-C-A 14941328-C-A **
17079013-C-A 14967133-C-A **
17115085-C-A 15003205-C-A **
17135905-T-C 15024025-T-C **
17167835-C-A 15055955-C-A **
17269659-G-T 15157779-G-T **
17346081-T-A 15234201-T-A **
17693608-C-A 15581728-C-A **
17733547-G-T 15621667-G-T **
17756752-C-G 15644872-C-G **
17913053-C-A 15801173-C-A FT90653 **
17926954-A-AT 15815074-A-AT 9×T**
18035845-C-A 15923965-C-A 8×T**
18196438-C-T 16084558-C-T **
18255072-G-A 16143192-G-A FT87093 **
18277866-G-T 16165986-G-T P6_Prx **
18367676-G-A 16255796-G-A P6_Prx **
18779378-C-G 16667498-C-G **
18779388-T-A 16667508-T-A **
18789932-G-T 16678052-G-T **
18793413-T-G 16681533-T-G FT181527 **
18831662-C-A 16719782-C-A **
20025593-C-A 17913713-C-A P5_Prx **
20707634-G-T 18545748-G-T P4_Prx **
21009139-TATATATA-T 18847253-TATATATA-T P4_Dst **
21084407-G-A 18922521-G-A **
21106933-T-G 18945047-T-G **
21106941-G-T 18945055-G-T **
21109943-C-A 18948057-C-A **
21134909-C-A 18973023-C-A **
21308861-A-T 19146975-A-T FT87217 **
21428676-C-A 19266790-C-A **
21464484-C-T 19302598-C-T **
21464492-G-C 19302606-G-C **
21912400-T-G 19750514-T-G **
22041652-C-A 19879766-C-A **
22088829-C-A 19926943-C-A **
22241681-C-A 20079795-C-A DYZ19 **
22483632-G-A 20321746-G-A DYZ19 **
22485081-A-T 20323195-A-T DYZ19 **
22485084-T-C 20323198-T-C DYZ19 **
22485092-T-C 20323206-T-C DYZ19 **
22659653-C-A 20497767-C-A **
22782143-C-A 20620257-C-A **
22991266-C-A 20829380-C-A **
23036948-C-G 20875062-C-G **
23041198-GAAAA-G 20879312-GAAAA-G 34×A**
23258041-T-TAA 21096155-T-TAA 9×A**
23770019-G-C 21608133-G-C BY147572 **
24221250-C-A 22075103-C-A P3_b1 **
24378505-C-A 22232358-C-A **
24445491-C-A 22299344-C-A **
24475102-G-T 22328955-G-T **
24568395-AT-A 22422248-AT-A P3_t2 **
26320954-G-T 24174807-G-T P1_Y1 **
27767950-CAAAACA-C 25621803-CAAAACA-C P1_Y2 **
27968148-G-GA 25822001-G-GA P1_Y2 9×A**
28008036-CAAAA-C 25861889-CAAAA-C P1_Y2 17×A**
28432624-G-T 26286477-G-T P1_gr2 **
28479135-C-A 26332988-C-A **
28513882-A-G 26367735-A-G **
28703530-C-A 26557383-C-A **
28768752-C-T 26622605-C-T **
28774413-C-A 26628266-C-A **
28798831-C-A 26652684-C-A **
56750039-TG-T **
56838459-A-C **
56851208-T-A **
56887097-A-C **
24304-C-A **
24318-C-A **
18592167-CAAAAAA-C 16480287-CAAAAAA-C 18×A***
19204063-C-A 17092183-C-A ***
3271601-CTT-C,CT 3403560-CTT-C,CT 14×T***
2802819-TT-G,TG 2934778-TT-G,TG ***
3093661-C-A 3225620-C-A ***
3535985-TGCATATA-T 3667944-TGCATATA-T ***
4540459-C-A 4672418-C-A ***
4756296-CATCT-C 4888255-CATCT-C ***
5560254-C-A 5692213-C-A ***
6916911-TA-T 7048870-TA-T ***
7142636-C-A 7274595-C-A ***
7144032-C-A 7275991-C-A ***
7774129-C-A 7906088-C-A ***
8013402-TG-T 8145361-TG-T ***
8502008-A-AATAAAGAG 8633967-A-AATAAAGAG ***
9952257-C-A 10114648-C-A ***
10652659-A-C ***
10760336-A-G ***
10995855-C-CA,G ***
13463588-C-T 11307912-C-T ***
14701176-C-A 12589242-C-A ***
14969173-A-AGG 12857248-A-AGG ***
15954134-C-A 13842254-C-A ***
15982194-C-A 13870314-C-A ***
16244884-G-T 14133004-G-T ***
16710926-ATATATAAATTATGTATATGAATATAACAAAATATATATT-A 14599046-ATATATAAATTATGTATATGAATATAACAAAATATATATT-A ***
16889744-A-G 14777864-A-G ***
16905870-CAAAAAAAAA-C 14793990-CAAAAAAAAA-C 25×A***
17145728-G-GAA 15033848-G-GAA 11×A***
17283531-T-C 15171651-T-C ***
18159932-C-A 16048052-C-A ***
21731218-C-A 19569332-C-A ***
21762364-A-G 19600478-A-G ***
22244960-C-T 20083074-C-T DYZ19 ***
22551591-G-T 20389705-G-T ***
22600501-A-G 20438615-A-G ***
22732813-C-A 20570927-C-A ***
22770962-C-A 20609076-C-A ***
23000032-C-A 20838146-C-A ***
23276123-C-A 21114237-C-A ***
23350716-T-C 21188830-T-C ***
24660685-C-A 22514538-C-A P3_b2 ***
28766437-CAA-C,CAAA 26620290-CAA-C,CAAA 17×A***
28798684-G-A 26652537-G-A ***
56847312-G-T ***
56848562-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.