Bain

BigY2: IN38390
MDKA Birth: Scotland

Tree Position

R-P312/S116 > Z290 > L21/S145 > S552 > DF13 > Z39589 > L1335/S530 > L1065 > Z16325 > S744 > S764 > ZZ28 > FGC18441 > FGC18447 > BY189624

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
IN38390
28816569-G-A 26670422-G-A A*
5275140-A-G 5407099-A-G BY186238 +
14872844-G-A 12760914-G-A BY190636 YY+
22486170-A-T 20324284-A-T BY224766 DYZ19 *
10024144-TCTCTTG-T 10186535-TCTCTTG-T **
17115298-C-A 15003418-C-A CTS6802 M5486 PF1715 **
7238314-C-A 7370273-C-A **
4357147-A-G 4489106-A-G PF92 **
18040700-T-A 15928820-T-A Y2446 M5740 **
58977720-C-A 56831573-C-A **
13488903-T-A 11333227-T-A **
15641829-C-A 13529949-C-A **
16905870-CAAAAAA-C 14793990-CAAAAAA-C 25×A**
21043011-C-A 18881125-C-A **
10763318-C-T **
10807118-CGTTCG-C **
18159129-C-A 16047249-C-A **
6858592-C-A 6990551-C-A 25×T**
56835181-C-G **
56835184-C-A **
56835189-C-T **
56835191-C-A **
56835197-T-C **
56835205-A-T **
21556942-TG-T 19395056-TG-T **
2729862-T-C 2861821-T-C **
26463097-CT-C 24316950-CT-C P1_Y1 36×T**
13726128-C-A 11570452-C-A **
20637572-G-GAGAT 18475686-G-GAGAT P4_Prx **
23068132-C-A 20906246-C-A **
4873708-C-A 5005667-C-A **
10629269-C-A **
14228678-C-A 12107972-C-A **
15658148-GTA-G 13546268-GTA-G **
10763350-C-T **
8279885-C-A 8411844-C-A **
10689080-T-C **
10959882-G-T **
21556971-C-A 19395085-C-A **
6748105-C-A 6880064-C-A **
7128111-C-A 7260070-C-A **
21412258-G-T 19250372-G-T **
10995776-C-G **
13798833-G-T 11678127-G-T **
9991197-C-A 10153588-C-A **
13453371-T-C 11297695-T-C **
10885308-G-T **
10689104-A-T **
56835213-G-T **
18329044-T-TG 16217164-T-TG P6_Prx **
10758011-A-T **
28556336-T-G 26410189-T-G **
11020227-T-C **
11020231-A-T **
7301607-C-A 7433566-C-A **
14240501-C-A 12119795-C-A **
7935758-G-C 8067717-G-C **
15744078-C-A 13632198-C-A **
28818181-G-T 26672034-G-T **
14888076-CTTTT-C 12776142-CTTTT-C 17×T**
14776883-G-T 12664952-G-T **
56835221-C-CTCCATTCGAT **
56835244-C-T **
24276941-A-AG 22130794-A-AG P3_b1 **
11036094-C-A **
11036139-C-A **
20927101-T-TG 18765215-T-TG P4_Dst **
26465355-C-A 24319208-C-A P1_Y1 14×A**
13974142-G-T 11853436-G-T **
10617690-C-A **
16417437-C-A 14305557-C-A **
6832069-C-A 6964028-C-A **
23779682-TA-T 21617796-TA-T **
23779685-A-G 21617799-A-G **
16058681-C-A 13946801-C-A **
7185426-C-A 7317385-C-A **
13705480-G-T 11549804-G-T **
10693323-C-A **
56834612-C-G **
4957697-C-A 5089656-C-A **
23372090-C-A 21210204-C-A **
13308742-C-A 11153066-C-A **
13999179-C-A 11878473-C-A **
19258829-C-A 17146949-C-A **
8093471-G-A 8225430-G-A **
15951900-TTGTGTG-T 13840020-TTGTGTG-T 13×TG**
23065828-C-A 20903942-C-A **
56830479-C-T **
8160177-GCA-G 8292136-GCA-G **
17185186-C-A 15073306-C-A **
18976593-C-A 16864713-C-A **
19310246-C-A 17198366-C-A **
21457284-C-A 19295398-C-A FT234621 **
13596962-C-A 11441286-C-A **
20620917-A-C 18459031-A-C P4_Prx **
3625996-C-A 3757955-C-A **
17071398-A-C 14959518-A-C **
10657333-T-C **
10971554-C-A **
16648165-C-T 14536285-C-T **
5621110-C-A 5753069-C-A **
17760512-C-A 15648632-C-A **
20943479-GTGTGTGT-G 18781593-GTGTGTGT-G P4_Dst **
3992085-C-A 4124044-C-A **
18730952-C-A 16619072-C-A **
10764567-T-TCCGAC **
10895094-C-A **
14247478-G-T 12126772-G-T **
11003735-C-CTAAAT **
6808169-G-T 6940128-G-T **
7145727-C-A 7277686-C-A **
17289513-C-A 15177633-C-A **
23007577-G-T 20845691-G-T **
14871083-C-A 12759153-C-A **
6314896-C-A 6446855-C-A IR3_Dst **
6930787-C-A 7062746-C-A **
15527707-C-A 13415827-C-A **
16361361-C-A 14249481-C-A **
16945614-C-A 14833734-C-A **
21663276-AAG-A 19501390-AAG-A **
22662494-C-A 20500608-C-A **
18753026-G-A 16641146-G-A **
7157711-C-A 7289670-C-A **
15253981-GA-G 13142067-GA-G 9×A**
13227417-C-A 11071741-C-A **
27762813-A-ACG 25616666-A-ACG P1_Y2 **
22662572-C-CT 20500686-C-CT 8×T**
2859279-C-A 2991238-C-A **
17752095-C-A 15640215-C-A **
13462256-C-G 11306580-C-G **
16045675-C-A 13933795-C-A **
10763331-C-T **
10657330-C-T **
10629203-G-C 4×ACTCC**
10889690-T-C **
16874283-C-A 14762403-C-A **
7319004-C-A 7450963-C-A **
10657374-C-A **
7076034-C-A 7207993-C-A **
2859482-A-AT 2991441-A-AT 8×T**
3271601-C-CTTT 3403560-C-CTTT 14×T**
3275893-A-T 3407852-A-T **
3476407-C-A 3608366-C-A **
3641420-A-G 3773379-A-G **
4129803-C-A 4261762-C-A **
4174935-A-G 4306894-A-G **
4538311-A-C 4670270-A-C **
4604853-C-A 4736812-C-A **
4671677-C-A 4803636-C-A **
4687613-G-A 4819572-G-A **
4958019-G-T 5089978-G-T **
4968341-C-T 5100300-C-T **
6119545-T-G 6251504-T-G **
6131640-C-A 6263599-C-A **
6226051-C-A 6358010-C-A IR3_Dst **
6234379-C-A 6366338-C-A IR3_Dst **
6337515-T-G 6469474-T-G IR3_Dst **
6337536-C-G 6469495-C-G IR3_Dst **
6337548-A-T 6469507-A-T IR3_Dst **
6356524-G-T 6488483-G-T **
6594966-C-A 6726925-C-A **
6891908-C-A 7023867-C-A **
6922384-T-G 7054343-T-G **
6929737-G-A 7061696-G-A **
7140913-A-T 7272872-A-T **
7222305-C-A 7354264-C-A **
7222578-G-T 7354537-G-T **
7237783-C-T 7369742-C-T **
7248011-C-A 7379970-C-A **
7274937-A-C 7406896-A-C **
7382400-C-A 7514359-C-A **
7385869-G-A 7517828-G-A **
7414056-C-A 7546015-C-A **
7544039-C-A 7675998-C-A **
7717608-T-TCCTTA 7849567-T-TCCTTA **
8080702-A-G 8212661-A-G **
9125369-C-A **
9312047-G-A 9474438-G-A **
9312095-C-T 9474486-C-T **
9511131-C-A 9673522-C-A **
9977417-A-G 10139808-A-G **
10763106-C-G **
10763301-C-T **
10763305-C-CCACGG **
10795204-C-T **
10799874-C-A **
10868156-C-A **
10894410-C-A **
10894481-C-A **
10915902-G-T **
10936396-C-A FT437253 **
10947077-T-C **
10975776-C-G **
11020280-C-T **
13476910-T-G 11321234-T-G **
13487495-G-A 11331819-G-A **
13489187-C-A 11333511-C-A **
13491638-A-G 11335962-A-G **
13643640-C-T 11487964-C-T **
13885169-TA-T 11764463-TA-T 8×A**
13902210-C-G 11781504-C-G **
13927420-T-G 11806714-T-G **
13941543-C-A 11820837-C-A **
14011172-G-T 11890466-G-T **
14029804-G-A 11909098-G-A **
14053616-A-G 11932910-A-G **
14097971-A-TT 11977265-A-TT **
14107665-G-A 11986959-G-A **
14192908-G-A 12072202-G-A **
14280852-C-A 12160146-C-A **
14328096-T-G 12207390-T-G **
14388539-C-A 12267835-C-A **
14468403-T-TAA 12347672-T-TAA 10×A**
14546885-C-A 12435086-C-A **
14743023-C-T 12631091-C-T **
14761494-C-A 12649563-C-A **
14965383-A-G 12853458-A-G **
14969100-C-A 12857175-C-A **
15087356-C-A 12975446-C-A **
15168272-C-A 13056358-C-A **
15258418-G-A 13146502-G-A **
15315355-A-G 13203460-A-G **
15409603-G-T 13297723-G-T **
15509308-G-A 13397428-G-A **
15618017-AT-A 13506137-AT-A **
15652541-C-A 13540661-C-A **
15682908-G-A 13571028-G-A FT403538 **
15761712-C-A 13649832-C-A **
15868009-C-A 13756129-C-A **
16062167-G-A 13950287-G-A **
16308922-C-A 14197042-C-A **
16648149-T-C 14536269-T-C **
16648157-C-T 14536277-C-T **
16648163-T-G 14536283-T-G **
16648166-A-G 14536286-A-G **
16648168-CG-C 14536288-CG-C **
16648186-G-GCA 14536306-G-GCA **
16648188-GCT-G 14536308-GCT-G **
16648208-G-T 14536328-G-T **
17032659-C-A 14920779-C-A **
17038571-C-A 14926691-C-A **
17071386-A-C 14959506-A-C **
17090538-T-C 14978658-T-C **
17104033-G-T 14992153-G-T **
17191369-T-C 15079489-T-C **
17225800-C-A 15113920-C-A **
17279644-T-A 15167764-T-A **
17559810-A-C 15447930-A-C **
17722448-C-A 15610568-C-A **
17779552-C-G 15667672-C-G **
17779556-G-A 15667676-G-A FT42801 **
17876562-A-T 15764682-A-T **
17982022-A-G 15870142-A-G **
18079328-T-G 15967448-T-G **
18365447-C-A 16253567-C-A P6_Prx **
18388243-C-A 16276363-C-A P6_Gap **
18546948-T-A 16435068-T-A **
18596379-C-A 16484499-C-A **
18646331-C-A 16534451-C-A **
18756224-C-A 16644344-C-A **
18892013-C-A 16780133-C-A **
19121974-C-A 17010094-C-A **
19213391-C-A 17101511-C-A **
19378105-C-A 17266225-C-A **
19438553-G-A 17326673-G-A **
19536975-C-A 17425095-C-A **
19857589-A-C 17745709-A-C P5_Prx **
20998194-C-A 18836308-C-A P4_Dst **
21238082-A-C 19076196-A-C **
21455351-C-A 19293465-C-A **
21677285-C-A 19515399-C-A **
21814161-T-G 19652275-T-G **
22021539-A-C 19859653-A-C **
22085553-C-A 19923667-C-A FGC7594 **
22351200-C-A 20189314-C-A DYZ19 **
22423857-G-C 20261971-G-C DYZ19 **
22514460-C-A 20352574-C-A **
22514488-C-A 20352602-C-A **
22538317-A-T 20376431-A-T **
22857887-A-C 20696001-A-C **
22951480-C-A 20789594-C-A **
23024788-TAA-T 20862902-TAA-T **
23142651-C-A 20980765-C-A **
23779689-T-A 21617803-T-A **
23802371-C-T 21640485-C-T **
23831427-C-G 21669541-C-G **
23955103-C-A 21808956-C-A **
24518599-G-T 22372452-G-T **
26234893-GAA-G 24088746-GAA-G P1_Y1 **
26234896-GA-G 24088749-GA-G P1_Y1 **
27216670-G-A 25070523-G-A P1_g3 **
27647709-C-A 25501562-C-A P1_Y2 **
27862580-CAAAGGGAGAGAGAGAGAGAGAGAA-C 25716433-CAAAGGGAGAGAGAGAGAGAGAGAA-C P1_Y2 **
28529805-C-T 26383658-C-T **
28635765-TTTAAAAGATTTAAATCA-T 26489618-TTTAAAAGATTTAAATCA-T **
56831535-T-C **
56831540-T-A **
58977695-A-C 56831548-A-C **
56831592-A-C **
56835772-C-A **
56847437-C-A **
56866772-C-T **
56866774-G-C **
16564401-C-T 14452521-C-T ***
17817960-CT-C 15706080-CT-C 10×T***
23860479-AT-A 21698593-AT-A 9×T***
24508205-CTTTT-C 22362058-CTTTT-C 22×T***
13489810-G-A 11334134-G-A ***
21561410-C-A 19399524-C-A ***
28095960-G-GT 25949813-G-GT P1_Y2 9×T***
13447897-G-AGTGCATTCCA 11292221-G-AGTGCATTCCA ***
16648237-C-G 14536357-C-G ***
3500844-CT-C 3632803-CT-C 9×T***
28155820-G-T 26009673-G-T P1_b4 ***
21694202-C-A 19532316-C-A ***
16648251-T-C 14536371-T-C FTB17657 ***
22518753-T-TAA 20356867-T-TAA 14×A***
17755384-TA-T,TAAA 15643504-TA-T,TAAA 17×A***
13212671-C-A 11056995-C-A ***
17815308-AT-A,ATT 15703428-AT-A,ATT 12×T***
13253396-G-GTTTTT,GTTTTTT 11097720-G-GTTTTT,GTTTTTT 12×T***
14781273-C-A 12669343-C-A ***
2836398-C-T 2968357-C-T ***
2848319-C-A 2980278-C-A ***
5557740-C-A 5689699-C-A ***
6652394-C-A 6784353-C-A ***
8389569-CTTTTTTTTT-C,CTTTTTT 8521528-CTTTTTTTTT-C,CTTTTTT 25×T***
8760517-CTTTTTT-C,CTTTTTTT 8892476-CTTTTTT-C,CTTTTTTT 20×T***
13316048-C-A 11160372-C-A ***
13671246-G-T 11515570-G-T ***
14009203-C-A 11888497-C-A FGC45595 ***
14168358-CAACATGGA-C 12047652-CAACATGGA-C ***
14221128-C-A 12100422-C-A ***
14398135-C-A 12277431-C-A ***
15002073-G-A 12890158-G-A ***
15198444-A-G 13086530-A-G ***
15217346-C-A 13105432-C-A ***
15372118-A-G 13260238-A-G ***
15761281-TG-T 13649401-TG-T ***
15852458-TAAAA-T 13740578-TAAAA-T ***
16029852-G-A 13917972-G-A ***
16938218-CTTTTTT-C,CTT 14826338-CTTTTTT-C,CTT 19×T***
17589232-G-T 15477352-G-T ***
17633937-C-A 15522057-C-A ***
18102738-C-A 15990858-C-A ***
18765137-G-A 16653257-G-A ***
18873073-C-A 16761193-C-A ***
19344960-GT-G 17233080-GT-G ***
22032398-C-A 19870512-C-A ***
22113187-CAAAAAA-C 19951301-CAAAAAA-C 23×A***
22161812-C-A 19999926-C-A ***
22585591-A-G 20423705-A-G ***
22934356-T-C 20772470-T-C ***
23061777-C-T 20899891-C-T ***
23272644-C-A 21110758-C-A ***
23382033-C-A 21220147-C-A ***
23511714-T-C 21349828-T-C ***
23836967-C-A 21675081-C-A ***
24404726-C-A 22258579-C-A ***
28661426-CATGCA-C 26515279-CATGCA-C ***

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.