Tree Position

R-P312/S116 > Z290 > L21/S145 > S552 > DF13 > ZZ10 > Z253 > ZZ6 > FGC3249 > FGC3236 > FGC3251 > FGC3263 > L430 > FGC3241

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
3923867-G-A 4055826-G-A A*
5138475-G-A 5270434-G-A A*
20040450-G-C 17928570-G-C P5_Prx A*
20040458-G-C 17928578-G-C P5_Prx A*
20040466-G-C 17928586-G-C BY212060 P5_Prx A*
20040474-G-C 17928594-G-C BY196756 P5_Prx A*
10940366-C-A A*
6401671-G-A 6533630-G-A A*
10877668-C-T A*
10989482-T-C A*
10767618-T-C A*
10983631-A-T A*
11015005-T-C FT354105 A*
10647762-C-A A*
10888649-A-C A*
10888685-T-A A*
10888716-T-A A*
11015002-T-A A*
11015003-T-A A*
11015010-C-A A*
11015022-T-A A*
11015024-C-T A*
11015025-C-T A*
13471974-G-A 11316298-G-A A*
13471985-C-G 11316309-C-G A*
20040442-A-C 17928562-A-C P5_Prx A*
13195521-T-C 11039845-T-C A*
28785889-T-A 26639742-T-A A*
28789468-G-A 26643321-G-A A*
13471908-C-T 11316232-C-T A*
16952347-T-C 14840467-T-C YYA*
56831609-C-T A*
3978590-T-A 4110549-T-A A*
4800088-A-G 4932047-A-G A*
13451609-C-A 11295933-C-A A*
11001902-CCACTC-C,CCATTG *
13478796-TA-T,TG 11323120-TA-T,TG *
6402173-A-G 6534132-A-G *
13808755-G-A 11688049-G-A **
13141816-T-C 10631302-T-C **
13468516-T-C 11312840-T-C **
18345947-C-A 16234067-C-A BY211761 P6_Prx **
3736474-AT-A 3868433-AT-A 10×T**
4937651-A-AT 5069610-A-AT 10×T**
13468488-G-T 11312812-G-T **
14068352-CT-C 11947646-CT-C 9×T**
16943460-C-A 14831580-C-A **
6314965-G-T 6446924-G-T IR3_Dst **
13808723-T-G 11688017-T-G **
19053011-C-CTT 16941131-C-CTT 12×T**
13206784-CAA-C 11051108-CAA-C 14×A**
13585053-CAAAA-C 11429377-CAAAA-C 19×A**
8599980-A-T 8731939-A-T **
4468316-CAA-C 4600275-CAA-C 12×A**
18303643-T-C 16191763-T-C P6_Prx **
2782171-TTTTTC-T 2914130-TTTTTC-T **
3214253-T-C 3346212-T-C **
3338902-T-C 3470861-T-C **
3431130-C-A 3563089-C-A **
3862068-TG-T 3994027-TG-T **
3870853-C-T 4002812-C-T **
4056431-G-A 4188390-G-A **
4134457-G-A 4266416-G-A **
4321067-C-T 4453026-C-T **
4758095-A-C 4890054-A-C **
4787941-C-G 4919900-C-G **
4828166-AT-A 4960125-AT-A 8×T**
4995639-A-G 5127598-A-G **
5084385-A-T 5216344-A-T **
5140995-C-A 5272954-C-A **
5207612-C-T 5339571-C-T **
5214524-A-T 5346483-A-T **
5386510-A-G 5518469-A-G **
5757054-G-C 5889013-G-C **
6409952-A-G 6541911-A-G **
6417619-T-C 6549578-T-C **
6501123-T-C 6633082-T-C **
6504698-A-G 6636657-A-G **
7969552-A-G 8101511-A-G **
14123201-T-C 12002495-T-C **
14777572-C-A 12665641-C-A **
15142456-A-G 13030543-A-G **
15414020-G-A 13302140-G-A **
15962190-G-A 13850310-G-A **
16499486-T-C 14387606-T-C **
16650967-G-A 14539087-G-A **
17689310-G-C 15577430-G-C **
17856800-C-T 15744920-C-T **
17868827-T-A 15756947-T-A **
18068779-A-G 15956899-A-G **
18417312-A-T 16305432-A-T P6_Gap **
18986861-T-C 16874981-T-C **
21141250-T-C 18979364-T-C **
21601063-A-G 19439177-A-G **
21969984-AT-A 19808098-AT-A **
22618592-T-G 20456706-T-G **
23601200-T-A 21439314-T-A **
25955908-G-A 23809761-G-A P1_Y1 **
26204104-T-C 24057957-T-C P1_Y1 **
27810267-A-AG 25664120-A-AG P1_Y2 **
28515523-TAA-T 26369376-TAA-T 11×A**
28594752-T-C 26448605-T-C **
17298771-G-GA 15186891-G-GA 9×A***
7611640-T-TAC 7743599-T-TAC 16×AC***
3005277-A-G 3137236-A-G FT66045 ***
3032464-G-T 3164423-G-T ***
3545070-T-A 3677029-T-A M170[I]P212 PF3580 ***
59030572-TTA-T 56884425-TTA-T 8×TA***
22737231-CAAAAA-C 20575345-CAAAAA-C 18×A***
9839408-C-T 10001799-C-T ***
5862622-A-G 5994581-A-G ***
16952665-C-T 14840785-C-T ***
58968173-A-G 56822026-A-G ***
13258166-GT-G 11102490-GT-G 10×T***
16228132-G-A 14116252-G-A ***
23193369-GA-G 21031483-GA-G 10×A***
14642670-CT-C 12530739-CT-C 10×T***
8034114-A-AT 8166073-A-AT 10×T***
6597340-TA-T 6729299-TA-T 28×A***
13455968-C-A 11300292-C-A ***
13455916-T-C 11300240-T-C BY85448 ***
10834865-C-T ***
10834902-T-A ***
10673218-T-C ***
23263317-CTTT-C 21101431-CTTT-C 13×T***
14754067-CTTTT-C 12642136-CTTTT-C 27×T***
10807117-T-C ***
10807123-G-C FT432083 ***
6910435-CT-C,CTT 7042394-CT-C,CTT 16×T***
13504498-C-CA 11348822-C-CA 12×A***
13842666-T-TCATCC 11721960-T-TCATCC ***
16369735-G-GAA 14257855-G-GAA 15×A***
10654441-C-A ***
13441632-G-A 11285956-G-A 11×A***
28493992-C-CA 26347845-C-CA 10×A***
13461818-G-A 11306142-G-A ***
13461833-C-G 11306157-C-G ***
4806344-G-A 4938303-G-A ***
15479942-CTTT-C,CTT 13368062-CTTT-C,CTT 21×T***
16612636-CTT-C,CT 14500756-CTT-C,CT 15×T***
9951062-CA-C 10113453-CA-C 9×A***
10654382-C-T ***
28523123-C-CT 26376976-C-CT 9×T***
13453139-C-G 11297463-C-G ***
18384490-C-CAA 16272610-C-CAA P6_Gap 19×A***
18682482-A-G 16570602-A-G ***
13453231-T-C 11297555-T-C ***
15413333-C-T 13301453-C-T ***
13458052-ATTCCT-A 11302376-ATTCCT-A ***
21698933-CT-C 19537047-CT-C 9×T***
14363164-AT-A,ATT 12242459-AT-A,ATT 16×T***
17419439-ATTT-A,AT 15307559-ATTT-A,AT 25×T***
8221228-CT-C,CTT 8353187-CT-C,CTT 16×T***
7148013-CTTTT-C,CTT 7279972-CTTTT-C,CTT 17×T***
13455924-C-A 11300248-C-A ***
13455939-C-A 11300263-C-A ***
13455949-C-T 11300273-C-T ***
10632392-T-G ***
16311760-GA-G 14199880-GA-G 8×A***
13843942-A-G 11723236-A-G ***
5945467-CTTT-C,CTT 6077426-CTTT-C,CTT 25×T***
13455987-T-C 11300311-T-C ***
9932077-AGTTT-C 10094468-AGTTT-C ***
3474685-TA-T 3606644-TA-T 8×A***
9334631-T-C 9497022-T-C ***
6415494-G-C 6547453-G-C ***
18235683-CAA-C 16123803-CAA-C 12×A***
22973869-T-TAA 20811983-T-TAA 17×A***
2798597-T-C 2930556-T-C ***
2861505-A-G 2993464-A-G ***
2861682-G-C 2993641-G-C ***
2921083-T-C 3053042-T-C ***
3019243-G-A 3151202-G-A ***
3231210-G-C 3363169-G-C ***
3271715-C-T 3403674-C-T FT364279 ***
3389755-G-A 3521714-G-A ***
3389758-T-C 3521717-T-C ***
3507828-G-A 3639787-G-A ***
3578593-C-T 3710552-C-T ***
3716263-G-A 3848222-G-A ***
3736654-A-G 3868613-A-G ***
3737612-C-CT 3869571-C-CT ***
3745601-AT-A 3877560-AT-A ***
3802333-C-A 3934292-C-A ***
3840271-T-C 3972230-T-C ***
3959688-A-G 4091647-A-G ***
4052946-A-T 4184905-A-T ***
4099464-A-G 4231423-A-G ***
4113762-A-T 4245721-A-T ***
4174560-G-A 4306519-G-A ***
4201382-GA-G,GAAA 4333341-GA-G,GAAA 11×A***
4272790-AT-A 4404749-AT-A ***
4282362-AT-A 4414321-AT-A ***
4971768-T-C 5103727-T-C ***
4974669-G-C 5106628-G-C ***
5050104-A-G 5182063-A-G ***
5270701-T-TTC 5402660-T-TTC ***
5271364-G-A 5403323-G-A ***
5273557-G-A 5405516-G-A ***
5277455-G-A 5409414-G-A ***
5357601-A-T 5489560-A-T ***
5361125-TA-T 5493084-TA-T ***
6060571-T-C 6192530-T-C ***
6090904-T-C 6222863-T-C ***
6463080-T-C 6595039-T-C ***
6604058-T-C 6736017-T-C ***
6616939-A-T 6748898-A-T ***
6652504-A-G 6784463-A-G ***
6662086-ATT-A 6794045-ATT-A 11×T***
7092579-TG-T 7224538-TG-T ***
7177016-G-A 7308975-G-A ***
7240334-T-C 7372293-T-C ***
7443963-A-G 7575922-A-G ***
7578324-TG-T 7710283-TG-T ***
7848763-A-C 7980722-A-C ***
8722516-T-C 8854475-T-C BY75443 ***
9419930-G-A 9582321-G-A ***
13258514-C-T 11102838-C-T ***
13455986-T-C 11300310-T-C ***
13482192-T-C 11326516-T-C ***
13498786-C-T 11343110-C-T ***
13541918-T-C 11386242-T-C ***
13919244-T-C 11798538-T-C ***
13922794-A-C 11802088-A-C ***
13962320-G-T 11841614-G-T ***
14637202-T-C 12525271-T-C ***
14701376-C-T 12589442-C-T ***
14708943-A-T 12597009-A-T ***
14958509-G-A 12846584-G-A ***
14997032-C-A 12885117-C-A ***
15026401-T-C 12914489-T-C ***
15076386-T-C 12964476-T-C ***
15083406-T-C 12971496-T-C ***
15103385-T-C 12991473-T-C ***
15145415-C-T 13033502-C-T FTB28661 ***
15209272-A-G 13097358-A-G ***
15368375-T-C 13256495-T-C ***
15487823-G-T 13375943-G-T ***
15518749-CT-C 13406869-CT-C ***
15894323-A-G 13782443-A-G ***
15938078-CATAT-C 13826198-CATAT-C ***
15976348-T-C 13864468-T-C ***
16204073-T-C 14092193-T-C ***
16205924-C-T 14094044-C-T ***
16401967-GTATATA-G 14290087-GTATATA-G ***
16533849-G-C 14421969-G-C ***
16829213-G-C 14717333-G-C ***
16834485-C-G 14722605-C-G ***
16945899-G-GA 14834019-G-GA 9×A***
17169094-G-A 15057214-G-A ***
17331074-T-TA 15219194-T-TA 9×A***
17340271-T-C 15228391-T-C ***
17359771-A-G 15247891-A-G ***
17414442-C-T 15302562-C-T ***
17448103-T-C 15336223-T-C ***
17619784-A-C 15507904-A-C ***
17657439-T-C 15545559-T-C ***
17657815-AT-A,ATT 15545935-AT-A,ATT 12×T***
17758218-A-G 15646338-A-G ***
17811297-A-G 15699417-A-G ***
17824254-T-C 15712374-T-C ***
17959052-A-AT,ATT 15847172-A-AT,ATT 10×T***
18336256-A-C 16224376-A-C P6_Prx ***
18537878-C-T 16425998-C-T ***
18731487-T-A 16619607-T-A ***
18795653-A-G 16683773-A-G ***
18795990-A-T 16684110-A-T ***
18883233-CTTT-C,CTT 16771353-CTTT-C,CTT 14×T***
18884941-T-C 16773061-T-C ***
19056478-C-T 16944598-C-T ***
19144805-GA-G 17032925-GA-G 9×A***
19189750-C-CTT 17077870-C-CTT 11×T***
21128397-T-C 18966511-T-C ***
21141254-A-G 18979368-A-G ***
21141256-C-CG 18979370-C-CG ***
21188450-T-C 19026564-T-C ***
21270160-A-C 19108274-A-C ***
21534407-T-C 19372521-T-C ***
22012100-C-T 19850214-C-T ***
22063312-A-G 19901426-A-G ***
22542571-G-T 20380685-G-T ***
22592846-A-G 20430960-A-G ***
22598791-C-G 20436905-C-G ***
22708436-T-C 20546550-T-C ***
22981918-G-A 20820032-G-A ***
23010535-C-A 20848649-C-A ***
23141519-T-G 20979633-T-G ***
23401697-C-A 21239811-C-A ***
23445641-TA-T,TAA 21283755-TA-T,TAA 11×A***
24502209-C-A 22356062-C-A ***
28493582-T-C 26347435-T-C ***
28501267-T-C 26355120-T-C ***
28670501-A-G 26524354-A-G ***
28761455-A-T 26615308-A-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.