Tree Position

R-P312/S116 > Z290 > L21/S145 > DF13 > Z39589 > L1335/S530 > L1065 > Z16325 > S744 > S764 > ZZ28 > FGC18441 > BY65850

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
16491
BigY3
16491
18016494-C-A 15904614-C-A BY178297A18541 A18494 P7_Dst YA+
24885643-G-A 22739496-G-A g1 A+
13470046-C-T 11314370-C-T A*
6256203-A-G 6388162-A-G IR3_Dst A*
6597904-C-T 6729863-C-T A*
24310306-C-CAT 22164159-C-CAT P3_t1 8×ATA*
6597902-T-G 6729861-T-G A*
19809172-A-AT 17697292-A-AT P5_Prx 10×TA*
20428495-A-ATT 18266609-A-ATT P5_Dst 15×TA*
59017615-C-G 56871468-C-G A*
20386402-T-C 18224516-T-C P5_Dst A*
16723271-C-CT 14611391-C-CT 13×TA*
13448569-C-A 11292893-C-A A*
18069046-G-A 15957166-G-A BY167780 YY++
18069047-C-T 15957167-C-T BY167781 YY++
15879843-C-T 13767963-C-T BY167192 YY++
13935269-A-G 11814563-A-G Y**+
8279879-T-A 8411838-T-A YY**+
7353430-T-C 7485389-T-C BY166107 YY++
3469160-AT-A 3601119-AT-A 9×T+
3831819-T-C 3963778-T-C +
4824229-C-T 4956188-C-T +
28522108-A-T 26375961-A-T +
18626840-G-A 16514960-G-A Y+
13985206-C-T 11864500-C-T Y+
13451721-CTCCAG-C,CTCCAC 11296045-CTCCAG-C,CTCCAC *
10760684-T-TTTCCA ***
21461373-T-TAC 19299487-T-TAC 9×AC**
18601193-C-T 16489313-C-T YY*
59019226-T-C 56873079-T-C *
7101046-G-A 7233005-G-A **
8690421-GTTTTAGCCGGGA-G 8822380-GTTTTAGCCGGGA-G **
8690378-C-T 8822337-C-T **
26116566-G-T 23970419-G-T P1_Y1 **
7868148-A-C 8000107-A-C **
27810224-G-GA 25664077-G-GA P1_Y2 **
7305738-C-A 7437697-C-A **
6720864-A-T 6852823-A-T **
7086865-C-A 7218824-C-A **
8690454-C-T 8822413-C-T **
6379473-A-T 6511432-A-T **
6379462-A-T 6511421-A-T **
5818384-C-A 5950343-C-A **
5644732-T-C 5776691-T-C **
4480477-G-T 4612436-G-T **
6780772-G-C 6912731-G-C **
10627913-C-A **
8728171-C-CCA 8860130-C-CCA **
10789125-C-T **
10843241-C-A **
10820488-T-A **
10818992-A-G **
10803881-C-T **
10791989-C-A **
10790597-C-A **
10777121-A-T **
9312913-A-G 9475304-A-G **
10759828-T-C **
10750001-C-A **
10671724-T-C **
10669260-T-C **
10668979-CTTCGT-C **
10660768-T-G **
3908945-CAA-C 4040904-CAA-C 15×A**
4398811-G-T 4530770-G-T **
2868955-C-A 3000914-C-A **
3518139-G-T 3650098-G-T **
2738817-T-C 2870776-T-C **
14376731-C-A 12256027-C-A **
17137110-T-C 15025230-T-C **
10805225-C-T **
23441325-C-A 21279439-C-A **
10956676-C-T **
10956671-C-T **
13453378-C-G 11297702-C-G **
11656365-A-T **
11001631-T-C **
56846289-C-G **
28755704-C-A 26609557-C-A **
5792955-G-T 5924914-G-T **
13618072-C-A 11462396-C-A **
13460651-C-T 11304975-C-T **
7613895-C-A 7745854-C-A **
11029815-C-A **
3388671-C-A 3520630-C-A **
28791121-TG-T 26644974-TG-T **
3148136-G-T 3280095-G-T **
10868230-A-G **
2798862-GA-G 2930821-GA-G **
2798857-TA-T 2930816-TA-T **
2784542-T-C 2916501-T-C **
22171187-T-C 20009301-T-C **
28791118-G-AC 26644971-G-AC **
10658214-C-A **
16966503-C-A 14854623-C-A **
28601123-A-C 26454976-A-C **
20579246-ACC-A 18417360-ACC-A P5_Dst **
8690369-G-A 8822328-G-A **
22827483-AAT-A 20665597-AAT-A **
22827471-T-TA 20665585-T-TA **
10669414-C-A **
10866454-TTCCAC-T **
10956708-A-T **
10883835-T-C **
20897734-G-GTCTGT 18735848-G-GTCTGT P4_Dst **
21948828-G-A 19786942-G-A **
21367237-G-A 19205351-G-A FGC44017 **
21346698-C-A 19184812-C-A **
21177352-C-A 19015466-C-A **
21177310-G-T 19015424-G-T **
21096037-T-C 18934151-T-C **
20700713-G-T 18538827-G-T P4_Prx **
23257895-C-A 21096009-C-A **
19527914-T-C 17416034-T-C **
19475164-C-A 17363284-C-A **
19361157-C-T 17249277-C-T **
18937541-G-A 16825661-G-A **
18634711-C-A 16522831-C-A **
20041990-G-T 17930110-G-T P5_Prx **
22835446-C-A 20673560-C-A **
23286491-T-C 21124605-T-C **
18042873-T-C 15930993-T-C ****
28660821-T-C 26514674-T-C **
5273214-CTTTT-C 5405173-CTTTT-C 23×T**
14565622-A-C 12453822-A-C **
14565631-T-C 12453831-T-C **
16096907-G-C 13985027-G-C **
15834192-C-T 13722312-C-T **
13453375-A-C 11297699-A-C **
28601117-A-G 26454970-A-G **
24472446-TGAG-T 22326299-TGAG-T **
27943991-C-A 25797844-C-A P1_Y2 **
27757708-T-G 25611561-T-G P1_Y2 8×A**
27719024-G-GCTGC 25572877-G-GCTGC P1_Y2 **
25968753-G-T 23822606-G-T P1_Y1 **
25637704-C-A 23491557-C-A P1_b3 **
25524738-T-TA 23378591-T-TA P1_gr1 **
25175801-G-T 23029654-G-T g1 **
20689857-G-T 18527971-G-T P4_Prx **
17735557-T-C 15623677-T-C **
10937113-C-T **
13474561-C-T 11318885-C-T **
13929795-C-A 11809089-C-A **
20757329-A-T 18595443-A-T P4_Prx **
13880201-C-T 11759495-C-T **
13862409-A-G 11741703-A-G **
11651881-T-A **
11645622-G-T **
11030129-C-G **
14179359-C-A 12058653-C-A **
11020242-C-A **
10975764-T-C **
10965380-A-T **
10964872-C-T **
10959330-A-G **
6244188-GTT-G 6376147-GTT-G IR3_Dst 10×T**
10956683-C-G **
20756895-G-T 18595009-G-T P4_Prx **
14253145-C-T 12132439-C-T **
17730404-A-G 15618524-A-G **
15848803-G-T 13736923-G-T **
17686677-C-A 15574797-C-A **
17327399-C-A 15215519-C-A **
16989256-GA-G 14877376-GA-G **
16714708-C-A 14602828-C-A **
16312371-T-C 14200491-T-C **
20752709-C-A 18590823-C-A P4_Prx **
15701189-A-C 13589309-A-C **
14273630-G-T 12152924-G-T **
15606723-T-A 13494843-T-A **
15428401-G-T 13316521-G-T **
15070566-C-T 12958657-C-T **
14994454-C-A 12882539-C-A **
14511858-C-A 12400063-C-A **
14509983-A-G 12398188-A-G **
14357050-C-A 12236345-C-A **
6922460-C-A 7054419-C-A **
17794253-GTTCT-G 15682373-GTTCT-G 10×TTCT**
28555602-C-A 26409455-C-A **
23415342-ATTTTT-A 21253456-ATTTTT-A 21×T**
7169960-C-A 7301919-C-A **
11030116-T-C **
13460398-A-G 11304722-A-G **
13460390-G-C 11304714-G-C **
13460365-T-C 11304689-T-C **
20603903-G-T 18442017-G-T P5_Dst **
7108904-C-A 7240863-C-A **
14216311-C-A 12095605-C-A **
10929189-C-A **
10950496-C-G **
10950490-T-A **
8690381-G-A 8822340-G-A **
8690374-T-C 8822333-T-C **
10767628-T-C **
10767618-T-C **
11656362-A-T **
10772693-T-A **
14272503-C-A 12151797-C-A **
25990634-GTTTTTT-G 23844487-GTTTTTT-G P1_Y1 23×T**
15400093-C-A 13288213-C-A FGC60482 **
10789326-A-T **
19053457-C-A 16941577-C-A **
13705511-G-T 11549835-G-T **
10785469-C-A **
10691481-C-A **
11035401-T-TCACTCCACGA **
9605321-G-GTA 9767712-G-GTA IR3_Prx **
2759503-C-A 2891462-C-A **
10882004-C-A **
10900749-C-A **
10929175-TCTGCTGC-T **
10929169-T-A **
10929151-T-TA **
10975505-TCATTC-T **
21132648-C-A 18970762-C-A **
10882007-T-C **
11656359-C-G **
27936779-AG-A 25790632-AG-A P1_Y2 **
27714413-C-A 25568266-C-A P1_Y2 **
13460389-G-A 11304713-G-A FGC47174 **
13460411-C-G 11304735-C-G **
13460406-C-T 11304730-C-T **
13460345-C-T 11304669-C-T **
13460687-G-A 11305011-G-A **
18926851-C-A 16814971-C-A **
13132842-C-CA 10622328-C-CA 20×A**
6359640-TAAAAAA-T 6491599-TAAAAAA-T 22×A**
13460380-T-C 11304704-T-C **
10921120-C-G **
13460676-T-C 11305000-T-C **
13460732-C-G 11305056-C-G **
19339986-CTTTTTTTTTTTTTTTTTTT-C 17228106-CTTTTTTTTTTTTTTTTTTT-C 31×T**
15735366-T-C 13623486-T-C CTS4612 Z2778 **
8085516-CT-C 8217475-CT-C 19×T**
26440525-TTTTA-T 24294378-TTTTA-T P1_Y1 10×TTTA**
28797168-T-A 26651021-T-A **
7101050-G-C 7233009-G-C **
11035401-T-C **
13485722-C-T 11330046-C-T **
10956666-A-T **
10950466-C-G **
14394485-GA-G 12273781-GA-G 8×A**
17994874-CA-C 15882994-CA-C P7_Prx 39×A**
10899631-T-G **
28345694-C-CAT 26199547-C-CAT P1_gr2 **
27714407-G-C 25568260-G-C P1_Y2 **
26100548-GC-G 23954401-GC-G P1_Y1 **
56839073-C-A **
10767627-T-A **
24872760-A-G 22726613-A-G P3_b2 **
10876063-G-T **
7629829-C-A 7761788-C-A **
21556945-C-A 19395059-C-A **
10809612-T-C **
15779915-C-A 13668035-C-A **
10876850-GTCCAT-G **
6694243-C-A 6826202-C-A **
10929186-C-CTT **
28157460-C-A 26011313-C-A P1_b4 **
6368230-C-A 6500189-C-A **
10678164-T-C **
10820529-C-A **
10925289-C-A **
6786702-C-A 6918661-C-A **
13921506-C-A 11800800-C-A **
7436080-C-A 7568039-C-A **
2817903-C-A 2949862-C-A **
18614478-C-A 16502598-C-A **
10984540-C-A **
14805977-C-A 12694048-C-A **
17802083-C-A 15690203-C-A **
22208867-CAAA-C 20046981-CAAA-C 14×A**
10778128-C-A **
23523604-CA-C 21361718-CA-C **
13474548-C-G 11318872-C-G **
15727097-T-C 13615217-T-C **
8720621-C-A 8852580-C-A **
13860524-C-A 11739818-C-A **
22661944-C-A 20500058-C-A **
56850733-C-A **
23523588-A-G 21361702-A-G **
10777076-C-T **
10023739-C-A 10186130-C-A **
10956714-C-A **
15496969-C-A 13385089-C-A **
7103376-C-A 7235335-C-A **
13460685-C-T 11305009-C-T **
18926845-C-T 16814965-C-T FGC999 **
5601634-C-A 5733593-C-A **
10845887-C-A **
11033052-C-A **
17078799-C-A 14966919-C-A **
2798866-T-A 2930825-T-A **
13460733-G-A 11305057-G-A **
19567143-A-C 17455263-A-C **
11021326-T-C **
11022649-C-A **
13256119-CG-C 11100443-CG-C **
14297262-T-C 12176556-T-C **
14297254-T-C 12176548-T-C **
10660772-T-C **
23838919-C-A 21677033-C-A **
3641377-C-A 3773336-C-A **
6651259-TGA-T 6783218-TGA-T **
3994873-C-A 4126832-C-A **
19950188-GT-G 17838308-GT-G P5_Prx **
14580896-C-A 12469096-C-A **
28641073-C-A 26494926-C-A **
14297255-G-A 12176549-G-A **
15404276-C-A 13292396-C-A **
15606927-C-A 13495047-C-A **
19218086-C-A 17106206-C-A **
13460767-A-G 11305091-A-G **
18926854-A-T 16814974-A-T **
24614076-G-T 22467929-G-T P3_t2 **
2833359-AT-A 2965318-AT-A 9×T**
15928702-CAA-C,CAAA 13816822-CAA-C,CAAA 19×A***
2763771-ACC-A 2895730-ACC-A ***
13450115-CCCATCCCATCCCATTCTATTCCATTCCATTCCATTCCATT-C 11294439-CCCATCCCATCCCATTCTATTCCATTCCATTCCATTCCATT-C ***
58985636-C-T 56839489-C-T ***
3550571-ACT-A,ACA 3682530-ACT-A,ACA ***
11021352-T-A,C ***
11017523-C-A ***
4275258-CAAAA-C,CAAA 4407217-CAAAA-C,CAAA 21×A***
22962414-GTT-G 20800528-GTT-G 20×T***
13472137-G-A 11316461-G-A ***
13470612-C-G 11314936-C-G ***
5066020-T-TA 5197979-T-TA 10×A***
56834869-C-A ***
22069600-C-A 19907714-C-A ***
19464068-G-T 17352188-G-T ***
9451266-A-T 9613657-A-T ***
8760517-CTTTTTTTT-C,CTTTTTTT 8892476-CTTTTTTTT-C,CTTTTTTT 20×T***
10965538-C-T ***
22893451-C-T 20731565-C-T ***
9519852-CTTTCTTTCTTTCTTTC-C,CTTTCTTTCTTTCTT 9682243-CTTTCTTTCTTTCTTTC-C,CTTTCTTTCTTTCTT ***
10942648-ACTACA-A,ACTCAG ***
6699020-ATT-A,AT 6830979-ATT-A,AT 24×T***
16063371-C-A 13951491-C-A ***
5968177-C-A 6100136-C-A ***
58848176-A-C 56742695-T-G ***
16702224-C-A 14590344-C-A ***
6144689-C-A 6276648-C-A IR3_Dst ***
17022772-C-A 14910892-C-A ***
10942721-CCT-C ***
4521684-T-C 4653643-T-C ***
3253170-CTTTT-C 3385129-CTTTT-C 22×T***
15381462-C-T 13269582-C-T ***
4226078-A-C 4358037-A-C ***
17128535-CTTT-C 15016655-CTTT-C 25×T***
14577313-C-A 12465513-C-A ***
56842406-T-C ***
2813861-C-A 2945820-C-A ***
3374847-C-CA 3506806-C-CA 23×A***
3074007-G-GAA 3205966-G-GAA 13×A***
19477557-G-GA 17365677-G-GA 9×A***
14642454-GTTTT-G 12530523-GTTTT-G 17×T***
8095656-AG-A 8227615-AG-A ***
8468065-CAAAA-C,CA 8600024-CAAAA-C,CA 24×A***
22253122-T-C 20091236-T-C DYZ19 ***
22829455-C-A 20667569-C-A ***
22965102-C-A 20803216-C-A ***
10661184-TTCCACTCCAT-T,TTCCACCC ***
23537363-A-G 21375477-A-G ***
22886274-C-A 20724388-C-A ***
15047609-C-T 12935700-C-T ***
9057134-G-T ***
6693735-C-A 6825694-C-A ***
3550574-CAAA-C 3682533-CAAA-C 24×A***
5933233-CAA-C 6065192-CAA-C 18×A***
7166601-CATATATAT-C 7298560-CATATATAT-C 20×AT***
14566981-AT-A 12455181-AT-A 10×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.

Age Analysis Information (work in progress)

AllMcDonaldYFull
Kit: 16491918606675069207423708
Kit: 164911483282293181198297002
Used in age calculations1483282293181198297002
Counts of SNPs106
Variant counts last updated 2019-08-08 22:10:38.



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