Wolcott

FTDNA: 42490, BigY3: 42490, BigY2: 42490
MDKA Birth: England

Tree Position

R-P312/S116 > Z290 > L21/S145 > S552 > DF13 > Z39589 > DF49/S474 > Z2980 > Z2976 > DF23 > Y24874 > Y24889

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 STRFTDNA
42490		BigY3
42490		BigY2
42490
13687822-G-A 11532146-G-A DYZ17 A*A*
19806456-T-A 17694576-T-A P5_Prx A*
22555369-G-T 20393483-G-T FGC33371FGC33403 A2942 A1426 YY9×T+++
8562505-C-T 8694464-C-T Y64082 YY+++
17684587-T-A 15572707-T-A Y72147 YY+++
19307894-A-G 17196014-A-G Y75092 YY+++
21875184-G-A 19713298-G-A Y77320 YY+++
22465282-C-A 20303396-C-A BY221501 DYZ19 +++
16469465-G-A 14357585-G-A FT187326 Y+
13448780-A-T 11293104-A-T *
56840306-C-A *
27127737-T-C 24981590-T-C P1_g3 **
58969436-C-A 56823289-C-A **
7613833-G-GAA 7745792-G-GAA 31×A**
22269711-T-A 20107825-T-A Z4975 DYZ19 **
6429717-C-A 6561676-C-A **
21208306-C-T 19046420-C-T Z19248 **
13855300-G-T 11734594-G-T DYZ17 **
13485856-G-T 11330180-G-T **
9438130-G-T 9600521-G-T **
13488491-G-T 11332815-G-T **
28499997-C-A 26353850-C-A **
23350626-C-A 21188740-C-A 21×T**
14538718-C-A 12426919-C-A **
13801313-C-A 11680607-C-A DYZ17 **
8661265-C-A 8793224-C-A **
11003742-C-G **
28640384-C-A 26494237-C-A **
10974772-C-A **
2745833-C-A 2877792-C-A **
16462875-C-A 14350995-C-A **
13488799-A-G 11333123-A-G **
7164581-C-A 7296540-C-A **
10763013-T-C **
10765774-C-T **
10765803-C-A **
15342634-C-A 13230753-C-A **
8575989-A-G 8707948-A-G **
10859617-T-C **
10836513-C-T **
22077211-CA-C 19915325-CA-C **
16428241-C-A 14316361-C-A **
8333620-TCTC-T 8465579-TCTC-T **
10882073-TC-T **
10762176-G-C **
24634117-A-T 22487970-A-T P3_t2 **
11035392-C-A **
17923645-G-A 15811765-G-A **
10665479-C-A **
11003723-CA-C **
11003725-C-CTGCGT **
27994690-A-AT 25848543-A-AT P1_Y2 **
13306067-C-A 11150391-C-A **
18328813-G-T 16216933-G-T P6_Prx **
11668121-C-A DYZ17 **
4208978-C-A 4340937-C-A **
2905891-G-A 3037850-G-A **
26100548-G-C 23954401-G-C P1_Y1 **
10798204-A-ACTATT **
10798207-T-G **
15915008-C-A 13803128-C-A **
10671452-C-T **
10671470-C-CTCTCTACTCT **
10671475-A-C **
13253396-GT-G 11097720-GT-G 12×T**
14448119-C-A 12327392-C-A **
24422478-C-A 22276331-C-A 43×A**
6917421-C-A 7049380-C-A **
14483621-C-A 12362890-C-A **
25995096-AATAT-A 23848949-AATAT-A P1_Y1 9×AT**
13938688-A-G 11817982-A-G **
22991232-T-C 20829346-T-C FT6358 **
6791143-C-A 6923102-C-A **
3689178-C-A 3821137-C-A **
19071797-C-A 16959917-C-A **
7418542-C-A 7550501-C-A FT8494 **
15619411-C-A 13507531-C-A **
6384533-G-T 6516492-G-T **
9926635-C-A 10089026-C-A **
18858636-C-A 16746756-C-A **
10654070-C-A **
11652619-G-T DYZ17 **
7019130-C-A 7151089-C-A **
9198127-G-C 9360518-G-C **
10900225-T-C **
15654956-C-A 13543076-C-A **
16342183-G-A 14230303-G-A **
9221695-A-ATATATATATG 9384086-A-ATATATATATG **
9985976-C-A 10148367-C-A **
21177016-C-A 19015130-C-A **
10943532-C-A **
21202563-C-A 19040677-C-A **
10690831-C-A **
13197897-C-A 11042221-C-A **
3680339-C-A 3812298-C-A **
7288040-C-A 7419999-C-A **
18184963-A-AT 16073083-A-AT 8×T**
13199268-C-A 11043592-C-A **
17567445-C-A 15455565-C-A **
5125831-A-G 5257790-A-G **
15619153-C-A 13507273-C-A **
21211748-C-A 19049862-C-A **
18195205-A-C 16083325-A-C **
10685804-T-TATCAC **
7058358-C-A 7190317-C-A **
25576946-TTGTG-T 23430799-TTGTG-T P1_gr1 18×TG**
27443-T-A **
13938700-C-T 11817994-C-T **
14483145-G-A 12362414-G-A **
56734819-C-A **
15012318-C-A 12900406-C-A **
14867109-T-A 12755179-T-A **
10991555-G-T **
10941501-G-T FT125384 **
3599064-T-G 3731023-T-G **
7076278-A-G 7208237-A-G **
22171576-G-T 20009690-G-T **
3272044-C-A 3404003-C-A **
10763002-A-C **
10974343-C-A **
27952091-GTATATATATATATATATATATATATA-G 25805944-GTATATATATATATATATATATATATA-G P1_Y2 19×TA**
5760944-C-A 5892903-C-A **
3603367-C-A 3735326-C-A **
13257541-C-A 11101865-C-A **
19187385-ATTTTTTTT-A 17075505-ATTTTTTTT-A 28×T**
14718534-G-T 12606602-G-T **
23206875-C-A 21044989-C-A **
10964711-C-A **
10900224-A-C **
17591894-C-A 15480014-C-A **
2905908-G-A 3037867-G-A **
2905918-A-G 3037877-A-G **
13643796-C-A 11488120-C-A **
18453976-A-AG 16342096-A-AG P6_Dst **
5073861-C-A 5205820-C-A **
10762968-C-T **
23305676-C-A 21143790-C-A **
10762953-C-A **
14458257-C-A 12337530-C-A **
14398195-C-A 12277491-C-A **
17244399-G-T 15132519-G-T **
17702427-G-A 15590547-G-A **
20128344-C-A 18016464-C-A P5_Dst **
16027781-C-A 13915901-C-A **
56846793-G-T **
5221043-CTTTT-C 5353002-CTTTT-C 14×T**
14760866-G-C 12648935-G-C **
28800834-G-T 26654687-G-T **
3875977-C-A 4007936-C-A **
8153689-C-A 8285648-C-A **
5860888-C-A 5992847-C-A **
10899925-G-T **
13855321-GGCAT-G 11734615-GGCAT-G DYZ17 **
4240749-C-A 4372708-C-A **
10834040-C-A **
22703592-TC-T 20541706-TC-T **
14279011-G-T 12158305-G-T **
8270012-C-A 8401971-C-A **
13846744-G-T 11726038-G-T DYZ17 **
22171609-G-T 20009723-G-T **
16622158-C-A 14510278-C-A **
7170702-C-A 7302661-C-A **
7076285-A-C 7208244-A-C **
28602195-ATT-A 26456048-ATT-A 15×T**
10750078-C-A **
2672363-C-A 2804322-C-A **
2788472-A-G 2920431-A-G **
2810407-C-G 2942366-C-G **
2845208-C-A 2977167-C-A **
2903278-C-A 3035237-C-A **
2905917-C-T 3037876-C-T **
2969979-G-T 3101938-G-T **
3035462-G-T 3167421-G-T **
3083104-A-T 3215063-A-T **
3095921-C-A 3227880-C-A **
3103434-T-C 3235393-T-C **
3126633-C-T 3258592-C-T **
3135016-G-T 3266975-G-T **
3174289-G-T 3306248-G-T **
3227540-T-C 3359499-T-C **
3229612-A-G 3361571-A-G **
3334743-A-C 3466702-A-C **
3353854-G-C 3485813-G-C **
3356862-A-T 3488821-A-T **
3356953-C-A 3488912-C-A **
3366575-C-A 3498534-C-A **
3390031-T-A 3521990-T-A **
3399178-G-T 3531137-G-T **
3400998-A-G 3532957-A-G FT258415 **
3410606-T-A 3542565-T-A **
3412190-C-A 3544149-C-A **
3419071-G-A 3551030-G-A **
3426712-A-G 3558671-A-G **
3545761-A-G 3677720-A-G **
3592702-A-T 3724661-A-T **
3627377-G-A 3759336-G-A **
3670065-A-G 3802024-A-G **
3680412-C-A 3812371-C-A **
3753908-T-C 3885867-T-C **
3830826-A-G 3962785-A-G **
4050196-A-G 4182155-A-G **
4070739-T-A 4202698-T-A **
4075977-G-T 4207936-G-T **
4123806-A-G 4255765-A-G **
4188161-GA-G 4320120-GA-G **
4213366-A-C 4345325-A-C **
4370951-C-A 4502910-C-A **
4380798-A-G 4512757-A-G **
4386174-G-T 4518133-G-T **
4470473-GA-G 4602432-GA-G **
4552687-G-T 4684646-G-T **
4557642-A-G 4689601-A-G **
4568407-G-T 4700366-G-T **
4582730-T-C 4714689-T-C **
4702852-T-C 4834811-T-C **
4720847-C-A 4852806-C-A **
4753247-G-T 4885206-G-T **
4769225-T-C 4901184-T-C **
4777358-G-T 4909317-G-T **
4811132-G-T 4943091-G-T **
4867621-C-A 4999580-C-A **
4951655-G-T 5083614-G-T **
5004822-G-T 5136781-G-T **
5037548-C-A 5169507-C-A **
5062174-G-T 5194133-G-T **
5111269-G-T 5243228-G-T **
5190835-T-C 5322794-T-C **
5200074-G-A 5332033-G-A **
5267077-T-C 5399036-T-C **
5275625-G-T 5407584-G-T **
5310293-A-T 5442252-A-T **
5368291-G-T 5500250-G-T **
5714397-G-T 5846356-G-T **
5759499-A-G 5891458-A-G **
5785791-G-A 5917750-G-A **
5853657-A-C 5985616-A-C **
5868798-G-T 6000757-G-T **
5888417-A-T 6020376-A-T **
5978282-G-T 6110241-G-T FT325687 **
6026392-T-C 6158351-T-C **
6053519-T-TA 6185478-T-TA **
6246999-A-G 6378958-A-G IR3_Dst **
6395048-G-C 6527007-G-C **
6430222-C-A 6562181-C-A **
6434554-C-A 6566513-C-A **
6454674-C-A 6586633-C-A **
6509473-C-A 6641432-C-A **
6522350-T-C 6654309-T-C **
6533059-C-A 6665018-C-A **
6582882-C-A 6714841-C-A **
6614044-C-A 6746003-C-A **
6709264-C-T 6841223-C-T **
6780753-CCCAG-C 6912712-CCCAG-C **
6816674-C-A 6948633-C-A **
6828885-T-C 6960844-T-C **
7020560-T-C 7152519-T-C **
7043322-C-A 7175281-C-A **
7044197-G-T 7176156-G-T **
7076288-G-A 7208247-G-A **
7162226-CG-C 7294185-CG-C **
7256181-A-G 7388140-A-G **
7456747-G-T 7588706-G-T IR1_L **
7536526-T-C 7668485-T-C **
7580064-C-T 7712023-C-T **
7649121-C-T 7781080-C-T **
7724347-G-A 7856306-G-A **
8057033-A-T 8188992-A-T **
8291023-C-A 8422982-C-A **
8501571-TTCC-T 8633530-TTCC-T **
8690458-A-T 8822417-A-T **
8694192-A-C 8826151-A-C **
8731692-C-A 8863651-C-A **
8816854-T-A 8948813-T-A **
9437101-T-C 9599492-T-C **
9500070-C-A 9662461-C-A **
9664407-G-T 9826798-G-T IR3_Prx **
9940907-T-A 10103298-T-A **
9978538-T-C 10140929-T-C **
10024278-C-A 10186669-C-A **
10051335-T-A 10213726-T-A **
10057521-C-A 10219912-C-A **
10069262-C-G 10231653-C-G **
10073531-G-T 10235922-G-T **
10080302-A-T 10242693-A-T **
10651784-C-A **
10653213-G-C **
10655116-C-A **
10655450-C-A **
10663215-CCGTGCCA-C **
10671594-A-ACGCTC **
10676733-C-A **
10678257-C-T **
10685761-C-A **
10758165-C-A **
10762947-A-T **
10762963-T-A **
10762965-C-A **
10781131-C-CCTCTG **
10810945-C-A **
10823121-C-A **
10835632-C-T **
10840352-C-A **
10872865-C-T **
10879372-C-A **
10886578-C-A **
10889617-T-C **
10892055-A-G **
10892068-T-A **
10894723-TC-T **
10894790-A-G **
10921347-ACTAC-A **
10924743-C-A **
10940453-C-A **
10948575-C-A **
10960987-A-G **
10963743-C-A **
10965494-C-A **
10968401-C-T **
10975992-C-A **
10996880-T-C **
11002143-G-T **
11016554-T-C **
11022614-C-A **
11033734-T-C **
13197865-A-G 11042189-A-G **
13228250-C-A 11072574-C-A **
13298668-G-A 11142992-G-A **
13305546-T-C 11149870-T-C **
13350321-C-A 11194645-C-A **
13456492-C-T 11300816-C-T **
13488495-G-A 11332819-G-A **
13488529-C-T 11332853-C-T **
13573103-C-A 11417427-C-A **
13606474-C-A 11450798-C-A **
13620965-T-G 11465289-T-G **
11645831-C-G DYZ17 **
11659106-G-A DYZ17 **
11659442-A-G DYZ17 **
11669172-C-T DYZ17 **
11673414-A-G DYZ17 **
13855295-T-A 11734589-T-A DYZ17 **
13855296-G-A 11734590-G-A DYZ17 **
13855297-G-C 11734591-G-C DYZ17 **
13855301-G-A 11734595-G-A DYZ17 **
13887612-C-A 11766906-C-A **
13895042-C-G 11774336-C-G **
13932931-G-A 11812225-G-A **
13940961-G-T 11820255-G-T **
13961770-C-A 11841064-C-A **
14076201-C-A 11955495-C-A **
14180767-A-T 12060061-A-T **
14384456-G-T 12263752-G-T **
14385269-T-A 12264565-T-A **
14432123-T-G 12311396-T-G **
14447465-C-A 12326738-C-A **
12379256-C-A **
14508561-T-C 12396766-T-C **
14508790-A-T 12396995-A-T **
14539624-C-A 12427825-C-A **
14561414-C-A 12449615-C-A **
14627124-C-A 12515192-C-A **
14691536-C-G 12579602-C-G **
14695086-T-A 12583152-T-A **
14718674-CT-C 12606742-CT-C **
14727219-G-T 12615287-G-T **
14743750-A-G 12631819-A-G **
15278898-T-C 13166997-T-C **
15334415-C-A 13222533-C-A **
15394701-C-T 13282821-C-T ZS7984 **
15423981-G-T 13312101-G-T **
15430609-G-T 13318729-G-T **
15680055-G-A 13568175-G-A **
15731352-A-G 13619472-A-G **
15732455-C-T 13620575-C-T **
15747982-G-T 13636102-G-T **
15776197-G-A 13664317-G-A **
15788045-A-C 13676165-A-C **
15894639-C-T 13782759-C-T **
16008040-G-T 13896160-G-T **
16029274-A-C 13917394-A-C **
16232424-A-G 14120544-A-G **
16244861-C-T 14132981-C-T **
16562842-C-A 14450962-C-A **
17126572-C-A 15014692-C-A **
17153364-C-T 15041484-C-T **
17175395-T-C 15063515-T-C **
17262679-A-C 15150799-A-C **
17263086-T-A 15151206-T-A **
17371152-C-A 15259272-C-A **
17382228-G-A 15270348-G-A FT372364 **
17429270-T-A 15317390-T-A **
17501400-C-A 15389520-C-A **
17798737-C-A 15686857-C-A **
17813319-T-C 15701439-T-C **
17886102-T-C 15774222-T-C **
17886121-C-A 15774241-C-A **
17915894-A-C 15804014-A-C **
17926438-G-T 15814558-G-T **
17960966-C-T 15849086-C-T 18×T**
18151676-C-A 16039796-C-A **
18353119-TA-T 16241239-TA-T P6_Prx **
18688498-T-G 16576618-T-G **
18707329-C-A 16595449-C-A **
18780284-G-A 16668404-G-A **
18792030-C-A 16680150-C-A **
18792032-T-C 16680152-T-C **
18848870-A-G 16736990-A-G **
18984019-G-A 16872139-G-A **
19055723-G-T 16943843-G-T **
19311000-C-A 17199120-C-A **
21042491-G-T 18880605-G-T **
21042741-G-T 18880855-G-T **
21154611-G-A 18992725-G-A **
21211325-A-G 19049439-A-G **
21268079-T-A 19106193-T-A **
21318304-T-C 19156418-T-C **
21382002-C-T 19220116-C-T **
21410114-A-T 19248228-A-T **
21488729-G-A 19326843-G-A **
21495616-C-A 19333730-C-A FT71193 **
21691851-T-A 19529965-T-A **
21770168-C-A 19608282-C-A **
21946455-AG-A 19784569-AG-A **
22011960-GATAGT-G 19850074-GATAGT-G **
22023258-C-A 19861372-C-A **
22134020-T-C 19972134-T-C **
22204893-TC-T 20043007-TC-T **
22447706-T-C 20285820-T-C DYZ19 **
22529935-A-G 20368049-A-G **
22659339-C-A 20497453-C-A **
22765786-A-C 20603900-A-C **
22802899-TTGC-T 20641013-TTGC-T **
23004469-C-A 20842583-C-A **
23065299-G-C 20903413-G-C **
23128037-T-C 20966151-T-C **
23286262-GT-G 21124376-GT-G 10×T**
21750583-G-T **
23952951-G-T 21806804-G-T **
23997088-A-C 21850941-A-C **
23997504-T-A 21851357-T-A **
23997738-C-A 21851591-C-A **
24388212-CTA-C 22242065-CTA-C **
24404943-A-G 22258796-A-G **
24870195-C-A 22724048-C-A IR1_R **
25575271-T-C 23429124-T-C P1_gr1 **
26228618-A-T 24082471-A-T P1_Y1 **
26499950-G-A 24353803-G-A P1_Y1 **
27794675-T-TAC 25648528-T-TAC P1_Y2 **
28111768-G-A 25965621-G-A P1_Y2 **
28157470-CG-C 26011323-CG-C P1_b4 **
28429444-G-T 26283297-G-T P1_gr2 **
28516702-A-G 26370555-A-G **
28519876-C-A 26373729-C-A **
28529703-TGACCTAG-T 26383556-TGACCTAG-T **
28589460-A-T 26443313-A-T **
28605933-A-G 26459786-A-G **
28609294-C-A 26463147-C-A **
28640317-A-G 26494170-A-G **
28656375-C-A 26510228-C-A **
28673070-C-A 26526923-C-A **
28735586-C-A 26589439-C-A **
28738539-A-G 26592392-A-G **
28738627-C-A 26592480-C-A **
28797188-A-G 26651041-A-G **
56839941-G-T **
56847137-C-T **
56849739-G-T **
56875481-A-G **
24463-T-G **
27625328-A-AG 25479181-A-AG P1_Y2 **
2895633-C-T 3027592-C-T **
10056442-G-T 10218833-G-T **
13726002-A-G 11570326-A-G DYZ17 **
13971780-G-T 11851074-G-T **
20796375-C-A 18634489-C-A P4_Prx **
21755934-C-T **
26366746-G-T 24220599-G-T P1_Y1 **
13141993-C-T 10631479-C-T ***
13823170-T-A 11702464-T-A DYZ17 ***
13805115-C-A,T 11684409-C-A,T DYZ17 ***
13805124-A-T 11684418-A-T DYZ17 ***
13805136-G-T 11684430-G-T DYZ17 ***
13805137-C-G 11684431-C-G DYZ17 ***
13805143-A-G 11684437-A-G DYZ17 ***
21177080-G-A 19015194-G-A S2003 E19 ***
13823168-C-G 11702462-C-G DYZ17 ***
15583702-CAAA-C 13471822-CAAA-C 13×A***
13823103-C-G 11702397-C-G DYZ17 ***
13823152-G-A 11702446-G-A DYZ17 ***
13823157-G-T 11702451-G-T DYZ17 ***
9952489-CATAA-C 10114880-CATAA-C ***
22283604-G-A 20121718-G-A DYZ19 ***
24121222-G-A 21975075-G-A P3_b1 ***
58979307-CCATTG-C,CCATTC 56833160-CCATTG-C,CCATTC ***
23205260-C-A 21043374-C-A ***
17842682-T-G 15730802-T-G ***
13485689-C-T 11330013-C-T ***
10781123-A-T ***
28784408-G-T 26638261-G-T ***
3271601-CT-C,CTT 3403560-CT-C,CTT 14×T***
19048021-TTG-T 16936141-TTG-T ***
13489694-A-C 11334018-A-C ***
28784409-T-A 26638262-T-A ***
28784411-G-C 26638264-G-C ***
28784418-A-T 26638271-A-T ***
14089789-C-A 11969083-C-A FT251573 ***
21283413-C-A 19121527-C-A ***
10988537-TTTTAT-T,TTTCAC ***
13485691-G-T 11330015-G-T ***
10776693-G-A FT430714 ***
7039175-C-A 7171134-C-A ***
11004420-C-CGGTTA ***
18898613-GGAGA-G 16786733-GGAGA-G 10×GA***
8143991-GAA-G 8275950-GAA-G 11×A***
10788678-C-A ***
7832071-GTCTT-G,GTCTTTCTT 7964030-GTCTT-G,GTCTTTCTT 18×TCTT***
10953304-T-C ***
10964269-C-A ***
13489652-C-G 11333976-C-G ***
13489695-C-CTGGGAG 11334019-C-CTGGGAG ***
13489699-GCCCGCA-G,GCCCGCG 11334023-GCCCGCA-G,GCCCGCG ***
13505246-A-G 11349570-A-G ***
13893566-G-T 11772860-G-T ***
14232925-C-T 12112219-C-T ***
16213949-C-A 14102069-C-A ***
21288461-CTT-C,CT 19126575-CTT-C,CT 14×T***
21409162-C-A 19247276-C-A ***
23472138-C-T 21310252-C-T ***
56826861-CAATTCCATTCCATTC-C,CAA ***
56839259-A-G ***
56839262-T-A ***
56846946-C-A ***
14289049-C-A 12168343-C-A ***
14680794-GAA-G 12568860-GAA-G 15×A***
13476444-T-A 11320768-T-A ***
15381301-A-G 13269421-A-G ***
17164000-A-T 15052120-A-T ***
18874935-A-G 16763055-A-G ***
27396981-C-G 25250834-C-G P1_g3 ***

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.