Tree Position

R-P312/S116 > Z290 > L21/S145 > S552 > DF13 > DF21/S192 > FGC3213 > ZZ1 > S3058 > S424 > S426 > S190 > FGC3215 > ZZ79 > S425 > S302 > S421 > S303 > S3068 > S420

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 STRFGC
XLY45
Manual
Edits
7044065-T-C 7176024-T-C S3030 Y+
7248059-C-T 7380018-C-T S302S302 YY+
16461797-A-C 14349917-A-C S420S420 YY+
16536225-T-C 14424345-T-C S421S421 YY+
16849107-A-G 14737227-A-G S302S422 YY+
18923893-T-C 16812013-T-C YY+
19412248-A-T 17300368-A-T S303S303 YY+
22116290-A-G 19954404-A-G S3068S3068 YY+
22636405-T-A 20474519-T-A Y+
22903880-G-A 20741994-G-A YY+
3963309-T-C 4095268-T-C *
22347756-T-G 20185870-T-G DYZ19 *
22424911-A-G 20263025-A-G DYZ19 *
22430522-A-C 20268636-A-C DYZ19 *
22496797-A-C 20334911-A-C DYZ19 *
23612105-G-C 21450219-G-C YY*
58860045-G-C 56730826-C-G *
28811970-T-G 26665823-T-G **
13719744-G-T 11564068-G-T **
22309035-T-G 20147149-T-G DYZ19 **
13393932-G-A 11238256-G-A PR4974 **
58876743-C-T 56714128-G-A **
22423883-T-G 20261997-T-G DYZ19 **
22508231-T-G 20346345-T-G DYZ19 **
9746310-C-G 9908701-C-G **
9746377-A-T 9908768-A-T **
9739443-A-G 9901834-A-G A17497 IR3_Prx **
9746293-G-A 9908684-G-A **
9746383-G-A 9908774-G-A **
22223302-A-T 20061416-A-T DYZ19 **
22311190-T-G 20149304-T-G DYZ19 **
13321662-T-A 11165986-T-A **
13726999-G-A 11571323-G-A **
22242957-A-C 20081071-A-C DYZ19 **
58861966-A-C 56728905-T-G **
27518898-G-T 25372751-G-T P1_Y2 **
22425412-A-C 20263526-A-C DYZ19 **
8005550-G-C 8137509-G-C **
58915880-A-G 56674991-T-C **
13747918-A-T 11592242-A-T **
58877049-C-G 56713822-G-C **
22349435-C-G 20187549-C-G FGC15913 DYZ19 **
22491867-G-T 20329981-G-T DYZ19 **
22364783-G-A 20202897-G-A DYZ19 **
22223504-T-G 20061618-T-G DYZ19 **
22450500-G-C 20288614-G-C DYZ19 **
22450507-T-G 20288621-T-G DYZ19 **
22269465-A-G 20107579-A-G DYZ19 **
22294800-G-C 20132914-G-C DYZ19 **
22269504-A-G 20107618-A-G DYZ19 **
13129491-C-T 10618977-C-T **
22269382-C-G 20107496-C-G S3081 DYZ19 **
22300858-G-A 20138972-G-A DYZ19 **
22300856-A-T 20138970-A-T DYZ19 **
28600861-A-G 26454714-A-G **
58894781-G-A 56696090-C-T **
13287869-A-G 11132193-A-G **
13246814-G-A 11091138-G-A **
13369116-A-T 11213440-A-T **
9739108-T-C 9901499-T-C IR3_Prx **
13287883-A-G 11132207-A-G **
22269384-C-T 20107498-C-T S3082 DYZ19 **
13274792-T-C 11119116-T-C **
13299976-A-G 11144300-A-G **
13318843-G-T 11163167-G-T **
22238401-A-C 20076515-A-C DYZ19 **
13321499-T-C 11165823-T-C **
3215414-G-A 3347373-G-A **
13317781-T-C 11162105-T-C **
3580631-C-G 3712590-C-G **
13311579-A-G 11155903-A-G **
13371301-C-T 11215625-C-T **
58837633-A-G 56753238-T-C **
13277616-C-T 11121940-C-T **
13306139-T-C 11150463-T-C **
13246469-C-A 11090793-C-A **
13371319-C-A 11215643-C-A **
13332596-A-G 11176920-A-G **
13389799-T-C 11234123-T-C FGC34240 **
28796308-G-A 26650161-G-A **
9739083-C-A 9901474-C-A IR3_Prx **
3706684-G-T 3838643-G-T Z277 **
13311677-T-C 11156001-T-C **
13277608-A-T 11121932-A-T **
9739844-G-T 9902235-G-T IR3_Prx **
22273145-A-C 20111259-A-C BY51669 DYZ19 **
9734800-G-T 9897191-G-T IR3_Prx **
9739852-T-C 9902243-T-C IR3_Prx **
13311584-G-A 11155908-G-A BY85089 **
13298892-C-T 11143216-C-T **
13249195-G-A 11093519-G-A **
7022644-A-C 7154603-A-C **
9746492-C-G 9908883-C-G L19Z21057 **
13616660-A-G 11460984-A-G **
22457517-G-A 20295631-G-A DYZ19 **
13386163-G-A 11230487-G-A **
13363463-A-T 11207787-A-T **
9739072-A-C 9901463-A-C IR3_Prx **
9734872-A-T 9897263-A-T IR3_Prx **
9746452-A-G 9908843-A-G BY80752 **
27523371-G-A 25377224-G-A P1_Y2 **
13431995-G-C 11276319-G-C MZ125 **
2965271-A-G 3097230-A-G **
13299189-G-A 11143513-G-A **
9739753-C-G 9902144-C-G FT287979 IR3_Prx **
13386168-T-A 11230492-T-A **
13394029-T-G 11238353-T-G PR4981 **
5478004-G-A 5609963-G-A **
13416557-G-A 11260881-G-A **
13315396-A-G 11159720-A-G **
9739376-C-A 9901767-C-A BY80655 IR3_Prx **
28797856-A-G 26651709-A-G **
28797854-A-C 26651707-A-C **
9739798-G-A 9902189-G-A IR3_Prx **
4824362-A-T 4956321-A-T **
9734881-A-G 9897272-A-G IR3_Prx **
5349060-A-G 5481019-A-G FGC24614 **
13298062-T-C 11142386-T-C **
13384105-C-T 11228429-C-T **
9745646-C-T 9908037-C-T **
13249833-T-C 11094157-T-C **
9739866-G-A 9902257-G-A IR3_Prx **
13397906-T-C 11242230-T-C **
13380056-G-A 11224380-G-A **
13274339-T-G 11118663-T-G **
5106793-C-A 5238752-C-A **
4260977-T-C 4392936-T-C **
13397907-G-A 11242231-G-A **
9781103-G-C 9943494-G-C **
5669973-G-A 5801932-G-A **
9739050-A-T 9901441-A-T IR3_Prx **
22352870-A-C 20190984-A-C DYZ19 **
22468884-G-C 20306998-G-C BY2035 DYZ19 **
13332644-A-G 11176968-A-G **
27533197-C-T 25387050-C-T P1_Y2 **
5223670-A-T 5355629-A-T **
13246696-T-C 11091020-T-C **
22242951-G-A 20081065-G-A S3077 DYZ19 **
9739372-C-T 9901763-C-T BY80654 IR3_Prx **
13379939-G-C 11224263-G-C **
22438828-T-A 20276942-T-A FT456310 DYZ19 **
13339203-A-G 11183527-A-G **
3312585-A-G 3444544-A-G **
9746494-C-T 9908885-C-T BY39489 **
13370452-C-T 11214776-C-T **
9739027-C-A 9901418-C-A IR3_Prx **
13249797-C-T 11094121-C-T **
13240911-T-C 11085235-T-C **
5349026-T-C 5480985-T-C FT323613 **
9745555-T-A 9907946-T-A Y869 **
3068643-T-C 3200602-T-C **
13246713-G-A 11091037-G-A FGC80761 **
16069608-C-T 13957728-C-T **
9745571-G-C 9907962-G-C BY35136 **
7535856-A-T 7667815-A-T **
3403707-C-G 3535666-C-G **
13335135-T-C 11179459-T-C **
4420286-C-T 4552245-C-T **
13416135-T-G 11260459-T-G **
4356556-C-T 4488515-C-T **
13246902-A-G 11091226-A-G **
18330638-G-A 16218758-G-A P6_Prx **
58870360-G-C 56720511-C-G **
13320239-T-G 11164563-T-G **
13284285-A-T 11128609-A-T **
13284250-T-A 11128574-T-A **
4038287-T-C 4170246-T-C **
22426684-G-A 20264798-G-A DYZ19 **
13415942-A-T 11260266-A-T **
18290899-C-A 16179019-C-A P6_Prx **
19177755-C-T 17065875-C-T **
5925339-T-A 6057298-T-A **
13351681-T-C 11196005-T-C **
3464236-A-G 3596195-A-G **
13320241-A-G 11164565-A-G **
4356939-T-C 4488898-T-C **
6055999-T-G 6187958-T-G **
6725502-T-C 6857461-T-C **
3727577-C-A 3859536-C-A **
22511902-T-C 20350016-T-C DYZ19 **
26091012-A-C 23944865-A-C P1_Y1 **
13240490-G-A 11084814-G-A **
22428803-G-C 20266917-G-C DYZ19 **
15213775-T-C 13101861-T-C **
9782867-T-C 9945258-T-C **
9739794-T-C 9902185-T-C IR3_Prx **
22343890-A-G 20182004-A-G DYZ19 **
9681920-C-G 9844311-C-G IR3_Prx **
6056013-C-G 6187972-C-G **
2787065-T-C 2919024-T-C **
2787066-G-A 2919025-G-A **
2971858-A-G 3103817-A-G **
3039020-A-G 3170979-A-G **
3064264-T-C 3196223-T-C **
3075550-C-T 3207509-C-T **
3138146-A-G 3270105-A-G **
3144575-T-C 3276534-T-C **
3280436-T-C 3412395-T-C **
3310728-G-A 3442687-G-A **
3312609-T-C 3444568-T-C **
3314515-A-C 3446474-A-C **
3386398-G-T 3518357-G-T **
3504035-G-T 3635994-G-T **
3506044-G-A 3638003-G-A **
3510082-C-G 3642041-C-G **
3510083-T-C 3642042-T-C **
3538819-G-T 3670778-G-T **
3559739-A-C 3691698-A-C **
3650820-C-T 3782779-C-T **
3740815-G-T 3872774-G-T **
3748188-A-C 3880147-A-C **
3845880-C-T 3977839-C-T **
3861017-C-T 3992976-C-T **
4003861-C-T 4135820-C-T **
4090180-A-C 4222139-A-C **
4150576-C-T 4282535-C-T **
4251196-C-A 4383155-C-A **
4258759-T-G 4390718-T-G **
4289442-A-C 4421401-A-C **
4304374-T-G 4436333-T-G **
4365770-C-G 4497729-C-G **
4380099-C-T 4512058-C-T **
4516840-A-T 4648799-A-T **
4542195-C-A 4674154-C-A **
4563502-G-A 4695461-G-A **
4655814-C-A 4787773-C-A **
4685427-T-C 4817386-T-C **
4817652-C-A 4949611-C-A **
4817812-T-G 4949771-T-G **
4819235-C-T 4951194-C-T **
4819634-G-T 4951593-G-T **
4820420-A-G 4952379-A-G **
4820439-T-C 4952398-T-C **
4821033-G-A 4952992-G-A **
4898864-T-C 5030823-T-C **
4909812-T-C 5041771-T-C **
4909850-T-C 5041809-T-C **
4910006-C-T 5041965-C-T **
4910493-C-T 5042452-C-T **
4910826-T-C 5042785-T-C **
4912258-T-C 5044217-T-C **
4912265-T-C 5044224-T-C **
4917850-C-T 5049809-C-T **
4967647-G-T 5099606-G-T **
4972988-T-C 5104947-T-C **
4974829-G-T 5106788-G-T **
5122844-C-G 5254803-C-G **
5122854-T-G 5254813-T-G **
5241964-G-T 5373923-G-T **
5263319-T-C 5395278-T-C **
5276320-A-G 5408279-A-G **
5344962-T-C 5476921-T-C **
5348348-C-A 5480307-C-A **
5356063-A-G 5488022-A-G **
5367068-C-T 5499027-C-T FT88777 **
5388617-G-T 5520576-G-T **
5477610-T-A 5609569-T-A **
5593430-T-G 5725389-T-G **
5637124-C-T 5769083-C-T **
5648632-A-G 5780591-A-G **
5651979-C-A 5783938-C-A **
5658557-G-T 5790516-G-T **
5658578-A-C 5790537-A-C **
5663234-A-T 5795193-A-T **
5663246-A-T 5795205-A-T **
5693155-C-A 5825114-C-A **
5702465-G-A 5834424-G-A **
5778553-T-C 5910512-T-C **
5812478-C-A 5944437-C-A **
5873947-A-G 6005906-A-G **
5904252-T-C 6036211-T-C **
5921765-G-A 6053724-G-A **
5995664-T-C 6127623-T-C **
6013505-A-G 6145464-A-G **
6147886-C-T 6279845-C-T BY59317 IR3_Dst **
6157391-T-C 6289350-T-C IR3_Dst **
6157392-C-T 6289351-C-T IR3_Dst **
6197536-C-T 6329495-C-T IR3_Dst **
6197538-G-A 6329497-G-A IR3_Dst **
6197576-A-T 6329535-A-T IR3_Dst **
6198478-G-C 6330437-G-C IR3_Dst **
6198499-A-G 6330458-A-G IR3_Dst **
6198514-T-A 6330473-T-A IR3_Dst **
6198747-A-T 6330706-A-T IR3_Dst **
6198755-T-A 6330714-T-A IR3_Dst **
6198762-G-T 6330721-G-T IR3_Dst **
6199203-C-T 6331162-C-T IR3_Dst **
6199204-G-C 6331163-G-C IR3_Dst **
6202683-T-C 6334642-T-C IR3_Dst **
6202709-C-A 6334668-C-A IR3_Dst **
6202716-G-C 6334675-G-C IR3_Dst **
6203108-A-C 6335067-A-C IR3_Dst **
6300223-A-T 6432182-A-T IR3_Dst **
6300287-T-C 6432246-T-C IR3_Dst **
6300298-C-A 6432257-C-A IR3_Dst **
6300659-G-A 6432618-G-A IR3_Dst **
6300709-C-T 6432668-C-T IR3_Dst **
6328647-T-A 6460606-T-A IR3_Dst **
6329094-G-T 6461053-G-T IR3_Dst **
6408794-C-T 6540753-C-T **
6419955-A-G 6551914-A-G FTB65809 **
6578753-G-T 6710712-G-T **
6587943-C-T 6719902-C-T **
7007348-C-T 7139307-C-T **
7007349-A-G 7139308-A-G **
7022636-T-C 7154595-T-C **
7122506-G-C 7254465-G-C **
7443234-C-T 7575193-C-T **
7489344-G-A 7621303-G-A IR1_L **
7489372-C-T 7621331-C-T IR1_L **
7489376-C-T 7621335-C-T IR1_L **
8005535-G-A 8137494-G-A **
8709186-G-C 8841145-G-C **
8982468-T-A 9144859-T-A **
9179397-A-C 9341788-A-C FTB17284 **
9304221-G-T 9466612-G-T **
9361025-T-A 9523416-T-A **
9541298-A-C 9703689-A-C IR3_Prx **
9676113-T-C 9838504-T-C IR3_Prx **
9677411-A-C 9839802-A-C IR3_Prx **
9677423-G-A 9839814-G-A IR3_Prx **
9677566-C-A 9839957-C-A IR3_Prx **
9677611-C-T 9840002-C-T IR3_Prx **
9682295-A-G 9844686-A-G IR3_Prx **
9682297-G-A 9844688-G-A IR3_Prx **
9715374-C-T 9877765-C-T IR3_Prx **
9719166-T-G 9881557-T-G IR3_Prx **
9719581-T-A 9881972-T-A IR3_Prx **
9734399-A-G 9896790-A-G BY80599 IR3_Prx **
9734845-A-G 9897236-A-G IR3_Prx **
9738991-A-G 9901382-A-G IR3_Prx **
9738993-G-C 9901384-G-C IR3_Prx **
9739342-T-C 9901733-T-C BY80653 IR3_Prx **
9780269-C-G 9942660-C-G **
9780270-G-A 9942661-G-A **
9781104-A-G 9943495-A-G **
9781178-C-T 9943569-C-T **
9781710-T-G 9944101-T-G **
9781767-G-A 9944158-G-A **
9781793-C-T 9944184-C-T **
9782081-C-A 9944472-C-A **
9782184-C-G 9944575-C-G **
9782190-C-T 9944581-C-T **
9783254-G-T 9945645-G-T **
9783814-C-G 9946205-C-G **
9784059-G-A 9946450-G-A **
9801519-A-G 9963910-A-G **
13245054-T-C 11089378-T-C **
13247306-T-C 11091630-T-C **
13249048-C-T 11093372-C-T **
13252147-T-C 11096471-T-C **
13264728-T-C 11109052-T-C **
13283146-T-C 11127470-T-C **
13283147-G-C 11127471-G-C **
13283159-A-G 11127483-A-G **
13306131-T-A 11150455-T-A **
13318089-G-A 11162413-G-A BY2804 **
13318330-T-G 11162654-T-G **
13318734-A-T 11163058-A-T **
13327674-T-C 11171998-T-C **
13329539-C-T 11173863-C-T **
13329562-T-C 11173886-T-C **
13329575-C-G 11173899-C-G **
13331256-C-T 11175580-C-T **
13331607-G-A 11175931-G-A A11868 **
13338868-T-G 11183192-T-G **
13339231-C-T 11183555-C-T **
13339256-A-T 11183580-A-T **
13342327-G-T 11186651-G-T **
13347085-C-A 11191409-C-A **
13348358-A-T 11192682-A-T **
13348717-A-T 11193041-A-T **
13350428-A-G 11194752-A-G **
13352402-G-C 11196726-G-C **
13352427-C-A 11196751-C-A **
13363547-A-G 11207871-A-G **
13363548-T-G 11207872-T-G **
13374369-T-C 11218693-T-C **
13378295-T-C 11222619-T-C **
13378947-G-A 11223271-G-A FGC26028 **
13379990-A-G 11224314-A-G **
13379995-T-C 11224319-T-C **
13382931-A-G 11227255-A-G **
13384023-G-A 11228347-G-A **
13385585-C-T 11229909-C-T **
13386793-G-T 11231117-G-T **
13395576-T-C 11239900-T-C **
13395812-C-T 11240136-C-T **
13396061-G-C 11240385-G-C **
13396277-G-A 11240601-G-A **
13396281-G-A 11240605-G-A **
13396472-A-G 11240796-A-G **
13396517-C-A 11240841-C-A **
13396520-C-T 11240844-C-T **
13396797-T-C 11241121-T-C **
13396845-C-A 11241169-C-A **
13397626-A-G 11241950-A-G **
13412040-C-T 11256364-C-T FGC36481 **
13416571-G-T 11260895-G-T **
13438640-G-C 11282964-G-C FT46916 **
13531051-T-C 11375375-T-C **
13548150-C-T 11392474-C-T **
13548297-C-T 11392621-C-T FGC26066 **
13590346-A-C 11434670-A-C **
13590356-A-G 11434680-A-G **
13592767-G-A 11437091-G-A **
13601238-A-G 11445562-A-G **
13605922-C-T 11450246-C-T **
13606407-A-G 11450731-A-G **
13606418-T-G 11450742-T-G **
13608953-G-T 11453277-G-T **
13609024-T-C 11453348-T-C **
13629315-T-C 11473639-T-C **
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58855843-G-T 56735028-C-A **
58855913-A-T 56734958-T-A **
58856848-G-A 56734023-C-T **
58857929-T-G 56732942-A-C **
58858481-G-T 56732390-C-A **
58859416-T-A 56731455-A-T **
58859417-G-T 56731454-C-A **
58859447-A-C 56731424-T-G **
58865148-C-G 56725723-G-C **
58868561-C-G 56722310-G-C **
58868649-T-C 56722222-A-G **
58870020-C-A 56720851-G-T **
58870780-C-T 56720091-G-A **
58876489-C-T 56714382-G-A **
58876518-T-G 56714353-A-C **
58876582-T-C 56714289-A-G **
58876641-A-T 56714230-T-A **
58880490-A-C 56710381-T-G **
58880582-T-C 56710289-A-G **
58880737-C-T 56710134-G-A **
58880883-T-A 56709988-A-T **
58880884-G-T 56709987-C-A **
58881051-G-T 56709820-C-A FGC8357 **
58886433-C-G 56704438-G-C **
58886456-C-T 56704415-G-A **
58887801-T-C 56703070-A-G **
58890453-T-C 56700418-A-G **
58894776-A-T 56696095-T-A **
58896825-G-A 56694046-C-T S3133 **
58896835-C-A 56694036-G-T **
58898847-C-T 56692024-G-A **
58903577-C-T 56687294-G-A **
58903613-A-C 56687258-T-G **
58909962-G-A 56680909-C-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.

Mutation Notes:

Kit POSITION-REF-ALT (hg19) POSITION-REF-ALT (hg38) Note
XLY457447904-A-C7579863-A-CWilson have 4 reads with a C out of a total of 13 reads. None are long enough to capture a SNP about 115-120 bp to the right which would indicate if the SNP really was here.
XLY4514611351-AG-A12499557-AG-AThere are 16 reads in the BAM file and all have the deletion.
XLY4516680097-GT-G14568217-GT-GChecked the BAM file. There are 3 clear reads in that region and all show this mutation.
XLY4519973015-C-T17861135-C-TThere are 10C and 8T. This SNP is in P5. This is a ZZ SNP as there are no distinguishing positions anywhere near, at least +/- 400bp.
Manual16050909-CCTTT-C13939029-CCTTT-C5 reads
Manual8379144-CTTCT-C8511103-CTTCT-C8 reads, all positive.
Manual16242632-T-TTCTA14130752-T-TTCTA12 reads cover the region and are positive.
Manual4847052-T-G4979011-T-G4T 17G
Manual23316016-C-CTTTA21154130-C-CTTTA2 reads cover the region and are positive for the insertion.
Manual22300490-G-A20138604-G-A15G 13A
Manual22304191-G-C20142305-G-C50G 36C
Manual22452595-G-A20290709-G-A10A 16G
Manual22468334-G-T20306448-G-T9T
Manual28792323-TG-T26646176-TG-T28 reads cover this position. 11 reads show the deletion.
Manual5434076-G-A5566035-G-A2A