Tree Position

R-U106/S21 > Z2265 > Z381/S263 > Z301/S499 > S1688 > BY11542 > BY62617

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
397459
22313594-G-T 20151708-G-T DYZ19 A*
25915612-G-A 23769465-G-A P1_Y1 A*
22312804-C-G 20150918-C-G DYZ19 A*
18340373-A-G 16228493-A-G P6_Prx A*
19929506-G-A 17817626-G-A P5_Prx A*
28817557-T-C 26671410-T-C A*
6000057-T-C 6132016-T-C BY176392 +
8272629-G-C 8404588-G-C BY176552 YY+
8383239-C-T 8515198-C-T BY176566 YY+
13651712-C-G 11496036-C-G BY210613 +
14142801-T-G 12022095-T-G BY176726 YY+
14311221-G-C 12190515-G-C BY176746 YY+
14771479-C-T 12659548-C-T BY176785 YY+
15979383-A-T 13867503-A-T BY176879 YY+
15982217-C-G 13870337-C-G BY176880 YY+
16185928-G-T 14074048-G-T BY176887 Y+
16324699-G-T 14212819-G-T BY176905 YY+
16655635-A-G 14543755-A-G BY176930 YY+
16770265-C-T 14658385-C-T BY176938 YY+
16945950-A-G 14834070-A-G BY176961 YY+
17275035-CAGACAGAT-C 15163155-CAGACAGAT-C +
21263746-C-T 19101860-C-T BY177246 YY+
21640199-C-A 19478313-C-A BY177293 YY+
21682788-TCCAGTTACTTTACACA-T 19520902-TCCAGTTACTTTACACA-T +
21900618-C-G 19738732-C-G BY177323 YY+
22457694-G-T 20295808-G-T FT457192 DYZ19 +
22606519-G-A 20444633-G-A BY177355 YY+
22619175-T-A 20457289-T-A 3243302-C-TFGC7391 YY+
22727115-T-C 20565229-T-C BY177373 YY+
22848195-A-G 20686309-A-G BY177388 YY+
23257114-G-A 21095228-G-A BY177424 YY+
23413971-A-G 21252085-A-G BY177438 YY+
22318850-G-T 20156964-G-T A21280 DYZ19 *
28720852-C-A 26574705-C-A **
5313437-ACCT-A 5445396-ACCT-A 5×CCT**
10016123-A-AT 10178514-A-AT **
14324920-TGA-T 12204214-TGA-T **
10935520-T-G **
10935532-C-G **
10935551-CCAT-C **
10935557-CAG-C **
10935563-A-T **
10940367-A-T **
10940370-C-T **
10940399-T-C **
10789329-C-G **
7337311-C-A 7469270-C-A **
56835536-C-T **
7360199-C-A 7492158-C-A **
23955067-C-A 21808920-C-A **
7140899-C-A 7272858-C-A **
11003722-C-A **
2824429-C-A 2956388-C-A **
13856351-T-G 11735645-T-G **
14250404-G-T 12129698-G-T BY94351 **
16275515-C-A 14163635-C-A YFS097129 **
11025985-T-C **
10808610-C-A **
14147841-G-A 12027135-G-A **
8792948-T-C 8924907-T-C **
5366918-C-A 5498877-C-A **
3032536-C-A 3164495-C-A **
10821898-A-ACTAGT **
16039196-C-A 13927316-C-A FT249240 **
10846929-G-A **
14413236-G-T 12292533-G-T **
7420578-C-A 7552537-C-A **
16541052-C-A 14429172-C-A **
15347088-C-A 13235207-C-A **
19429576-C-A 17317696-C-A **
8172687-CTTTTTTTT-C 8304646-CTTTTTTTT-C 22×T**
10766622-C-A **
10790253-C-A **
18365625-C-A 16253745-C-A P6_Prx **
3965323-C-A 4097282-C-A **
3603251-C-A 3735210-C-A **
3831043-C-A 3963002-C-A **
18395817-C-A 16283937-C-A Y73474 P6_Gap **
15730484-C-A 13618604-C-A **
21786084-C-A 19624198-C-A **
16271147-C-A 14159267-C-A **
16020838-C-A 13908958-C-A **
6593367-C-A 6725326-C-A **
14176234-C-A 12055528-C-A **
13908365-C-A 11787659-C-A **
14147886-G-A 12027180-G-A **
13456259-A-ATTCC 11300583-A-ATTCC **
4528013-C-A 4659972-C-A **
18242895-G-A 16131015-G-A **
6403654-A-T 6535613-A-T **
18183210-C-A 16071330-C-A **
4230126-C-A 4362085-C-A **
20932985-GTGT-G 18771099-GTGT-G P4_Dst **
6509272-C-A 6641231-C-A **
4351360-C-A 4483319-C-A **
13578034-C-CAA 11422358-C-CAA 14×A**
10036009-T-G 10198400-T-G **
14513154-C-A 12401359-C-A **
4408251-C-A 4540210-C-A **
13478322-G-T 11322646-G-T **
26392971-C-A 24246824-C-A P1_Y1 **
24403201-C-A 22257054-C-A **
13859225-G-T 11738519-G-T **
13406568-C-A 11250892-C-A **
15776118-G-T 13664238-G-T **
10808612-A-C **
14147905-C-T 12027199-C-T **
10926700-T-G **
3271529-G-T 3403488-G-T **
20865408-C-A 18703522-C-A P4_Dst **
11675718-A-G **
7363801-C-A 7495760-C-A **
10789354-C-A **
28585797-C-A 26439650-C-A **
17455911-C-A 15344031-C-A **
10889726-CT-C **
7341575-C-A 7473534-C-A **
22164567-G-T 20002681-G-T **
16279099-C-A 14167219-C-A **
15642871-C-A 13530991-C-A **
4104372-GGT-G 4236331-GGT-G **
19950522-A-C 17838642-A-C P5_Prx **
21515859-TCTCA-T 19353973-TCTCA-T **
10820419-C-CA **
21105514-A-C 18943628-A-C 13×T**
13478319-C-T 11322643-C-T **
10935582-C-T **
6747955-C-A 6879914-C-A **
2881313-AT-A 3013272-AT-A **
3267453-C-T 3399412-C-T **
3467293-T-C 3599252-T-C **
3849503-A-C 3981462-A-C **
3987862-C-T 4119821-C-T **
4107931-T-C 4239890-T-C **
4293569-C-A 4425528-C-A **
4447414-C-A 4579373-C-A **
4539024-C-A 4670983-C-A **
4968757-C-A 5100716-C-A **
5170099-T-C 5302058-T-C **
5263532-A-G 5395491-A-G **
5645221-G-A 5777180-G-A **
5804127-T-C 5936086-T-C **
6596174-TA-T 6728133-TA-T **
7139011-G-A 7270970-G-A **
7282566-A-G 7414525-A-G **
7310571-C-CTTT 7442530-C-CTTT 21×T**
7640859-C-T 7772818-C-T **
7649185-TG-T 7781144-TG-T **
7756370-C-A 7888329-C-A **
8172723-T-C 8304682-T-C **
8333677-T-C 8465636-T-C **
8333680-T-C 8465639-T-C **
8697510-CT-C 8829469-CT-C **
8792952-T-C 8924911-T-C **
8851066-G-T 8983025-G-T **
9868078-C-A 10030469-C-A **
10034280-G-A 10196671-G-A **
10764295-T-C **
10820422-C-CCATT **
10820466-T-G **
10862406-A-T **
10885600-C-A **
10926687-C-G **
10926689-A-ACTAGTTTTGT **
10956073-T-C **
11007041-C-T **
13212531-C-T 11056855-C-T **
13360802-G-A 11205126-G-A **
13478293-TC-T 11322617-TC-T **
13644995-T-C 11489319-T-C **
13671415-AGAGTG-A 11515739-AGAGTG-A **
11666077-A-C **
13984190-T-C 11863484-T-C **
14147816-A-G 12027110-A-G **
14147817-TCCTGGCTAACA-T 12027111-TCCTGGCTAACA-T **
14147867-G-T 12027161-G-T **
14355585-A-C 12234880-A-C **
14425943-G-A 12305218-G-A **
14492859-G-T 12381056-G-T **
14626982-C-A 12515050-C-A **
14711617-C-A 12599684-C-A **
15172582-C-A 13060668-C-A **
15222079-C-A 13110165-C-A **
15258463-G-A 13146547-G-A **
15616712-G-T 13504832-G-T **
15749236-C-A 13637356-C-A **
16038760-T-A 13926880-T-A **
16039225-T-C 13927345-T-C **
16045313-C-A 13933433-C-A **
16345173-CT-C 14233293-CT-C **
16522937-C-T 14411057-C-T **
16941690-C-A 14829810-C-A **
17130443-G-A 15018563-G-A **
17193282-AATATTTGAGCAATATAC-A 15081402-AATATTTGAGCAATATAC-A **
17440299-C-G 15328419-C-G **
17739877-C-A 15627997-C-A FGC82093 **
17739919-T-C 15628039-T-C **
18159291-C-A 16047411-C-A **
18192345-C-A 16080465-C-A **
18309174-T-C 16197294-T-C P6_Prx **
18423892-A-G 16312012-A-G P6_Gap **
18456962-T-C 16345082-T-C P6_Dst **
18457087-C-T 16345207-C-T P6_Dst **
18673770-TTGAATG-T 16561890-TTGAATG-T **
18927563-T-C 16815683-T-C **
19250218-C-A 17138338-C-A **
19736548-T-A 17624668-T-A P5_Prx **
19736585-T-A 17624705-T-A P5_Prx **
19746023-A-G 17634143-A-G P5_Prx **
20019008-G-T 17907128-G-T P5_Prx **
20510872-G-T 18348986-G-T P5_Dst **
20859173-A-T 18697287-A-T P4_Dst **
21495348-T-C 19333462-T-C **
21540822-C-A 19378936-C-A **
21909672-T-C 19747786-T-C **
21921934-A-G 19760048-A-G **
22281795-G-T 20119909-G-T DYZ19 **
22485382-G-T 20323496-G-T BY224673 DYZ19 **
22487775-C-A 20325889-C-A DYZ19 **
22490336-C-T 20328450-C-T DYZ19 **
22965110-C-A 20803224-C-A **
23009971-G-T 20848085-G-T **
23097998-T-A 20936112-T-A **
23186553-C-A 21024667-C-A **
23790305-T-C 21628419-T-C **
25404207-A-T 23258060-A-T P2_r2 **
28022204-A-AG 25876057-A-AG P1_Y2 **
28478174-C-A 26332027-C-A **
28556388-C-A 26410241-C-A **
28640509-C-T 26494362-C-T **
28657560-C-A 26511413-C-A **
17463321-TTA-T,TTATA 15351441-TTA-T,TTATA 14×TA***
21505578-GT-G,GTT 19343692-GT-G,GTT 13×T***
16760884-CA-C,CAA 14649004-CA-C,CAA 16×A***
10926662-G-C,T ***
10034437-G-A 10196828-G-A ***
12826705-GAAAA-G 18×A***
13456245-A-T 11300569-A-T ***
13456285-A-T 11300609-A-T ***
10790278-C-G ***
10926718-C-A ***
10926720-T-A ***
13203566-CAA-C,CAAAA 19×A***
13488560-C-G,T 11332884-C-G,T ***
13478276-A-T 11322600-A-T ***
13478288-C-CA 11322612-C-CA ***
24876983-G-T 22730836-G-T FT461088 g1 ***
13470057-A-G 11314381-A-G ***
4930722-C-A 5062681-C-A ***
5199977-C-A 5331936-C-A ***
6828059-C-A 6960018-C-A ***
7363071-C-A 7495030-C-A ***
13481218-C-G 11325542-C-G ***
13824776-A-G 11704070-A-G ***
14431920-C-A 12311193-C-A ***
15326440-A-G 13214558-A-G ***
17014769-C-T 14902889-C-T ***
56828956-T-A ***
56829682-A-T ***
30923-C-A ***

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.