Tree Position

R-P312/S116 > Z290 > L21/S145 > S552 > DF13 > FGC11134 > FGC12055 > A353 > Z3026 > Z16250 > A114 > CTS4466/S1136 > S1115 > Z3023 > FGC84010 > A541 > S1121 > Z16251 > A159 > Z17981 > A6507 > S27124 > Exact position not yet finalized.

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 STR1kG
22739741-G-A 20577855-G-A YY+
14612404-G-C 12500610-G-C BY66610KMS46 YY+
17836401-T-G 15724521-T-G CTS8102 Y+
7105709-CGT-C 7237668-CGT-C +
16990247-AG-A 14878367-AG-A +
58871385-T-C 56719486-A-G +
5905918-G-A 6037877-G-A FT166836 +
58884655-T-A 56706216-A-T +
13241287-G-A 11085611-G-A +
4682322-C-T 4814281-C-T +
58836907-C-T 56753964-G-A +
13392858-A-C 11237182-A-C +
4682281-C-A 4814240-C-A YFS032809 +
22457517-G-A 20295631-G-A DYZ19 +
4682288-A-G 4814247-A-G YFS032810 +
19130731-C-T 17018851-C-T YY+
13392904-G-A 11237228-G-A +
13392883-G-A 11237207-G-A +
22319023-GT-G 20157137-GT-G DYZ19 +
13387250-A-G 11231574-A-G +
7270276-C-T 7402235-C-T YY25×T+
28698742-GCTT-ACTC 26552595-GCTT-ACTC +
15023555-A-C 12911643-A-C S16678 F11578 YY+
8119489-G-T 8251448-G-T BY70093 YY14×T+
18606854-G-T 16494974-G-T YY13×T+
2894227-T-C 3026186-T-C Z9905 YY+
13888652-T-C 11767946-T-C YY+
14033930-G-A 11913224-G-A FT160078 YY+
15753706-G-A 13641826-G-A S3649 CTS4655 YY+
15987060-A-T 13875180-A-T YY13×T+
16348383-G-A 14236503-G-A S3646 CTS5536 YY+
17230162-T-A 15118282-T-A Y14×A+
17836391-A-G 15724511-A-G Y+
18231477-A-G 16119597-A-G CTS8832 +
18763472-C-T 16651592-C-T CTS9233 S3643 YY+
21434334-T-C 19272448-T-C YY+
6417344-C-CT 6549303-C-CT +
17385421-C-A 15273541-C-A YY15×A+
13508902-A-G 11353226-A-G +
14467033-ATCTG-A 12346302-ATCTG-A +
13489486-G-T 11333810-G-T +
5670077-G-T 5802036-G-T +
18872246-TTCTC-T 16760366-TTCTC-T +
2775139-C-T 2907098-C-T M8138 Y+
3146573-C-A 3278532-C-A S3554 +
3279696-TAA-T 3411655-TAA-T +
3297535-A-G 3429494-A-G +
3427606-C-T 3559565-C-T +
3440982-T-G 3572941-T-G +
3475896-G-A 3607855-G-A FTA34492 +
3496479-C-A 3628438-C-A +
3706791-T-G 3838750-T-G +
3706829-A-G 3838788-A-G +
3706839-G-A 3838798-G-A +
3899386-T-G 4031345-T-G FT271074 +
3899405-G-C 4031364-G-C +
4191420-A-C 4323379-A-C +
4217141-G-A 4349100-G-A +
4217428-T-C 4349387-T-C +
4226185-G-A 4358144-G-A +
4353990-T-C 4485949-T-C +
4368476-A-G 4500435-A-G +
4416300-A-G 4548259-A-G +
4419752-G-C 4551711-G-C +
4425052-A-T 4557011-A-T +
4425057-G-A 4557016-G-A +
4438834-C-T 4570793-C-T +
4442069-T-C 4574028-T-C +
4453852-T-A 4585811-T-A +
4473474-A-AT 4605433-A-AT +
4548351-T-C 4680310-T-C +
5032237-A-ATT 5164196-A-ATT 13×T+
5130488-G-T 5262447-G-T +
5130492-G-T 5262451-G-T +
5240050-A-G 5372009-A-G +
5240155-G-A 5372114-G-A +
5308974-G-A 5440933-G-A +
5317042-T-C 5449001-T-C +
5381817-A-G 5513776-A-G +
5462508-CCA-C 5594467-CCA-C +
5506037-G-A 5637996-G-A +
5680232-C-G 5812191-C-G +
5862139-T-C 5994098-T-C +
5905922-C-T 6037881-C-T +
5999363-C-CAAAAAA 6131322-C-CAAAAAA 20×A+
6084038-T-C 6215997-T-C +
6150000-G-T 6281959-G-T IR3_Dst +
6403110-A-T 6535069-A-T +
6438073-G-A 6570032-G-A +
6515573-A-ATTT 6647532-A-ATTT 10×T+
6786748-C-T 6918707-C-T YY+
7317603-T-C 7449562-T-C CTS1295 YY+
7320854-AAC-A 7452813-AAC-A +
7417492-G-A 7549451-G-A YY+
7604553-T-C 7736512-T-C YY+
7657669-GCA-G 7789628-GCA-G +
7717632-TCCC-T 7849591-TCCC-T +
7717676-CT-C 7849635-CT-C +
7915372-A-C 8047331-A-C YY+
8034824-G-A 8166783-G-A YY+
8093696-G-A 8225655-G-A YY+
8534777-C-G 8666736-C-G YY+
8774154-G-A 8906113-G-A YY+
9009910-A-G 9172301-A-G Y+
9307402-G-GTT 9469793-G-GTT +
9674996-T-C 9837387-T-C IR3_Prx +
9859556-A-C 10021947-A-C YY+
9958801-G-T 10121192-G-T Y+
9958851-C-T 10121242-C-T Y+
10068675-C-G 10231066-C-G +
10068759-C-A 10231150-C-A +
13194502-T-C 11038826-T-C FT440459 +
13194504-C-T 11038828-C-T +
13254614-TC-T 11098938-TC-T +
13257817-A-T 11102141-A-T +
13258359-A-T 11102683-A-T 9×T+
13261255-G-C 11105579-G-C +
13261275-G-A 11105599-G-A +
13261289-T-A 11105613-T-A +
13294960-T-C 11139284-T-C +
13294965-A-G 11139289-A-G +
13295471-T-C 11139795-T-C +
13298698-C-T 11143022-C-T +
13306386-A-G 11150710-A-G +
13306419-A-T 11150743-A-T +
13309130-T-C 11153454-T-C +
13383123-G-A 11227447-G-A +
13386219-C-T 11230543-C-T +
13387195-C-T 11231519-C-T +
13392768-CA-C 11237092-CA-C 11×A+
13445381-G-GAAA 11289705-G-GAAA +
13448734-C-CATTCG 11293058-C-CATTCG +
13464789-C-T 11309113-C-T BY85702 +
13472458-C-T 11316782-C-T +
13475187-G-A 11319511-G-A +
13482531-G-C 11326855-G-C +
13533709-G-T 11378033-G-T +
13538672-A-C 11382996-A-C +
13579340-C-T 11423664-C-T +
13612029-C-A 11456353-C-A +
13690097-ATGGAG-A 11534421-ATGGAG-A +
13714700-G-T 11559024-G-T +
13714756-C-CGAACG 11559080-C-CGAACG +
13714760-C-CGGAAG 11559084-C-CGGAAG +
13873378-A-G 11752672-A-G Y+
13888692-T-TTG 11767986-T-TTG 9×TG+
13949032-C-A 11828326-C-A FT328942 Y+
14296437-T-C 12175731-T-C CTS2414 YY+
14419573-C-G 12298848-C-G CTS2672 YY+
14881732-GTA-G 12769800-GTA-G +
15159251-T-A 13047337-T-A YY+
16218835-C-A 14106955-C-A Z36112 YY+
16244790-AGGGT-A 14132910-AGGGT-A +
16244821-GTGTA-G 14132941-GTGTA-G +
16892590-A-C 14780710-A-C M9186 YY+
17275757-A-G 15163877-A-G M9206 YY+
17275758-A-G 15163878-A-G M9207 YY10×AAGGG+
17302264-T-A 15190384-T-A YY+
17385419-T-A 15273539-T-A YY+
17543973-AT-A 15432093-AT-A +
17948277-A-C 15836397-A-C YY+
18230822-G-T 16118942-G-T +
18409093-T-G 16297213-T-G P6_Gap +
18550523-A-G 16438643-A-G CTS8921 S3648 Y+
18564313-A-T 16452433-A-T YY+
18872258-CTTTCT-C 16760378-CTTTCT-C +
18872262-CTTT-C 16760382-CTTT-C +
18891480-T-C 16779600-T-C YY+
19050397-G-A 16938517-G-A S21692 YY+
19056770-A-T 16944890-A-T CTS9750 S3651 YY+
19073921-TAC-T 16962041-TAC-T +
19128804-AG-A 17016924-AG-A +
19187413-TGCAC-T 17075533-TGCAC-T +
21149581-GGT-G 18987695-GGT-G +
21189054-T-A 19027168-T-A YY+
21347063-A-G 19185177-A-G Y+
21423453-T-A 19261567-T-A YY+
21502807-G-T 19340921-G-T M4411 Y+
21502811-C-T 19340925-C-T S23175 Y+
21616829-C-G 19454943-C-G YY+
21722694-A-T 19560808-A-T YY+
21946479-G-A 19784593-G-A FT348528 YY+
22260993-A-T 20099107-A-T DYZ19 +
22489691-G-A 20327805-G-A DYZ19 +
22489700-G-T 20327814-G-T DYZ19 +
22893384-C-T 20731498-C-T BY163170 YY+
22938826-T-TTG 20776940-T-TTG +
23148744-TC-T 20986858-TC-T +
23271510-G-C 21109624-G-C CTS11786 YY+
24388225-CTA-C 22242078-CTA-C +
24485667-C-CA 22339520-C-CA +
24485671-A-AT 22339524-A-AT +
24886464-C-A 22740317-C-A PF4400 g1 13×A+
25200847-C-A 23054700-C-A g1 15×AAAG+
26508182-C-T 24362035-C-T FGC8528 P1_Y1 +
28638611-T-C 26492464-T-C +
28661410-T-C 26515263-T-C Y+
28698666-GT-G 26552519-GT-G 9×T+
28724418-C-G 26578271-C-G Y+
58819361-NG-N +
58872987-C-G 56717884-G-C +
58873959-T-C 56716912-A-G +
58901504-C-G 56689367-G-C +
58986296-C-G 56840149-C-G +
59002708-A-G 56856561-A-G +

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:

NA2027822229264-C-A20067378-C-AChecked BAM File. Just one read, but it is an A.
Manual6172699-G-C6304658-G-CJust one read, but is a C.
Manual14435052-A-T12314325-A-T3A 2T
Manual17868583-TAC-T15756703-TAC-TJust one read, but it has the deletion.
Manual19237370-C-T17125490-C-TJust one read, a T. Oddly, the mate doesn't look to belong here, or anywhere else.
Manual19690217-T-A17578337-T-A2 reads cover the necessary area, and both show the T to A replacement.
Manual25133527-C-T22987380-C-T1C 1T
Manual25972245-T-C23826098-T-C4C 1T
Manual6517053-TC-T6649012-TC-T3 reads all show the deletion.