Tree Position

R-U106/S21 > Z2265 > Z381/S263 > Z301/S499 > L48 > ZZ63 > Y10968 > A6706 > BY12196 > 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 STRBigY3
IN72725
18439636-C-T 16327756-C-T P6_Dst A*
20798862-C-A 18636976-C-A P4_Prx A*
26457839-G-A 24311692-G-A P1_Y1 A*
25952597-A-T 23806450-A-T P1_Y1 A*
18369447-G-A 16257567-G-A P6_Prx A*
13687617-G-T 11531941-G-T A*
56832527-C-T A*
20705193-T-C 18543307-T-C P4_Prx A*
20645123-A-AT 18483237-A-AT P4_Prx 9×TA*
17214831-C-T 15102951-C-T FT187631 Y+
16973092-G-A 14861212-G-A FT187538 Y+
16708732-G-A 14596852-G-A FT187438 Y+
16580819-C-G 14468939-C-G FT187376 YY+
15475662-G-A 13363782-G-A YY+
16039925-A-G 13928045-A-G FT187172 YY+
15760806-C-T 13648926-C-T FT187047 Y+
17618474-T-G 15506594-T-G FT187809 Y+
15108354-C-T 12996441-C-T YY+
14654388-C-T 12542453-C-T FT281678 YY+
14536209-ATGT-A 12424410-ATGT-A +
13510325-T-A 11354649-T-A +
22486490-G-T 20324604-G-T DYZ19 +
17391732-A-T 15279852-A-T BY114376 YY+
7262397-C-T 7394356-C-T A14073A14073 YY+
17738454-A-G 15626574-A-G BY117000 YY+
18099294-G-A 15987414-G-A BY120011 YY+
11024632-C-G +
18935416-G-A 16823536-G-A FT188325 YY+
18942879-A-G 16830999-A-G FT188330 YY+
19123082-T-C 17011202-T-C FT188432 YY+
21504775-T-C 19342889-T-C YY+
21514990-T-G 19353104-T-G BY133523 YY+
22810511-C-T 20648625-C-T FT189214 Y+
22858686-C-T 20696800-C-T FT189227 YY+
22934479-G-T 20772593-G-T BY141855 YY+
23067047-C-T 20905161-C-T BY142690 YY+
23203090-T-C 21041204-T-C FT189353 Y+
23280011-T-C 21118125-T-C FT189381 YY+
23305692-CAT-C 21143806-CAT-C +
11034011-ATC-A +
28505149-A-G 26359002-A-G FT189692 Y+
10958135-A-T +
8366478-T-A 8498437-T-A FT185597 YY+
4505875-G-A 4637834-G-A FT183979 +
10861514-A-G +
5341792-A-G 5473751-A-G FT184414 +
5371202-A-T 5503161-A-T FT184426 +
5645485-C-G 5777444-C-G FT184557 +
6100894-A-G 6232853-A-G FT184805 +
6856135-A-T 6988094-A-T BY61743 YY+
7015789-A-C 7147748-A-C FT185074 Y+
7193970-G-A 7325929-G-A FT185154 YY+
3011805-AATT-A 3143764-AATT-A +
7749910-A-G 7881869-A-G FT185347 YY+
4062498-A-G 4194457-A-G FT183752 +
8547149-C-T 8679108-C-T FT185679 YY+
10035947-G-A 10198338-G-A +
10801891-C-T +
8692133-C-T 8824092-C-T FT185747 YY+
22512864-G-A 20350978-G-A FGC52360 DYZ19 +
8777492-TA-T 8909451-TA-T +
22317586-C-A 20155700-C-A DYZ19 *
10979965-A-AATTCC *
28806676-A-G 26660529-A-G *
22257436-C-A 20095550-C-A DYZ19 *
13266504-G-A 11110828-G-A *
24955937-T-C 22809790-T-C g1 **
23169315-G-T 21007429-G-T **
20815452-T-C 18653566-T-C FGC7938 P4_Gap **
22298099-A-G 20136213-A-G BY216630 DYZ19 **
3999821-GTATATATA-G 4131780-GTATATATA-G 17×TA**
2981549-G-A 3113508-G-A **
22298398-C-T 20136512-C-T DYZ19 **
5093232-G-C 5225191-G-C **
13460630-G-A 11304954-G-A **
8974305-T-A 9136696-T-A **
18414348-G-A 16302468-G-A FT268534 P6_Gap **
13396920-T-A 11241244-T-A **
5093244-A-T 5225203-A-T **
16709078-C-T 14597198-C-T **
16320517-G-A 14208637-G-A **
13572289-T-G 11416613-T-G **
13364427-A-G 11208751-A-G ***
9971374-C-T 10133765-C-T ***
17192865-TGT-T,TGG 15080985-TGT-T,TGG ***
10889246-TCCATG-T ***
4985899-A-G 5117858-A-G ***
9524105-A-T 9686496-A-T ***
22989327-A-G 20827441-A-G ***
22984129-T-C 20822243-T-C ***
17081227-A-T 14969347-A-T ***
17702219-C-T 15590339-C-T ***
22235442-AC-A 20073556-AC-A DYZ19 ***
13884529-C-CAA 11763823-C-CAA 17×A***
4778012-CA-C,CAA 4909971-CA-C,CAA 16×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.

Age Analysis Information (work in progress)

AllMcDonaldYFull
Kit: IN727251509605294538158347730
Used in age calculations1509605294538158347730
Counts of SNPs3225
Variant counts last updated 2020-06-27 02:43:34.



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