Tree Position

R-P312/S116 > Z40481 > ZZ11 > U152/S28 > L2/S139 > ZZ48 > ZZ56 > b38:7560719-A-C

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
413844
27676297-G-A 25530150-G-A BY24879 P1_Y2 +
8436702-G-A 8568661-G-A Y86857 YY+
17711977-T-C 15600097-T-C Y100007 YY+
16372079-G-A 14260199-G-A Y96131 YY+
15384464-C-T 13272584-C-T Y93669 YY+
14657736-G-A 12545801-G-A Y91916 YY+
14094276-T-C 11973570-T-C Y90288 YY+
18643457-A-G 16531577-A-G Y102293 YY+
13671198-A-G 11515522-A-G BY87832 +
19095389-CAT-C 16983509-CAT-C +
10005201-T-C 10167592-T-C BY82711 Y+
21260848-AG-A 19098962-AG-A +
21318887-T-C 19157001-T-C Y106123 YY+
8354968-G-A 8486927-G-A Y86580 YY+
18561020-G-T 16449140-G-T Y102088 YY+
7657034-T-C 7788993-T-C Y84581 YY+
7610668-A-G 7742627-A-G Y84438 YY+
21551236-A-G 19389350-A-G Y106858 YY+
21649702-T-C 19487816-T-C Y107114 YY+
22463379-G-T 20301493-G-T BY51769 DYZ19 +
22564545-G-A 20402659-G-A Y109103 YY+
22728025-C-A 20566139-C-A Y109585 YY+
23151504-G-A 20989618-G-A Y110816 YY+
23159913-T-C 20998027-T-C Y110864 Y+
18177335-T-C 16065455-T-C Y101546 YY+
23052718-G-GA 20890832-G-GA 8×A**
24405590-C-A 22259443-C-A Y112768 **
27290863-A-G 25144716-A-G P1_g3 **
4604195-T-C 4736154-T-C PF2815 **
13215974-AG-A 11060298-AG-A **
9874651-C-T 10037042-C-T Y89434 **
9384541-C-T 9546932-C-T **
19435659-C-T 17323779-C-T CTS10399 AM00238 **
25196168-T-C 23050021-T-C g1 ***
22339611-T-C 20177725-T-C FGC2886 DYZ19 ***
24908654-T-C 22762507-T-C g1 ***
25073888-T-C 22927741-T-C g1 ***
25096960-G-A 22950813-G-A g1 ***
25106963-A-G 22960816-A-G g1 ***
25727189-G-A 23581042-G-A P1_b3 ***
25311343-A-C 23165196-A-C P2_r1 ***
25324754-C-G 23178607-C-G P2_r1 ***
25848712-G-C 23702565-G-C P1_b3 ***
25849931-A-G 23703784-A-G P1_Y1 ***
26223434-G-C 24077287-G-C P1_Y1 ***
26671535-T-C 24525388-T-C P1_g2 ***
25065969-C-T 22919822-C-T g1 ***
18317333-C-A 16205453-C-A P6_Prx ***
13446804-GCCATTCCATTCCATT-G 11291128-GCCATTCCATTCCATT-G 12×CCATT***
13839571-G-A 11718865-G-A BY54521 ***
22270108-G-A 20108222-G-A BY47894 DYZ19 ***
22479309-C-T 20317423-C-T BY224215 DYZ19 ***
25229209-C-T 23083062-C-T P2_r1 ***
22450490-T-A 20288604-T-A DYZ19 ***
22306110-T-A 20144224-T-A DYZ19 ***
22303637-G-A 20141751-G-A DYZ19 ***
22282871-G-C 20120985-G-C DYZ19 ***
22251251-G-A 20089365-G-A DYZ19 ***
2888808-T-A 3020767-T-A ***
6248915-A-G 6380874-A-G IR3_Dst ***
20717363-CT-C 18555477-CT-C P4_Prx ***
13866814-A-G 11746108-A-G ***
19707940-A-AGCCT 17596060-A-AGCCT P5_Prx ***
20000745-ATT-A 17888865-ATT-A P5_Prx 11×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.

Age Analysis Information (work in progress)

AllMcDonaldYFull
Kit: 4138441086991279143688007307
Used in age calculations1086991279143688007307
Counts of SNPs2018
Variant counts last updated 2019-08-07 00:54:27.



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