Tree Position

R-P312/S116 > Z290 > L21/S145 > DF13 > Z39589 > Z251/S470 > S11556 > Z17665

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
22443405-G-T 20281519-G-T ZS1457 DYZ19 +
19441341-G-C 17329461-G-C Y104739 YY+
17336399-C-A 15224519-C-A BY39506 YY+
17436705-C-T 15324825-C-T Y99142 YY+
18178531-C-T 16066651-C-T Y101551 YY+
18383176-AG-A 16271296-AG-A P6_Gap +
18950304-T-C 16838424-T-C Y103142 YY+
19217088-A-G 17105208-A-G Y104033 YY+
19349656-G-T 17237776-G-T Y104470 YY+
19484104-A-G 17372224-A-G Y104917 Y+
16668482-C-G 14556602-C-G Y96976 YY+
19496906-A-C 17385026-A-C Y104952 YY+
20696155-T-C 18534269-T-C BY39507 P4_Prx +
21240412-G-T 19078526-G-T Y105820 YY+
21258092-C-T 19096206-C-T Y105879 YY+
22246427-G-T 20084541-G-T DYZ19 +
22476815-C-T 20314929-C-T BY39510 DYZ19 +
23491368-G-T 21329482-G-T Y111698 YY+
23730528-A-T 21568642-A-T BY39512 +
17051208-G-A 14939328-G-A Y98063 YY+
19562828-T-C 17450948-T-C Y105123 Y+
15591242-C-A 13479362-C-A Y94220 YY+
8226501-C-T 8358460-C-T Y86177 YY+
7703243-C-T 7835202-C-T Z1138 YY+
15591076-C-A 13479196-C-A Y94219 YY+
2846094-A-C 2978053-A-C Y81606 YY+
6695587-A-G 6827546-A-G Y82327 YY+
6715427-A-G 6847386-A-G Y82382 YY+
7288901-A-G 7420860-A-G Y83811 YY+
7857423-A-C 7989382-A-C Y85175 YY+
28771048-C-T 26624901-C-T Y113425 +
8797005-A-T 8928964-A-T Y88031 YY+
9035512-A-T 9197903-A-T BY39505 Y+
9379731-C-T 9542122-C-T Y88828 Y+
8853821-C-G 8985780-C-G Y88190 YY+
14329755-A-C 12209049-A-C BY94933 YY+
18892377-C-A 16780497-C-A **
16978227-G-C 14866347-G-C CTS6558 **
27856225-T-C 25710078-T-C BY39513 P1_Y2 **
27029318-A-G 24883171-A-G P1_r4 **
15399619-C-T 13287739-C-T BY101304 **
22445147-G-T 20283261-G-T BY39509 DYZ19 **
22512753-G-A 20350867-G-A Y108879 DYZ19 **
24167977-T-C 22021830-T-C P3_b1 ***
23717220-A-T 21555334-A-T ***
25165955-G-A 23019808-G-A g1 ***
26106195-A-G 23960048-A-G P1_Y1 ***
25133427-G-T 22987280-G-T g1 ***
25207389-C-T 23061242-C-T g1 ***
25207545-C-T 23061398-C-T P2_r1 ***
26180625-C-T 24034478-C-T P1_Y1 ***
26218765-C-T 24072618-C-T P1_Y1 ***
26253418-A-C 24107271-A-C P1_Y1 ***
26780418-A-C 24634271-A-C P1_g2 ***
22461932-A-G 20300046-A-G BY34067 DYZ19 ***
22459181-A-T 20297295-A-T DYZ19 ***
22488003-G-T 20326117-G-T DYZ19 ***
22475482-G-T 20313596-G-T BY53119 DYZ19 ***
22432497-A-C 20270611-A-C DYZ19 ***
22312543-G-A 20150657-G-A DYZ19 ***
22264496-G-A 20102610-G-A DYZ19 ***
22256478-A-T 20094592-A-T DYZ19 ***
14618647-C-A 12506845-C-A ***
22228419-C-A 20066533-C-A BY39508 DYZ19 ***
13850546-G-A 11729840-G-A ***
18313378-C-T 16201498-C-T P6_Prx ***
20632773-G-A 18470887-G-A P4_Prx ***
20053168-G-A 17941288-G-A P5_Prx ***
19990684-G-C 17878804-G-C P5_Prx ***
19974797-T-G 17862917-T-G P5_Prx ***
22254839-G-C 20092953-G-C DYZ19 ***

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)

Kit: 3305581040183274966377566123
Used in age calculations1040183274966377566123
Counts of SNPs2826
Variant counts last updated 2018-07-20 16:48:54.

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