Harding

BigY3: 469689
MDKA Birth: United States > Pennsylvania

Tree Position

R-P312/S116 > Z46521 > Z46516 > ZZ11 > U152/S28 > L2/S139 > Z41150 > Z49 > A21822 > P37 > BY3614 > Y56952 > SK1848 > BY166207

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.

Position Blocks Names Region McDonald BED combBED STRBigY3
469689
hg19:Y:19892868-G-GT hg38:Y:17780988-G-GT P5_Prx 31×TA*
hg19:Y:20712287-T-C hg38:Y:18550401-T-C BY26414 P4_Prx 16×ACA*
hg19:Y:3682248-T-A hg38:Y:3814207-T-A A3180 A*
hg19:Y:4417390-T-A hg38:Y:4549349-T-A A*
hg19:Y:3656058-C-T hg38:Y:3788017-C-T A*
hg19:Y:58978771-G-A hg38:Y:56832624-G-A A*
hg38:Y:10852755-T-A A*
hg38:Y:10868888-C-A A*
hg38:Y:56841236-G-T A6157 A*
hg38:Y:56834167-A-T A*
hg19:Y:13450850-C-T hg38:Y:11295174-C-T A*
hg19:Y:13451644-C-CATTCT hg38:Y:11295968-C-CATTCT A*
hg19:Y:5699506-G-A hg38:Y:5831465-G-A A*
hg19:Y:16116907-A-T hg38:Y:14005027-A-T P8_Prx A*
hg19:Y:18366069-A-G hg38:Y:16254189-A-G P6_Prx A*
hg19:Y:19594103-G-C hg38:Y:17482223-G-C P5_Prx YA*
hg19:Y:19628410-C-T hg38:Y:17516530-C-T P5_Prx A*
hg19:Y:19918720-T-A hg38:Y:17806840-T-A P5_Prx A*
hg19:Y:22225057-G-A hg38:Y:20063171-G-A DYZ19 A*
hg19:Y:25954306-G-A hg38:Y:23808159-G-A P1_Y1 A*
hg19:Y:26513391-A-G hg38:Y:24367244-A-G P1_Y1 A*
hg38:Y:56870894-A-G A*
hg19:Y:22044686-C-T hg38:Y:19882800-C-T FGC38049 BY1808 YY+
hg19:Y:3468929-C-A hg38:Y:3600888-C-A FT271623 +
hg19:Y:15732133-A-G hg38:Y:13620253-A-G YY+
hg19:Y:23997511-G-A hg38:Y:21851364-G-A FT60394 Y+
hg19:Y:2961712-A-G hg38:Y:3093671-A-G FT271599 +
hg19:Y:3237841-G-A hg38:Y:3369800-G-A +
hg19:Y:3262817-A-C hg38:Y:3394776-A-C FT271615 +
hg19:Y:3624787-C-T hg38:Y:3756746-C-T FT208376 +
hg19:Y:4556753-C-T hg38:Y:4688712-C-T FT208571 +
hg19:Y:4838945-G-A hg38:Y:4970904-G-A FT271685 +
hg19:Y:5320359-C-T hg38:Y:5452318-C-T FT59868 +
hg19:Y:5371502-G-A hg38:Y:5503461-G-A FT271715 +
hg19:Y:5447261-G-C hg38:Y:5579220-G-C FT208740 +
hg19:Y:6574963-C-A hg38:Y:6706922-C-A FT208955 +
hg38:Y:10617054-C-G FT225542 +
hg19:Y:13910830-A-C hg38:Y:11790124-A-C Y+
hg19:Y:17475924-C-T hg38:Y:15364044-C-T FT102324 YY+
hg19:Y:17505692-G-T hg38:Y:15393812-G-T FT272025 YY+
hg19:Y:17869128-A-C hg38:Y:15757248-A-C FT272035 YY+
hg19:Y:18654355-G-A hg38:Y:16542475-G-A FT272061 YY+
hg19:Y:18681413-T-G hg38:Y:16569533-T-G FT272064 YY+
hg19:Y:18904995-A-C hg38:Y:16793115-A-C FT60255 YY+
hg19:Y:23742255-T-A hg38:Y:21580369-T-A FT60391 +
hg19:Y:3661422-G-GATTT hg38:Y:3793381-G-GATTT *
hg19:Y:7169777-T-C hg38:Y:7301736-T-C YY*
hg19:Y:9789275-C-CGT hg38:Y:9951666-C-CGT 22×GT*
hg19:Y:13855522-GATGGAATGGAATGGA-G hg38:Y:11734816-GATGGAATGGAATGGA-G DYZ17 11×ATGGA*
hg19:Y:3701111-T-A hg38:Y:3833070-T-A *
hg19:Y:3701096-T-G hg38:Y:3833055-T-G *
hg19:Y:7169769-A-G hg38:Y:7301728-A-G YY*
hg19:Y:7169915-A-G hg38:Y:7301874-A-G FT19017 YY*
hg38:Y:10937818-T-A *
hg38:Y:56742699-A-G **
hg19:Y:13453289-C-CA hg38:Y:11297613-C-CA **
hg19:Y:13453291-T-TCGGG hg38:Y:11297615-T-TCGGG **
hg19:Y:6163531-A-G hg38:Y:6295490-A-G IR3_Dst **
hg19:Y:26421528-C-A hg38:Y:24275381-C-A P1_Y1 **
hg19:Y:20432866-A-ACT hg38:Y:18270980-A-ACT P5_Dst **
hg19:Y:6574987-G-A hg38:Y:6706946-G-A **
hg19:Y:6722039-C-T hg38:Y:6853998-C-T **
hg19:Y:8815219-G-T hg38:Y:8947178-G-T **
hg19:Y:13501846-C-G hg38:Y:11346170-C-G FTA21668 **
hg19:Y:13611809-C-T hg38:Y:11456133-C-T **
hg19:Y:14260704-T-C hg38:Y:12139998-T-C **
hg19:Y:15141172-T-C hg38:Y:13029259-T-C **
hg19:Y:15909303-T-C hg38:Y:13797423-T-C FT209832 **
hg19:Y:18801837-C-A hg38:Y:16689957-C-A FTB64246 **
hg19:Y:22236939-A-G hg38:Y:20075053-A-G DYZ19 **
hg19:Y:23226323-G-T hg38:Y:21064437-G-T FT424363 **
hg19:Y:25889972-A-T hg38:Y:23743825-A-T P1_Y1 **
hg19:Y:15320524-A-AAAG hg38:Y:13208630-A-AAAG 9×AAG***
hg19:Y:6603365-TTTTC-T hg38:Y:6735324-TTTTC-T 5×TTTC***
hg19:Y:24417118-C-CAGAA hg38:Y:22270971-C-CAGAA 5×AGAA***
hg19:Y:9799134-CAAAA-C hg38:Y:9961525-CAAAA-C 24×A***
hg19:Y:21122971-C-CA hg38:Y:18961085-C-CA 10×A***
hg19:Y:2817709-CAA-C hg38:Y:2949668-CAA-C 30×A***
hg19:Y:14835402-C-T hg38:Y:12723469-C-T ***
hg19:Y:21574498-GT-G hg38:Y:19412612-GT-G 10×T***
hg19:Y:17050099-CTTTTT-C hg38:Y:14938219-CTTTTT-C 15×T***
hg38:Y:10937804-C-T FT393177 ***
hg19:Y:4897963-CAAAAA-C hg38:Y:5029922-CAAAAA-C 20×A***
hg19:Y:5571890-CTT-C hg38:Y:5703849-CTT-C 16×T***
hg19:Y:5760628-G-C hg38:Y:5892587-G-C ***
hg19:Y:17584130-ATTTTTTT-A hg38:Y:15472250-ATTTTTTT-A 26×T***
hg19:Y:23377365-CA-C hg38:Y:21215479-CA-C ***
hg19:Y:4581665-GT-G hg38:Y:4713624-GT-G 8×T***
hg19:Y:16783412-TA-T,TAA hg38:Y:14671532-TA-T,TAA 13×A***
hg19:Y:4976099-C-CAA hg38:Y:5108058-C-CAA 16×A***
hg19:Y:8724619-CTT-C hg38:Y:8856578-CTT-C 12×T***
hg19:Y:6929132-CTTTTTT-C hg38:Y:7061091-CTTTTTT-C 26×T***
hg19:Y:5999638-A-G hg38:Y:6131597-A-G ***
hg19:Y:17006505-CT-C,CTT hg38:Y:14894625-CT-C,CTT 13×T***
hg19:Y:3541288-A-C hg38:Y:3673247-A-C ***
hg19:Y:6089764-G-GTT hg38:Y:6221723-G-GTT 31×T***
hg19:Y:4376168-AT-A hg38:Y:4508127-AT-A ***
hg19:Y:4654832-CAAA-C,CAA hg38:Y:4786791-CAAA-C,CAA 15×A***
hg19:Y:5365445-G-A hg38:Y:5497404-G-A ***
hg19:Y:13465437-A-G hg38:Y:11309761-A-G ***
hg19:Y:17141709-CAA-C,CAAA hg38:Y:15029829-CAA-C,CAAA 21×A***
hg19:Y:18693608-G-A hg38:Y:16581728-G-A ***
hg19:Y:22108554-T-C hg38:Y:19946668-T-C ***

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: 4696891496818593701668282853
Used in age calculations1496818593701668282853
Counts of SNPs1411
Variant counts last updated 2025-01-27 03:18:17.


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