Tree Position

R-P312/S116 > Z40481 > ZZ11 > U152/S28 > L2/S139 > Z41150 > Z49 > Z142/S211 > FGC22963 > FGC22940 > 14454753-C-CT > 7814735-T-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
40368
17547056-C-T 15435176-C-T S9793FGC1986 YFS030376 YY+
19542423-T-C 17430543-T-C Y75557 YY+
16584024-G-T 14472144-G-T Y70163 YY+
17435983-C-T 15324103-C-T Y27333 YY+
17645814-G-A 15533934-G-A Y72066 YY+
18035395-T-C 15923515-T-C Y24532 YY+
18197453-C-T 16085573-C-T F22560 YY+
18393729-C-T 16281849-C-T Y73469 P6_Gap +
19061177-C-T 16949297-C-T Y74541 YY+
21052057-C-T 18890171-C-T Y75731 YY+
15904780-A-G 13792900-A-G Y69088 YY+
21076691-G-A 18914805-G-A BY1710 Z30581 YY+
21310886-C-T 19149000-C-T Y76205 YY+
21572740-T-C 19410854-T-C Y76773 YY+
21920839-C-A 19758953-C-A Y77402 YY+
22457703-A-C 20295817-A-C BY39677 DYZ19 +
22805470-C-T 20643584-C-T 7814735-T-CY24602 YY+
23632893-G-T 21471007-G-T Y80216 YY+
23632894-G-C 21471008-G-C Y80217 YY+
15930803-TTTC-T 13818923-TTTC-T 5×TTC+
19106883-T-A 16995003-T-A Y74649 YY+
15882596-T-A 13770716-T-A Y69063 YY+
8636428-C-A 8768387-C-A Y64236 YY+
15316786-T-C 13204892-T-C Y68038 YY+
6671492-A-G 6803451-A-G Y60789 YY+
7172786-C-T 7304745-C-T ZS8354 YY+
7554333-A-G 7686292-A-G BY32141 Y62146 YY+
7838534-C-A 7970493-C-A Y62666 YY+
8080740-G-A 8212699-G-A 7814735-T-CY63081 YY+
8248023-G-A 8379982-G-A Y63381 YY+
28507198-C-T 26361051-C-T 7814735-T-CY24859 Y+
8772659-G-C 8904618-G-C Y64469 YY+
9110331-C-T 9272722-C-T Y64841 Y+
9156901-T-TC 9319292-T-TC +
15040581-G-C 12928671-G-C Y67637 YY+
18427654-C-T 16315774-C-T Y73571 P6_Gap **
24070436-T-A 21924289-T-A P3_b1 **
9724011-G-A 9886402-G-A BY80527 IR3_Prx **
25142421-C-T 22996274-C-T g1 ***
24167692-T-C 22021545-T-C P3_b1 ***
25013310-G-A 22867163-G-A g1 ***
25073877-G-A 22927730-G-A g1 ***
25812494-T-C 23666347-T-C P1_b3 ***
25154288-TA-T 23008141-TA-T g1 ***
25201841-G-A 23055694-G-A g1 ***
22218293-C-T 20056407-C-T DYZ19 ***
25849748-C-T 23703601-C-T P1_Y1 ***
25943730-G-A 23797583-G-A P1_Y1 ***
26063122-T-A 23916975-T-A P1_Y1 ***
26250901-G-A 24104754-G-A P1_Y1 ***
26272700-C-T 24126553-C-T P1_Y1 ***
23714112-A-T 21552226-A-T ***
6334990-C-T 6466949-C-T IR3_Dst ***
22225043-C-T 20063157-C-T DYZ19 ***
22440118-C-A,T 20278232-C-A,T DYZ19 ***
22446387-T-A 20284501-T-A BY39676 DYZ19 ***
22437734-T-G 20275848-T-G DYZ19 ***
22435425-G-T 20273539-G-T DYZ19 ***
22333545-G-C 20171659-G-C DYZ19 ***
22277907-C-G 20116021-C-G DYZ19 ***
22259082-A-G 20097196-A-G DYZ19 ***
22259076-T-G 20097190-T-G DYZ19 ***
22243112-T-A 20081226-T-A DYZ19 ***
13743201-A-C 11587525-A-C ***
13301258-G-A 11145582-G-A ***
17989717-A-G 15877837-A-G P7_Prx ***
22220202-A-G 20058316-A-G DYZ19 ***
18299230-G-A 16187350-G-A P6_Prx ***
22302290-T-C 20140404-T-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)

AllMcDonaldYFull
Kit: 403681097313780042518103536
Used in age calculations1097313780042518103536
Counts of SNPs2931
Variant counts last updated 2018-05-28 19:57:26.



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