Jennings

FTDNA: N117481, BigY3: N117481

Tree Position

R-U106/S21 > Z2265 > Z381/S263 > Z301/S499 > L48 > Z9 > Z347 > Z328 > A5019 > A8352

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
N117481		BigY3
N117481
13472271-C-T 11316595-C-T A*
4438926-C-G 4570885-C-G A*
6151532-A-C 6283491-A-C IR3_Dst ***A*
6317622-T-C 6449581-T-C IR3_Dst ***A*
23718240-G-A 21556354-G-A ***A*
26272747-G-T 24126600-G-T P1_Y1 ***A*
5456103-G-GT 5588062-G-GT 10×TA*
6768886-T-G 6900845-T-G YYA*
19597552-G-A 17485672-G-A P5_Prx YA*
25523570-A-G 23377423-A-G P1_gr1 A*
25926488-G-A 23780341-G-A P1_Y1 A*
5019138-C-T 5151097-C-T FT225917 +
6657647-C-T 6789606-C-T A8350 YY++
2834667-T-A 2966626-T-A A8349 YY++
6996929-G-T 7128888-G-T A8351 YY++
15107280-C-T 12995367-C-T A8353 YY++
15573038-A-C 13461158-A-C A8354 YY++
15901034-G-T 13789154-G-T A8355 YY++
15910982-T-A 13799102-T-A A8356 YY++
15971013-T-C 13859133-T-C A8357 YY++
16212679-A-T 14100799-A-T A8358 YY++
16699395-G-T 14587515-G-T A8359 YY++
16969491-T-A 14857611-T-A A8360 YY++
18558353-A-T 16446473-A-T A8361 YY++
18708533-G-T 16596653-G-T A8362 YY++
19320730-T-C 17208850-T-C A8364 YY++
19418610-G-A 17306730-G-A A8365 YY++
20132057-C-T 18020177-C-T A8366 P5_Dst ++
21318649-G-A 19156763-G-A A8367 YY++
21951741-A-T 19789855-A-T A8368 YY++
22463503-G-A 20301617-G-A BY3835 DYZ19 +**
23370305-G-A 21208419-G-A A8369 YY++
24365159-GAGAT-G 22219012-GAGAT-G ++
26418785-C-G 24272638-C-G P1_Y1 ***+
10684285-A-T FT232683 +
13868600-C-T 11747894-C-T BY91717 +
3002747-C-CA 3134706-C-CA +
3338464-A-T 3470423-A-T +
5264658-A-G 5396617-A-G +
5870032-T-C 6001991-T-C +
6000353-G-A 6132312-G-A +
8713068-C-T 8845027-C-T YY+
13967215-T-C 11846509-T-C Y+
14797582-A-T 12685653-A-T Y+
22878098-G-A 20716212-G-A Y+
23361910-T-A 21200024-T-A Y+
8369376-T-TTTA 8501335-T-TTTA 8×TTA*
8620883-T-TTG 8752842-T-TTG br2 14×TG*
3719998-G-A 3851957-G-A S8749 ****
4459935-T-A 4591894-T-A *
4459991-TTATA-T 4591950-TTATA-T 9×TA*
7432312-C-A 7564271-C-A CTS1480 **
22356377-T-A 20194491-T-A BY217621 DYZ19 ****
24336419-T-C 22190272-T-C P3_t1 **
18438210-CAAA-C 16326330-CAAA-C P6_Dst 25×A**
14080094-G-A 11959388-G-A **
13453416-T-C 11297740-T-C **
10969465-TTCCAC-T **
19892837-C-A 17780957-C-A P5_Prx **
25883681-A-T 23737534-A-T P1_Y1 **
19647616-G-T 17535736-G-T P5_Prx **
22269421-T-A 20107535-T-A DYZ19 **
6132072-G-A 6264031-G-A **
6341267-A-C 6473226-A-C **
13453418-T-G 11297742-T-G **
13588476-C-A 11432800-C-A **
14203969-C-T 12083263-C-T **
14961874-C-A 12849949-C-A **
19658552-C-A 17546672-C-A P5_Prx **
19809554-T-A 17697674-T-A P5_Prx **
22269430-T-A 20107544-T-A DYZ19 **
18948-G-T **
3641142-CTT-C 3773101-CTT-C ***
24174045-C-T 22027898-C-T P3_b1 ***
22252087-A-G 20090201-A-G FGC41208 DYZ19 ***
22276991-T-A 20115105-T-A DYZ19 ***
22486754-G-T 20324868-G-T BY53309 DYZ19 ***
24950275-T-A 22804128-T-A g1 ***
25813756-T-C 23667609-T-C P1_b3 ***
26165088-C-A 24018941-C-A P1_Y1 ***
56828884-C-CGTTCAAATCT ***
23825774-AT-A,AA 21663888-AT-A,AA ***
15497972-AT-A,ATT 13386092-AT-A,ATT 26×T***
4826400-TTATATATA-T 4958359-TTATATATA-T 22×TA***
13608647-CAAA-C,CAA 11452971-CAAA-C,CAA 27×A***
4411847-A-G 4543806-A-G ***

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.