Zamil

BigY3: 1005788

Tree Position

A0-T-YP2191 > P305[A1] > A1b > BT/A1b2 > M168/PF1416[CT] > P143[CF] > M89/PF2746[F] > F1329/M3658[GHI > F929[HIJK] > IJK > IJ > J > J2

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 STRBigY3
1005788
9640451-C-T A+
13446978-C-G 11291302-C-G A*
14422015-A-C 12301290-A-C YA*
6321442-C-T 6453401-C-T IR3_Dst A*
5483263-T-A 5615222-T-A A*
13470194-G-A 11314518-G-A A*
26411247-G-A 24265100-G-A P1_Y1 A*
6369268-T-A IR3_Dst A*
6449447-T-C IR3_Dst A*
6520727-G-A A*
11531934-C-G A*
14002374-G-A P8_Prx A*
16190081-T-C P6_Prx A*
18364289-G-GT 16252409-G-GT P6_Prx A*
17505938-C-A P5_Prx A*
17551050-C-T P5_Prx A*
17585815-A-G P5_Prx A*
17652748-A-G P5_Prx A*
17775557-T-G P5_Prx A*
17886723-T-C P5_Prx A*
17892079-G-T P5_Prx A*
18573571-G-A P4_Prx A*
22132866-C-T P3_t1 A*
23401231-T-G P1_gr1 A*
25547382-T-TC 23401235-T-TC P1_gr1 A*
23448437-G-A P1_gr1 A*
23716661-G-A P1_Y1 A*
23893557-C-A P1_Y1 A*
26051879-T-TC 23905732-T-TC P1_Y1 A*
24138672-C-T P1_Y1 A*
24229741-C-A P1_Y1 A*
25953413-C-T P1_Y2 A*
26670506-A-G A*
19690217-T-A 17578337-T-A CTS4466/S1136Z16249 FGC11153 P5_Prx +
16893305-A-G 14781425-A-G BY61519BY54871 YY+
10008737-C-G 10171128-C-G Y34497Z45593 Y+
19407495-C-A 17295615-C-A YY+
15434362-C-T 13322482-C-T YY+
8296841-G-A 8428800-G-A Y29672 YY+
21141319-C-T 18979433-C-T YY+
13858710-G-A 11738004-G-A +
14547659-G-A 12435860-G-A BY96428 YY+
21563978-C-G 19402092-C-G YY+
2878597-G-C +
3188838-T-C +
3240001-G-A +
3377636-G-C +
3704268-A-T +
4115843-T-C +
4265392-A-C +
4270603-A-C +
4499077-A-G +
4605130-C-G +
4660790-G-C +
5391334-C-A +
5845722-G-C +
5970897-A-G +
6078518-TTTGAAGATGGTATGATCATCTACA-T +
6225430-G-T +
6804990-C-T +
7063801-C-T +
7311419-AGAT-A +
7578393-A-G +
8199582-G-T +
8218625-A-G +
8570836-G-A +
8613550-C-T +
9652396-A-C +
10217253-C-G +
10788339-C-A +
10839305-A-G +
11020867-T-A +
11422816-G-C +
11444081-A-G +
11507326-G-A +
11544384-G-A +
11658453-G-A +
11819548-C-T +
11831237-G-A +
11896165-C-T +
12020802-C-T +
12079560-C-T +
12084398-A-G +
12094135-C-T +
12210139-G-A +
12348798-G-A +
12406883-G-T +
12615510-G-A +
12736635-G-T +
12742707-A-T +
12793710-A-G +
12873716-A-C +
12894419-G-C +
13232559-G-T +
13238201-G-A +
13330584-C-T +
13411515-G-A +
13577809-G-T +
14071344-G-A +
14121687-TG-T +
14234112-ATCC-A +
14648790-C-T +
14873645-C-T +
15017560-A-G +
15259803-G-A +
15316374-A-G +
15436516-T-G +
15557486-G-A +
15965131-G-A +
16603590-C-A +
16628045-C-G +
16892253-T-G +
17045502-T-G +
17106206-C-G +
17311648-G-A +
19154947-G-A +
19235337-C-A +
19324030-A-C +
19626645-G-T +
19640678-A-T +
19768465-T-C +
19870802-A-G +
20472265-C-T +
20725256-G-C +
20859659-G-A +
23208784-G-GT 21046898-G-GT 8×T+
21310259-G-T +
21345782-C-A +
21651436-T-C +
21834808-C-A +
21849250-G-A +
21857199-T-G +
22222552-C-A +
26391914-T-C +
26489523-C-G +
26597825-T-C +
26617273-T-G +
8562938-G-GCA 8694897-G-GCA 10×CA*
56845687-C-A *
6425604-C-A IR3_Dst 8×A*
7606218-G-T IR1_L *
9817410-G-A IR3_Prx *
18013928-C-A P5_Dst *
16071379-C-CA 13959499-C-CA 9×A**
20620905-C-CAA 18459019-C-CAA P4_Prx 14×A**
17387294-G-GTATA 15275414-G-GTATA 12×TA**
24631266-G-GTA 22485119-G-GTA P3_t2 **
24631263-G-T 22485116-G-T P3_t2 **
13453350-A-G 11297674-A-G **
10850552-GTCCATTCCATTCCATTCCATTCCATTCCATTCCATTCCATTCCAT-G **
24631264-C-A 22485117-C-A P3_t2 12×TG**
18013953-C-CAT 15902073-C-CAT P7_Dst **
12807338-CTTTTTTTTTTTTTTTTTTTTTT-C 43×T**
2783844-T-G **
2923165-G-A **
5176372-T-C **
11214186-T-C **
11359914-T-C **
11484575-C-T **
15658161-C-CAT 13546281-C-CAT **
13909700-A-G **
13910121-G-A **
14957663-A-G **
16547749-T-C **
19691791-CAAAAAAAAAAAAA-C 43×A**
20867269-T-C **
22132046-A-T P3_b1 **
22485109-A-G P3_t2 **
56828551-T-C ***
56828555-A-C ***
10940335-T-A ***
18204985-CAAAAA-C 16093105-CAAAAA-C 23×A***
16627698-GTA-G,GTATA 14515818-GTA-G,GTATA 12×TA***
7868225-C-CA 8000184-C-CA 9×A***
56848906-G-A ***
8333480-TTTCTTCTTC-T,TTTC 8465439-TTTCTTCTTC-T,TTTC 31×TTC***
7134894-C-CAAA 7266853-C-CAAA 13×A***
16074766-CTTTTTTTTTTTTTTTTTTTTTT-C,CT 13962886-CTTTTTTTTTTTTTTTTTTTTTT-C,CT 39×T***
5373745-TACACAC-T,TAC 16×AC***
6562398-TTATATA-T,TTATATATA 19×TA***
6940091-TACAAA-T,TAAAAA ***
7543596-GTATA-G,GTATATA 9×TA***
10954663-C-G ***
11183069-A-T ***
12584058-CAAAAAAAAAAA-C,CAAAAAAA 30×A***
14022689-CAT-C,CAC ***
17075566-CTTTTTT-C,CTT 34×T***
19795432-T-C ***
20077394-C-T DYZ19 ***
25664037-CA-C P1_Y2 21×AAAG***
26666750-CAGTGG-C 4×AGTGG***

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.