Santee

FTDNA: 143108

Tree Position

R-U106/S21 > Z2265 > Z381/S263 > Z301/S499 > L48 > Z9 > Z30/S271 > Z349 > Z2 > ~22277095-G-A > S9342 > PH3240 > Y20215 > PH765 > FGC51269 > PH3712 > FGC51267 > BY18921

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
143108
26113186-G-A 23967039-G-A ZS1909 P1_Y1 +
22440172-T-A 20278286-T-A DYZ19 +
18946244-C-T 16834364-C-T CTS9518 Z2831 YY+
15172967-C-T 13061053-C-T Y87670CTS3777 S6932 YY+
6282827-A-AG 6414786-A-AG IR3_Dst +
2901232-G-A 3033191-G-A BY57183 YY+
7884993-A-G 8016952-A-G BY68486 YY+
9876046-G-T 10038437-G-T BY81695 YY+
15573351-T-C 13461471-T-C BY102612 YY+
16529713-A-T 14417833-A-T BY108408 YY+
16544619-G-T 14432739-G-T FT216964 YY+
17224666-G-T 15112786-G-T BY113133 YY+
18060645-C-T 15948765-C-T BY119529 YY+
18788499-AG-A 16676619-AG-A +
18944409-A-AAAAC 16832529-A-AAAAC +
22269987-C-T 20108101-C-T BY47271 DYZ19 +
22440180-G-C 20278294-G-C BY10350 DYZ19 +
13856667-G-C 11735961-G-C **
13142425-T-C 10631911-T-C **
17515404-G-T 15403524-G-T BY18357 **
9935882-G-T 10098273-G-T FGC24542 **
9935908-G-C 10098299-G-C **
9746123-A-G 9908514-A-G **
9746124-T-G 9908515-T-G **
9746126-A-G 9908517-A-G **
13142430-C-A 10631916-C-A **
6255417-T-TG 6387376-T-TG FGCLR540 IR3_Dst **
18173194-C-A 16061314-C-A **
20995344-T-TG 18833458-T-TG P4_Dst **
13142416-ATTGTG-A 10631902-ATTGTG-A **
13142423-C-G 10631909-C-G BY83547 **
13856243-GAAACT-G 11735537-GAAACT-G **
16541138-C-G 14429258-C-G **
13862234-T-A 11741528-T-A ***
28787563-G-T 26641416-G-T ***
22256886-A-T 20095000-A-T DYZ19 ***
13823183-C-A,G 11702477-C-A,G 8×AATGG***
22235437-G-A 20073551-G-A FGC81582 DYZ19 ***
13805365-A-C 11684659-A-C ***
22295987-A-T 20134101-A-T DYZ19 ***
13143040-T-A 10632526-T-A ***
13851468-G-A 11730762-G-A ***
13868323-C-A 11747617-C-A ***
22358215-A-C 20196329-A-C DYZ19 ***
58977211-T-C 56831064-T-C ***
22270016-A-C 20108130-A-C DYZ19 ***
13142233-T-C 10631719-T-C ***
13142234-T-A 10631720-T-A ***
13801800-T-G 11681094-T-G ***
13801853-C-T 11681147-C-T ***
13866751-G-A 11746045-G-A ***
13458511-C-T 11302835-C-T ***
13850411-C-G 11729705-C-G ***
58976786-A-C 56830639-A-C ***
28786756-A-G 26640609-A-G ***
13647965-G-T 11492289-G-T ***
13858477-C-A 11737771-C-A ***
28800159-A-G 26654012-A-G ***
13447742-T-C 11292066-T-C ***
13480608-A-G,T 11324932-A-G,T ***
9997573-C-T 10159964-C-T ***
13866902-C-A 11746196-C-A ***
28787545-G-A 26641398-G-A ***
58975564-G-T 56829417-G-T ***
22258592-C-T 20096706-C-T BY20912 DYZ19 ***
22258599-A-G 20096713-A-G BY20911 DYZ19 ***
13868310-G-GGAATGGAATGGAATGGAATT 11747604-G-GGAATGGAATGGAATGGAATT ***
28784708-TGGAGG-T 26638561-TGGAGG-T ***
28784721-T-A 26638574-T-A ***
13194792-C-T 11039116-C-T ***
13826089-C-A 11705383-C-A ***
28785797-T-G 26639650-T-G ***
13676541-C-G 11520865-C-G ***
13815000-G-A 11694294-G-A BY51111 ***
13861277-G-A 11740571-G-A ***
13858075-T-G 11737369-T-G ***
9935951-C-CAT 10098342-C-CAT ***
9935954-A-T 10098345-A-T ***
58819395-T-G 56771476-A-C ***
58819409-A-T 56771462-T-A ***
58819423-T-A 56771448-A-T ***
58819424-A-G 56771447-T-C ***
20230740-A-G 18068854-A-G P5_Dst ***
20230742-T-C 18068856-T-C P5_Dst ***
20230760-C-A 18068874-C-A P5_Dst ***
22236369-G-A 20074483-G-A DYZ19 ***
16157825-A-T 14045945-A-T P8_Dst ***
13862189-T-C 11741483-T-C ***
13652091-T-A 11496415-T-A ***
9738704-A-T 9901095-A-T IR3_Prx ***
9738721-T-C 9901112-T-C FT20498 IR3_Prx ***
9738722-G-C 9901113-G-C FT20499 IR3_Prx ***
9746310-C-G 9908701-C-G ***
22223011-T-C 20061125-T-C DYZ19 ***
22223276-T-G 20061390-T-G DYZ19 ***
22223279-G-C 20061393-G-C DYZ19 ***
22228192-T-G 20066306-T-G DYZ19 ***
22232854-T-C 20070968-T-C DYZ19 ***
22232943-A-G 20071057-A-G FGC27613 DYZ19 ***
22232957-T-C 20071071-T-C BY22800 DYZ19 ***
22233479-G-C 20071593-G-C DYZ19 ***
22235425-T-C 20073539-T-C BY213624 DYZ19 ***
22236968-C-G 20075082-C-G DYZ19 ***
24034542-G-C 21888395-G-C ***
13827420-T-A 11706714-T-A ***
13838226-CAGATG-C,G 11717520-CAGATG-C,G ***
9738675-C-A 9901066-C-A IR3_Prx ***
9746293-G-A 9908684-G-A ***
9746383-G-A 9908774-G-A ***
9749638-A-G 9912029-A-G ***
9749647-G-C 9912038-G-C ***
22222999-G-A 20061113-G-A DYZ19 ***
23697408-C-T 21535522-C-T ZS1895 ***
24034788-T-A 21888641-T-A ***
24555364-G-A 22409217-G-A P3_t2 ***
27155015-AGT-A 25008868-AGT-A P1_g3 ***
27248890-T-C 25102743-T-C P1_g3 ***
27305664-A-G 25159517-A-G P1_g3 ***
27774409-G-A 25628262-G-A P1_Y2 ***
27774431-C-A 25628284-C-A P1_Y2 ***
27774528-C-G 25628381-C-G P1_Y2 ***
13839861-G-A 11719155-G-A ***
59004562-A-C 56858415-A-C ***
13142176-C-T 10631662-C-T ***
13142245-T-C 10631731-T-C ***
13142270-C-T 10631756-C-T ***
24278288-G-A 22132141-G-A P3_b1 ***
13663906-G-A 11508230-G-A ***
13676568-A-G 11520892-A-G ***
13865939-C-T 11745233-C-T ***
13865879-T-C,G 11745173-T-C,G ***
13141819-C-T 10631305-C-T ***
13141824-C-T 10631310-C-T ***
13137329-T-C 10626815-T-C ***
13850265-AGGAAT-A,T 11729559-AGGAAT-A,T 15×GGAAT***
13862138-A-G 11741432-A-G Y24195 ***
13863561-A-G 11742855-A-G ***
58976187-T-TTCCAC 56830040-T-TTCCAC ***
13143829-C-A 10633315-C-A ***
28802488-T-G 26656341-T-G ***
13820764-T-G 11700058-T-G ***
13652070-G-T 11496394-G-T ***
27357557-TA-T 25211410-TA-T P1_g3 14×A***
13142469-T-C 10631955-T-C ***
13142474-T-C 10631960-T-C ***
13142475-G-T 10631961-G-T ***
13142478-T-C 10631964-T-C ***
13652075-A-C 11496399-A-C ***
13839933-C-A 11719227-C-A FT391867 ***
13839935-T-G 11719229-T-G ***
28785822-C-G 26639675-C-G ***
13454306-A-C,T 11298630-A-C,T ***
9477982-A-G 9640373-A-G Z4557 ***
9477991-C-T 9640382-C-T ***
9477997-C-T 9640388-C-T ***
27233151-G-A 25087004-G-A P1_g3 ***
22235972-C-G 20074086-C-G DYZ19 ***
22234326-A-G 20072440-A-G DYZ19 ***
13838290-T-C 11717584-T-C ***
22367574-G-C 20205688-G-C DYZ19 ***
22235897-G-A 20074011-G-A DYZ19 ***
27426836-T-C 25280689-T-C P1_g3 ***
13142497-A-T 10631983-A-T ***
13838250-T-A 11717544-T-A ***
9746134-T-A 9908525-T-A ***
13850520-C-G 11729814-C-G ***
24030162-A-G 21884015-A-G ***
24550243-A-G 22404096-A-G P3_t2 ***
27171252-C-G 25025105-C-G P1_g3 ***
27190759-C-T 25044612-C-T P1_g3 ***
27271722-C-G 25125575-C-G P1_g3 ***
27214639-G-A 25068492-G-A P1_g3 ***
9745712-A-C 9908103-A-C Z12236 ***
27256040-C-CA 25109893-C-CA P1_g3 9×A***
13863643-C-G 11742937-C-G ***
22226046-G-A 20064160-G-A DYZ19 ***
9652818-C-T 9815209-C-T IR3_Prx ***
13141844-C-A 10631330-C-A ***
13141847-T-C 10631333-T-C ***
13142492-T-G 10631978-T-G ***
13143842-T-G 10633328-T-G ***
13453279-AGTTTG-C,G 11297603-AGTTTG-C,G ***
13456194-TC-C,CA 11300518-TC-C,CA ***
13676467-T-G 11520791-T-G BY88041 ***
13699476-A-G 11543800-A-G ***
13745304-AGAATGGAATGGAATG-A 11589628-AGAATGGAATGGAATG-A 7×GAATG***
13805370-T-C 11684664-T-C ***
13838289-A-C 11717583-A-C ***
13838291-G-C 11717585-G-C ***
13849187-A-AAATGG,G 11728481-A-AAATGG,G 10×AATGG***
13849664-T-A 11728958-T-A Y89803 ***
13853062-GGAGTC-G 11732356-GGAGTC-G ***
13858614-T-C,G 11737908-T-C,G ***
13862230-G-T 11741524-G-T ***
20959323-C-T 18797437-C-T P4_Dst ***
22221498-A-C 20059612-A-C DYZ19 ***
22247866-A-G 20085980-A-G DYZ19 ***
22284602-A-T 20122716-A-T DYZ19 ***
22285485-C-T 20123599-C-T DYZ19 ***
22304299-G-T 20142413-G-T DYZ19 ***
22358195-A-G 20196309-A-G DYZ19 ***
22367643-T-C 20205757-T-C DYZ19 ***
22424339-C-A 20262453-C-A DYZ19 ***
22451746-A-C 20289860-A-C DYZ19 ***
22451754-C-G 20289868-C-G DYZ19 ***
22451767-C-G 20289881-C-G DYZ19 ***
22451776-G-T 20289890-G-T DYZ19 ***
24290707-G-T 22144560-G-T P3_t1 ***
24557893-A-G 22411746-A-G P3_t2 ***
24588009-C-A 22441862-C-A P3_t2 ***
25029625-G-T 22883478-G-T g1 ***
25140455-A-G 22994308-A-G g1 ***
25170858-A-G 23024711-A-G g1 ***
27152919-T-C 25006772-T-C P1_g3 ***
27154825-A-T 25008678-A-T P1_g3 ***
27221795-GTC-G 25075648-GTC-G P1_g3 ***
27221798-A-C 25075651-A-C P1_g3 ***
27315873-G-C 25169726-G-C P1_g3 ***
27354033-G-T 25207886-G-T P1_g3 ***
27367006-T-C 25220859-T-C P1_g3 ***
27423978-T-TA 25277831-T-TA P1_g3 18×A***
27710499-A-T 25564352-A-T P1_Y2 ***
27964841-T-C 25818694-T-C P1_Y2 ***
28785826-C-G 26639679-C-G ***
58819450-TC-T 56771417-TG-T ***
58859008-T-A 56731863-A-T ***
58977176-T-C 56831029-T-C ***
58983713-T-C 56837566-T-C ***
13455699-T-C,G 11300023-T-C,G ***
13802867-A-AGAATG,G 11682161-A-AGAATG,G 7×GAATG***
13854378-GAATGTAATGGAATCA-G,GAATGGAATGGAATCA 11733672-GAATGTAATGGAATCA-G,GAATGGAATGGAATCA ***
19948181-C-CCTGTCTTT,T 17836301-C-CCTGTCTTT,T P5_Prx 21×CTTT***
58974123-G-C,T 56827976-G-C,T ***

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.