Tree Position

R-P312/S116 > Z290 > L21/S145 > DF13 > Z39589 > DF49/S474 > Z2980 > Z2976 > DF23 > Z2961 > Z2956 > M222 > Z46375 > DF106 > DF104 > DF105 > 9120959-C-T > A259 > Y19870

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 STRBigY2
B278958
BigY3
B278958
56827623-C-G A*
20924657-A-T 18762771-A-T P4_Dst A*
4385731-G-A 4517690-G-A A*
20924650-T-TG 18762764-T-TG P4_Dst A*
19597973-C-CAA 17486093-C-CAA P5_Prx 17×AA*
26489880-C-A 24343733-C-A P1_Y1 A*
14218745-G-A 12098039-G-A Y+
27714242-T-C 25568095-T-C P1_Y2 +
3825969-C-T 3957928-C-T +
18708266-C-T 16596386-C-T BY187891 YY++
8377909-TACAC-T 8509868-TACAC-T 16×AC**
9300168-ACACCCC-A 9462559-ACACCCC-A **
9025537-G-A 9187928-G-A **
10921869-A-C **
9764349-A-G 9926740-A-G **
9930120-G-T 10092511-G-T **
10655141-C-T **
10660691-A-G **
10745505-C-A **
10826999-C-A **
10884949-C-T **
13280204-A-G 11124528-A-G **
10965531-C-A **
10994784-C-A **
10996697-C-A **
13227885-C-A 11072209-C-A **
8074041-G-T 8206000-G-T **
13523705-A-G 11368029-A-G **
13593789-C-A 11438113-C-A **
11675824-A-T **
14108959-C-T 11988253-C-T **
14393036-C-T 12272332-C-T **
8556269-A-G 8688228-A-G **
7242067-G-A 7374026-G-A **
7670340-C-A 7802299-C-A **
5755920-G-A 5887879-G-A **
5011293-T-C 5143252-T-C **
2907178-C-A 3039137-C-A **
13235012-T-C 11079336-T-C **
23176796-G-A 21014910-G-A **
23176799-A-AC 21014913-A-AC 11×GAAG**
3016285-A-G 3148244-A-G **
3436392-G-T 3568351-G-T **
4138896-G-T 4270855-G-T **
4326002-T-C 4457961-T-C **
4603324-G-T 4735283-G-T **
6130193-C-A 6262152-C-A **
7626141-C-A 7758100-C-A **
6249852-A-T 6381811-A-T IR3_Dst **
6455422-C-A 6587381-C-A **
6791851-C-A 6923810-C-A **
7020705-C-A 7152664-C-A **
7093104-C-A 7225063-C-A **
7150832-A-G 7282791-A-G **
15420060-C-A 13308180-C-A **
7434094-G-T 7566053-G-T **
7536381-A-G 7668340-A-G **
7608443-CT-C 7740402-CT-C **
15070372-G-A 12958463-G-A **
17361041-A-C 15249161-A-C **
15469325-C-A 13357445-C-A **
28499983-T-C 26353836-T-C **
24421850-C-A 22275703-C-A **
24424273-G-T 22278126-G-T **
25095038-GC-G 22948891-GC-G g1 **
25601541-G-T 23455394-G-T P1_gr1 **
25601567-G-T 23455420-G-T P1_gr1 **
25885787-C-A 23739640-C-A P1_Y1 **
26154637-G-T 24008490-G-T P1_Y1 **
26204432-T-A 24058285-T-A P1_Y1 **
26730244-A-G 24584097-A-G P1_g2 **
27575986-G-A 25429839-G-A P1_Y2 **
28711956-G-A 26565809-G-A **
23623353-C-T 21461467-C-T **
28721439-G-T 26575292-G-T **
56884186-A-G **
13455808-C-G 11300132-C-G **
13455909-C-T 11300233-C-T **
13455832-T-G 11300156-T-G **
18348468-C-A 16236588-C-A P6_Prx **
18490254-T-TC 16378374-T-TC P6_Dst **
21861568-G-A 19699682-G-A **
22318796-G-C 20156910-G-C DYZ19 **
26250777-C-A 24104630-C-A P1_Y1 **
24314213-A-G 22168066-A-G P3_t1 **
23623343-A-G 21461457-A-G **
15608277-T-C 13496397-T-C **
19403944-A-G 17292064-A-G **
16271889-C-A 14160009-C-A **
17144062-C-A 15032182-C-A **
17225819-C-A 15113939-C-A **
19710056-T-G 17598176-T-G P5_Prx **
17465835-C-A 15353955-C-A **
17990253-A-T 15878373-A-T P7_Prx **
18271035-TG-T 16159155-TG-T **
18382205-AC-A 16270325-AC-A P6_Gap **
18984980-GTC-G 16873100-GTC-G **
19112508-T-A 17000628-T-A **
19613722-CT-C 17501842-CT-C P5_Prx **
23475773-C-A 21313887-C-A **
19613735-T-G 17501855-T-G P5_Prx **
19613740-T-G 17501860-T-G P5_Prx **
19613744-T-G 17501864-T-G P5_Prx **
19613747-T-G 17501867-T-G BY1563 P5_Prx **
19613769-A-C 17501889-A-C P5_Prx **
21110005-G-T 18948119-G-T **
21306409-C-A 19144523-C-A **
22526311-C-A 20364425-C-A **
22550009-C-A 20388123-C-A **
23468601-C-A 21306715-C-A **
10059462-C-A 10221853-C-A **
3844404-G-T 3976363-G-T **
10652962-T-C **
6576763-C-A 6708722-C-A **
10866563-A-T **
21152531-C-A 18990645-C-A FT69149 **
21187280-C-A 19025394-C-A **
10866558-C-A **
10866548-A-G **
10808602-A-T **
10037722-C-A 10200113-C-A **
10693557-T-C **
9852731-C-A 10015122-C-A **
21054379-C-CAA 18892493-C-CAA 18×A**
14366505-C-A 12245800-C-A **
16246067-G-T 14134187-G-T **
9977496-A-C 10139887-A-C **
10748009-T-G **
10945393-T-C **
10945388-T-A **
15431637-C-A 13319757-C-A **
10652936-A-G **
17144010-G-T 15032130-G-T **
15070365-G-T 12958456-G-T **
22318794-C-A 20156908-C-A BY217387 DYZ19 **
10655095-A-T **
10652971-A-G **
56836513-CT-C **
22188919-C-A 20027033-C-A **
10652967-G-T **
15495439-C-A 13383559-C-A **
15971670-C-A 13859790-C-A **
14180744-C-A 12060038-C-A A19314 YFC102161 **
21265335-C-A 19103449-C-A **
22218871-C-A 20056985-C-A DYZ19 **
17144098-C-T 15032218-C-T **
10652957-T-C **
10875746-C-T **
20641605-GA-G 18479719-GA-G P4_Prx **
21203866-T-G 19041980-T-G **
17367899-C-A 15256019-C-A **
22520745-C-A 20358859-C-A **
15699857-C-A 13587977-C-A **
10757346-CCTCCA-C **
15753276-C-A 13641396-C-A **
10655075-A-ATTAAT **
10756896-T-A **
10863761-GCATTC-G **
6831899-C-A 6963858-C-A **
10766404-C-T **
21434984-C-A 19273098-C-A **
17374771-C-A 15262891-C-A A7097 **
17374376-G-T 15262496-G-T **
15070371-T-C 12958462-T-C **
5426416-G-T 5558375-G-T **
28462379-G-T 26316232-G-T **
20778849-T-A 18616963-T-A P4_Prx **
56844343-G-T **
7938185-C-A 8070144-C-A **
6249885-T-G 6381844-T-G IR3_Dst **
9300188-T-TA 9462579-T-TA 10×A**
21318477-C-A 19156591-C-A 19×A**
56884182-C-T **
7373236-C-CTT 7505195-C-CTT 29×T**
15070379-G-A 12958470-G-A **
56884202-A-G **
9665553-CCACA-C 9827944-CCACA-C IR3_Prx **
10951105-C-A **
19586697-T-TG 17474817-T-TG P5_Prx **
18177114-C-A 16065234-C-A **
56840969-C-A **
56826582-C-A **
8403272-CAAAAAA-C 8535231-CAAAAAA-C 28×A**
10828692-A-G **
10828718-T-C **
10828742-A-G **
15406792-C-A 13294912-C-A **
18367671-G-T 16255791-G-T P6_Prx **
13455916-T-C 11300240-T-C BY85448 **
22342130-C-A 20180244-C-A DYZ19 **
27507494-A-G 25361347-A-G P1_Y2 **
10855897-G-T **
21123539-TAA-T 18961653-TAA-T 13×A***
18763554-GTGTA-G 16651674-GTGTA-G 6×TGTA***
3603491-ATTT-A,ATT 3735450-ATTT-A,ATT 24×T***
3889019-CTT-C 4020978-CTT-C 15×T***
4377969-CT-C,CTT 4509928-CT-C,CTT 19×T***
18222356-GA-G 16110476-GA-G 10×A***
13488124-C-T 11332448-C-T ***
9446003-CCA-C 9608394-CCA-C 8×CA***
23742171-C-A 21580285-C-A ***
16526728-C-CATAA 14414848-C-CATAA 12×ATAA***
13455796-T-C 11300120-T-C ***
13455780-A-C 11300104-A-C ***
13455800-A-G 11300124-A-G ***
10973989-C-G ***
8501689-CTCTTCT-C,CTCT 8633648-CTCTTCT-C,CTCT 18×TCT***
56830068-C-CATCCT ***
3793658-G-GA 3925617-G-GA 10×A***
21457495-G-T 19295609-G-T ***
9416731-G-GTT 9579122-G-GTT 23×T***
7196063-C-T 7328022-C-T ***
10954039-T-C ***
4108085-C-A 4240044-C-A ***
9007088-G-T 9169479-G-T ***
7854693-A-G 7986652-A-G ***
12370552-C-A ***
18222509-C-A 16110629-C-A ***
7058064-CT-C 7190023-CT-C ***
10999854-C-CA ***
6886904-C-A 7018863-C-A ***
17409600-C-A 15297720-C-A ***
4016650-G-A 4148609-G-A ***
13455779-G-A 11300103-G-A ***
15416830-G-GAA 13304950-G-GAA 12×A***
8821841-C-A 8953800-C-A ***
19048369-A-G 16936489-A-G ***
13868775-T-A 11748069-T-A ***
10789345-CA-C ***
23446249-G-A 21284363-G-A ***
10999859-GA-G ***
22992628-AT-A 20830742-AT-A ***
22580294-G-C 20418408-G-C ***
17622743-CT-C 15510863-CT-C ***
20833026-T-C 18671140-T-C P4_Gap ***
17648009-CAAA-C,CA 15536129-CAAA-C,CA 17×A***
13804330-C-A 11683624-C-A ***
10972196-C-A ***
56734835-G-C ***
13458077-A-T 11302401-A-T ***
15848840-T-C 13736960-T-C ***
15700528-A-G 13588648-A-G ***
14951462-C-A 12839536-C-A ***
14025871-G-A 11905165-G-A ***
11018929-C-A ***
11026032-C-A ***
13452364-T-G 11296688-T-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.

Age Analysis Information (work in progress)

AllMcDonaldYFull
Kit: B278958911906274722317395381
Kit: B2789581416167889574428029353
Used in age calculations1416167889574428029353
Counts of SNPs129
Variant counts last updated 2019-08-26 22:55:33.



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