Tree Position

R-P312/S116 > Z290 > L21/S145 > DF13 > FGC5494 > FGC5561 > FGC7448 > FGC5496 > FGC5521 > FGC5549 > FGC5511 > FGC5517

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 STRFGC
0FW1R
16988034-A-T 14876154-A-T FGC5493 Z10785 YY+
5856921-C-A 5988880-C-A FGC5505 +
18565974-C-T 16454094-C-T FGC5538 YY+
18139162-G-A 16027282-G-A FGC5535 Y+
3348125-C-T 3480084-C-T FGC5497 +
3611426-A-C 3743385-A-C FGC5498 +
3887430-T-G 4019389-T-G FGC5499 +
17770283-G-A 15658403-G-A FGC5532 YY+
17428580-C-G 15316700-C-G FGC5531 Y+
5467076-A-G 5599035-A-G FGC5503 +
5626920-T-C 5758879-T-C FGC5504 +
17342711-C-G 15230831-C-G FGC5530 YY+
16855636-C-T 14743756-C-T FGC5528 YY+
3431741-G-A 3563700-G-A Z3872 +
6676738-G-A 6808697-G-A FGC5507 YY+
7811639-T-C 7943598-T-C Y21408FGC5510 YY+
15713570-T-C 13601690-T-C FGC5525 YY+
15704259-A-G 13592379-A-G FGC5524 YY+
14998294-C-T 12886379-C-T FGC5523 YY+
14679506-C-G 12567572-C-G FGC5520 Y+
9929665-C-G 10092056-C-G FGC5513 Y+
14354995-C-T 12234290-C-T FGC5519 Y+
14190608-C-T 12069902-C-T FGC5518 YY+
14010554-A-G 11889848-A-G FGC5516 YY+
13816075-G-A 11695369-G-A FGC5515 +
21313657-G-C 19151771-G-C FGC5541 YY+
18269066-G-A 16157186-G-A FGC5537 +
21795884-C-A 19633998-C-A FGC5542 Y+
22888810-C-T 20726924-C-T FGC5554 YY+
28777349-G-A 26631202-G-A FGC5560 +
23358499-C-T 21196613-C-T FGC5555 Y+
22536919-C-G 20375033-C-G FGC5550 Y+
22888282-T-C 20726396-T-C FGC5553 YY+
6821373-G-C 6953332-G-C FGC5509 Y*
4591304-A-G 4723263-A-G FGC5501 *
6537999-T-C 6669958-T-C FGC5506 *
4769938-G-A 4901897-G-A FGC5502 *
6745642-T-C 6877601-T-C FGC5508 YY*
13112758-C-G 10602244-C-G FGC7997 *
16844447-C-G 14732567-C-G FGC5527 YY*
22448932-C-G 20287046-C-G FGC5547 DYZ19 *
3888924-C-T 4020883-C-T FGC5500 *
7306721-A-G 7438680-A-G FGC5496FGC5496 YY*
24388197-C-CTA 22242050-C-CTA FGC5562 **
21066622-AAAGAT-A 18904736-AAAGAT-A **
28802831-A-G 26656684-A-G **
9825004-T-C 9987395-T-C **
9930570-A-G 10092961-A-G **
14398810-C-T 12278106-C-T **
13416387-T-A 11260711-T-A **
14258540-A-G 12137834-A-G **
58850718-ACCTTGCATTACACTC-A 56740133-GAAGGGAGTGTAATGC-G **
13837465-T-C 11716759-T-C **
13561611-G-A 11405935-G-A FGC8680 **
24940894-C-T 22794747-C-T g1 **
10011498-G-C 10173889-G-C **
4440147-C-T 4572106-C-T **
58985458-A-T 56839311-A-T **
13475663-G-A 11319987-G-A **
5204456-C-T 5336415-C-T Y22970 **
10011545-T-G 10173936-T-G **
21551885-ATATG-A 19389999-ATATG-A 4×TATG**
13809522-A-AGGAATGGAAT 11688816-A-AGGAATGGAAT 10×GGAAT**
13519284-A-G 11363608-A-G **
21427969-C-A 19266083-C-A **
9930543-T-C 10092934-T-C FGC24635 **
4440146-C-A 4572105-C-A **
13287974-T-C 11132298-T-C **
58916605-A-T 56674266-T-A ***
14456501-CA-C 12335774-CA-C 15×A***
8914956-NN-GAG ***
26344051-G-T 24197904-G-T P1_Y1 ***
5689704-C-CATT 5821663-C-CATT 14×ATT***
22256959-TTT-CTC 20095073-TTT-CTC DYZ19 ***
4457185-T-TA 4589144-T-TA 16×A***
26499952-A-G 24353805-A-G P1_Y1 20×T***
23207189-G-GT 21045303-G-GT 14×T***
27861039-G-T 25714892-G-T P1_Y2 ***
58843776-G-T 56747095-C-A ***
14339106-CT-C 12218401-CT-C 19×T***
3477851-GGT-G 3609810-GGT-G 17×GT***
17187634-C-CA 15075754-C-CA 15×A***
28802797-A-T 26656650-A-T ***
18106353-GT-G 15994473-GT-G 15×T***
15320627-GAGA-G 13208733-GAGA-G 6×AGA***
9952688-TC-AT 10115079-TC-AT ***
58914261-G-T 56676610-C-A ***
58908721-T-A 56682150-A-T ***
28802798-T-G 26656651-T-G ***
58876251-T-A 56714620-A-T ***
58872962-A-G 56717909-T-C ***
58840576-C-A 56750295-G-T ***
5458125-C-CA 5590084-C-CA 16×A***
9931606-TGT-GGA 10093997-TGT-GGA ***
4440146-CC-AT 4572105-CC-AT ***
22355149-TTCA-GTCT 20193263-TTCA-GTCT DYZ19 ***
15260684-C-CTTTT 13148768-C-CTTTT 25×T***
16227908-A-AGGAT 14116028-A-AGGAT ***
18050048-AATATATATATATATAT-A 15938168-AATATATATATATATAT-A 19×AT***
20368321-C-CA 18206435-C-CA P5_Dst ***
20436543-TAAAG-AAAAA 18274657-TAAAG-AAAAA P5_Dst ***
20801643-CCTT-TTTC 18639757-CCTT-TTTC P4_Prx ***
21929625-T-TATTA 19767739-T-TATTA ***
22232063-AAGTGCTGT-CATTTCTGA 20070177-AAGTGCTGT-CATTTCTGA DYZ19 ***
22234920-CAAA-AAAT 20073034-CAAA-AAAT DYZ19 ***
22234962-ACC-GTA 20073076-ACC-GTA DYZ19 ***
22282156-TCTTC-CCTTT 20120270-TCTTC-CCTTT DYZ19 ***
22337828-AA-GC 20175942-AA-GC DYZ19 ***
22360164-C-CCCCG 20198278-C-CCCCG DYZ19 ***
13842612-AA-GG 11721906-AA-GG ***
22366589-CCT-TCG 20204703-CCT-TCG DYZ19 ***
22480588-GAATTC-G 20318702-GAATTC-G DYZ19 ***
22495774-CCAAG-TCACT 20333888-CCAAG-TCACT DYZ19 ***
24420879-A-AAAAAAAAAATT 22274732-A-AAAAAAAAAATT 43×T***
27151329-G-TTTTTT 25005182-G-TTTTTT P1_g3 ***
27971726-CA-C 25825579-CA-C P1_Y2 27×A***
28492932-A-AT 26346785-A-AT 22×T***
28721499-CA-C 26575352-CA-C 18×A***
28802753-TGCATAGAATG-CGAATTTAATT 26656606-TGCATAGAATG-CGAATTTAATT ***
28802841-TTGG-CTGGAGCGA 26656694-TTGG-CTGGAGCGA ***
58914422-C-CCATTG 56676444-G-GAATGC ***
59007432-CTTTTT-C 56861285-CTTTTT-C 18×T***
13898754-G-GTTTTT 11778048-G-GTTTTT 26×T***
13683026-CAA-TGG 11527350-CAA-TGG ***
4445925-A-ACCAGG 4577884-A-ACCAGG ***
10004792-CACAG-GACAT 10167183-CACAG-GACAT ***
5209997-CAA-C 5341956-CAA-C 16×A***
6204517-ATAC-TTAA 6336476-ATAC-TTAA IR3_Dst ***
7327990-G-GGTT 7459949-G-GGTT ***
8481057-TA-T 8613016-TA-T ***
8901991-C-CTTT 9033950-C-CTTT 19×T***
9320569-ACACACACACACA-T 9482960-ACACACACACACA-T ***
9431958-ACAGGTACTAT-A 9594349-ACAGGTACTAT-A ***
9431973-TCTGAAG-CC 9594364-TCTGAAG-CC ***
9431983-TTCCAATCAGTAGAAAAA-ACTCATTTTAT 9594374-TTCCAATCAGTAGAAAAA-ACTCATTTTAT ***
9432005-GAATCCT-CCAGCATCATAA 9594396-GAATCCT-CCAGCATCATAA ***
9432993-CCC-TCT 9595384-CCC-TCT ***
9952729-ATA-TTT 10115120-ATA-TTT ***
10022316-C-CTAAATAAA 10184707-C-CTAAATAAA 5×TAAA***
13561686-AAAGG-GAAGA 11406010-AAAGG-GAAGA ***
10022318-A-AAATAAATG 10184709-A-AAATAAATG ***
10052550-GG-CA 10214941-GG-CA ***
13129710-TACAT-CACAC 10619196-TACAT-CACAC ***
13262792-CGCC-TGCT 11107116-CGCC-TGCT ***
13416387-TGCAT-AACAA 11260711-TGCAT-AACAA ***
13445374-AA-G 11289698-AA-G ***
13483472-AG-GC 11327796-AG-GC ***
13483502-C-CG 11327826-C-CG ***
13483608-GGTGTTCAG-CGTGATCAC 11327932-GGTGTTCAG-CGTGATCAC ***
13488450-GCAG-TCAC 11332774-GCAG-TCAC ***
13488477-CGCGCAGTCAGG-TGCATAGGCAGA 11332801-CGCGCAGTCAGG-TGCATAGGCAGA ***
13494555-A-AT 11338879-A-AT 13×T***
25534425-G-T 23388278-G-T P1_gr1 ***
20489565-T-A 18327679-T-A P5_Dst ***
24417010-G-A 22270863-G-A ***
28804496-T-G 26658349-T-G ***
9993472-A-G 10155863-A-G ***
13481975-G-T 11326299-G-T ***
9930280-T-G 10092671-T-G ***
16009042-C-T 13897162-C-T ***
9931650-C-T 10094041-C-T ***
10033562-G-T 10195953-G-T ***
13515762-C-T 11360086-C-T ***
13483759-T-A 11328083-T-A ***
10052566-C-T 10214957-C-T ***
13481964-G-A 11326288-G-A ***
3070599-G-T 3202558-G-T ***
3315513-G-A 3447472-G-A ***
4151867-A-T 4283826-A-T ***
5308839-A-G 5440798-A-G ***
5814476-T-C 5946435-T-C ***
6019309-A-C 6151268-A-C ***
6498811-T-G 6630770-T-G ***
6765638-C-T 6897597-C-T ***
8006165-C-G 8138124-C-G ***
13481965-A-C 11326289-A-C ***
16215451-A-T 14103571-A-T ***
9433012-A-G 9595403-A-G ***
13482969-TA-CC 11327293-TA-CC ***
14258574-C-A 12137868-C-A ***
14258626-G-A 12137920-G-A ***
22366658-G-T 20204772-G-T DYZ19 ***
58885381-C-T 56705490-G-A ***
13515340-G-T 11359664-G-T ***
22248457-G-C 20086571-G-C DYZ19 ***
58840515-G-C 56750356-C-G ***
2745870-G-A 2877829-G-A ***
22488459-T-C 20326573-T-C DYZ19 ***
21154937-G-A 18993051-G-A ***
13430612-G-A 11274936-G-A ***
58847479-GCATTCCATTC-G 56743371-CGAATGGAATG-C 4×CATTC***
13254767-A-G 11099091-A-G ***
8914959-N-C 9046918-N-C ***
58987404-T-A 56841257-T-A ***
8914960-N-T 9046919-N-T ***
9432986-G-A 9595377-G-A ***
21990813-C-A 19828927-C-A ***
13425480-G-C 11269804-G-C ***
6498648-A-G 6630607-A-G ***
9433007-C-T 9595398-C-T ***
9433030-G-A 9595421-G-A ***
23825773-A-T 21663887-A-T 11×AT***
22300996-A-C 20139110-A-C DYZ19 ***
20436517-G-T 18274631-G-T P5_Dst ***
13129714-T-C 10619200-T-C ***
20574379-T-C 18412493-T-C P5_Dst ***
20574391-A-G 18412505-A-G P5_Dst ***
20574409-C-T 18412523-C-T P5_Dst ***
20574448-C-T 18412562-C-T P5_Dst ***
20801667-T-C 18639781-T-C P4_Prx ***
21225456-A-T 19063570-A-T ***
22236606-C-T 20074720-C-T DYZ19 ***
22337810-C-T 20175924-C-T DYZ19 ***
16625076-C-T 14513196-C-T ***
22337837-G-T 20175951-G-T DYZ19 ***
22360157-T-A 20198271-T-A DYZ19 ***
22366643-T-G 20204757-T-G DYZ19 ***
22421948-T-C 20260062-T-C DYZ19 ***
22481742-T-A 20319856-T-A DYZ19 ***
22503859-T-A 20341973-T-A DYZ19 ***
22504416-C-A 20342530-C-A DYZ19 ***
22756919-G-A 20595033-G-A ***
22756936-C-A 20595050-C-A ***
20242479-T-G 18080593-T-G P5_Dst 12×G***
16215438-T-C 14103558-T-C ***
9433054-A-T 9595445-A-T ***
13463886-C-T 11308210-C-T ***
9433061-T-C 9595452-T-C ***
9433171-A-G 9595562-A-G ***
9433178-G-T 9595569-G-T ***
9993477-G-A 10155868-G-A ***
10004776-C-T 10167167-C-T ***
10040914-A-G 10203305-A-G ***
13353859-C-T 11198183-C-T ***
13425579-A-G 11269903-A-G ***
13463848-G-C 11308172-G-C ***
13475674-C-T 11319998-C-T ***
15640064-A-G 13528184-A-G ***
13475686-G-T 11320010-G-T ***
13484500-C-T 11328824-C-T ***
13484531-A-G 11328855-A-G ***
13485176-A-C 11329500-A-C ***
13485180-A-G 11329504-A-G ***
13488459-A-T 11332783-A-T ***
14258596-G-A 12137890-G-A ***
14435599-C-G 12314872-C-G ***
15012482-G-A 12900570-G-A ***
23747205-C-CTTTTTTTTTTTT 21585319-C-CTTTTTTTTTTTT 29×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. 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.

Haplotype Progression

The data below reveals the progression of changes in the haplotype. The bottom row is the haplotype for this man and above him are the inferred ancestral haplotypes for various upstream blocks. These inferred haplotypes are very much a work in progress, and any suggested modifications are appreciated. I think we can use our vast collection of haplotype data to refine these haplotypes. Mutations made from each upstream block are shown in sequence. The cell color is determined by the block in which the mutation took place.

DYS393
DYS390
DYS19
DYS391
DYS385
DYS426
DYS388
DYS439
DYS389i
DYS392
DYS389ii
DYS458
DYS459
DYS455
DYS454
DYS447
DYS437
DYS448
DYS449
DYS464
DYS460
Y-GATA-H4
YCAII
DYS456
DYS607
DYS576
DYS570
CDY
DYS442
DYS438
DYS531
DYS578
DYF395S1
DYS590
DYS537
DYS641
DYS472
DYF406S1
DYS511
DYS425
DYS413
DYS557
DYS594
DYS436
DYS490
DYS534
DYS450
DYS444
DYS481
DYS520
DYS446
DYS617
DYS568
DYS487
DYS572
DYS640
DYS492
DYS565
DYS710
DYS485
DYS632
DYS495
DYS540
DYS714
DYS716
DYS717
DYS505
DYS556
DYS549
DYS589
DYS522
DYS494
DYS533
DYS636
DYS575
DYS638
DYS462
DYS452
DYS445
Y-GATA-A10
DYS463
DYS441
Y-GGAAT-1B07
DYS525
DYS712
DYS593
DYS650
DYS532
DYS715
DYS504
DYS513
DYS561
DYS552
DYS726
DYS635
DYS587
DYS643
DYS497
DYS510
DYS434
DYS461
DYS435
P312/S1161324141111-14121212131329179-1011112515192915-15-17-17111119-231615181736-38121211915-1681010810101223-231610121215812222013121113111112123315916122626191211131210912121011113012132413101020151913241712152412231810141791211
L21/S1451324141111-14121212131329179-1011112515192915-15-17-17111119-231615181736-38121211915-1681010810101223-231610121215812222013121113111112123515916122526191211131211912121011113012132413101020151913241712152412231810141791211
Watterson1324151112-14121211131329189-1011112415193114-15-17-18121119-231815171738-41121212915-1681010810111223-231510121216812222014121113111112123615916122526191211131211913121011113012132414101022151913241711152512231810151791211

Age Analysis Information (work in progress)

AllMcDonaldYFull
Kit: 0FW1R*16000000100000008300000
Used in age calculations16000000100000008300000
Counts of SNPs2718
Variant counts last updated 2017-11-13 20:45:22.

* BED data not available. Using default values.


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