Tree Position

R-P312/S116 > Z290 > L21/S145 > DF13 > ZZ10 > Z253 > ZZ6 > FGC3249 > FGC3236 > FGC3251 > FGC3248 > L430

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
99512
FGC
PY5HU
15758479-C-T 13646599-C-T FGC3246 YY+
24478742-C-A 22332595-C-A FGC3267 Y++
3229070-CTT-C 3361029-CTT-C FGC3269 +
16210460-C-A 14098580-C-A FGC3219 Z14282 Y+
23512827-T-G 21350941-T-G FGC3266 Y+
3827443-G-A 3959402-G-A FGC3224 +
4157228-T-C 4289187-T-C FGC3226 +
4455351-C-G 4587310-C-G FGC3227 +
5030042-G-T 5162001-G-T FGC3228 +
5276124-T-G 5408083-T-G FGC3229 +
5947844-G-A 6079803-G-A FGC3230 +
5985685-G-T 6117644-G-T FGC3231 +
6025164-C-T 6157123-C-T FGC3232 +
20612064-T-A 18450178-T-A FGC3259 P5_Dst +
4038914-G-A 4170873-G-A FGC3225 +
13588997-C-T 11433321-C-T FGC3240 +
14268261-C-A 12147555-C-A FGC3242 Y+
14301933-C-A 12181227-C-A FGC3243 Y+
13946653-G-A 11825947-G-A FGC3241 Y14634 YY++
3199957-T-G 3331916-T-G FGC3223 *
26456313-A-G 24310166-A-G FGC48694 P1_Y1 **
21363027-T-A 19201141-T-A **
16701905-G-T 14590025-G-T **
58882412-ACATTCGATTTCTTGT-A 56708434-GAATCGAATGACAAGA-G **
6177481-TTG-T 6309440-TTG-T IR3_Dst 23×TG**
15604354-CAAAAAA-C 13492474-CAAAAAA-C 20×A**
17201821-C-T 15089941-C-T V63 **
19765809-CTTTTTTTTTT-C 17653929-CTTTTTTTTTT-C P5_Prx 22×T**
13447107-TATTCC-T 11291431-TATTCC-T 9×ATTCC**
21118158-T-TAC 18956272-T-TAC FGC5438 22×AC**
28237966-T-G 26091819-T-G P1_b4 ***
28819308-T-A 26673161-T-A ***
58831558-A-T 56759313-T-A ***
58840426-A-G 56750445-T-C ***
58840427-G-T 56750444-C-A ***
20522556-G-C 18360670-G-C P5_Dst ***
58843642-G-T 56747229-C-A ***
58844948-T-C 56745923-A-G ***
58868572-G-C 56722299-C-G ***
58876310-C-T 56714561-G-A ***
58893211-T-C 56697660-A-G ***
58898565-A-G 56692306-T-C ***
58910818-A-C 56680053-T-G ***
19769971-G-T 17658091-G-T P5_Prx ***
58911185-A-C 56679686-T-G ***
28006408-C-A 25860261-C-A P1_Y2 ***
22504105-G-T 20342219-G-T DYZ19 ***
26721883-G-T 24575736-G-T FGC48695 P1_g2 ***
20522277-T-C 18360391-T-C P5_Dst ***
22265940-T-A 20104054-T-A DYZ19 ***
22265965-T-A 20104079-T-A DYZ19 ***
22276528-T-G 20114642-T-G DYZ19 ***
22335978-T-A 20174092-T-A DYZ19 ***
22352516-T-G 20190630-T-G DYZ19 ***
20522328-A-T 18360442-A-T P5_Dst ***
20522307-G-A 18360421-G-A P5_Dst ***
22355187-T-A 20193301-T-A DYZ19 ***
26507832-G-A 24361685-G-A P1_Y1 ***
20522263-A-G 18360377-A-G P5_Dst ***
21717648-A-ATG 19555762-A-ATG 17×TG***
19775300-G-T 17663420-G-T P5_Prx ***
22421000-C-A 20259114-C-A DYZ19 ***
22499068-G-T 20337182-G-T DYZ19 ***
22502012-G-A 20340126-G-A DYZ19 ***
20522550-T-C 18360664-T-C P5_Dst ***
24487402-G-C 22341255-G-C ***
58913189-A-T 56677682-T-A ***
13457781-G-T 11302105-G-T ***
13479881-TTCT-CCCC 11324205-TTCT-CCCC ***
22420853-TAGT-GAGA 20258967-TAGT-GAGA DYZ19 ***
20023980-A-AGATG 17912100-A-AGATG P5_Prx ***
20522238-ATA-TTG 18360352-ATA-TTG P5_Dst ***
20522538-CA-GG 18360652-CA-GG P5_Dst ***
20522562-GTTTT-TTTCC 18360676-GTTTT-TTTCC P5_Dst ***
20700730-A-AT 18538844-A-AT P4_Prx 9×T***
21409460-C-CAAAAAA 19247574-C-CAAAAAA 30×A***
22234944-AG-TA 20073058-AG-TA DYZ19 ***
22265972-GTGTCC-TTGCAT 20104086-GTGTCC-TTGCAT DYZ19 ***
22273539-CTT-C 20111653-CTT-C DYZ19 ***
22289469-TTTA-CTT 20127583-TTTA-CTT DYZ19 ***
22289476-CTG-TTT 20127590-CTG-TTT DYZ19 ***
22420862-CATTCT-ACTTCA 20258976-CATTCT-ACTTCA DYZ19 ***
18804474-A-AGAG 16692594-A-AGAG 26×AG***
22420876-CAAAA-AGGAG 20258990-CAAAA-AGGAG DYZ19 ***
22504694-TAAACGT-CAAAGGC 20342808-TAAACGT-CAAAGGC DYZ19 ***
23389531-C-CTTTTTTT 21227645-C-CTTTTTTT 18×T***
25080053-C-CAA 22933906-C-CAA g1 20×A***
25675611-AG-TC 23529464-AG-TC P1_b3 ***
25709386-G-GTTTTTTTT 23563239-G-GTTTTTTTT P1_b3 31×T***
27035480-CTT-C 24889333-CTT-C P1_r4 16×T***
27862535-T-AGAGA 25716388-T-AGAGA P1_Y2 22×GA***
28819330-AGATTGGATTGGAG-CAAATGGTTTTGAA 26673183-AGATTGGATTGGAG-CAAATGGTTTTGAA ***
58840789-TCCCTTTGTTTCCATTCTCTTCGATTCCATTTCTTTATATTCCATG-T 56750034-TGGCATGGAATATAAAGAAATGGAATCGAAGAGAATGGAAACAAAG-T ***
58893212-TTCCC-CTCAG 56697655-GGGAA-CTGAG ***
13139239-TCATTC-CCATTC,T 10628725-TCATTC-CCATTC,T 10×CATTC***
19006136-C-CAAAAAA 16894256-C-CAAAAAA 21×A***
18035665-C-CTTTTT 15923785-C-CTTTTT 30×T***
17956056-C-CT 15844176-C-CT 13×T***
9983930-TT-AC 10146321-TT-AC ***
13489012-AT-GC 11333336-AT-GC ***
3544894-G-GA 3676853-G-GA ***
19012969-A-C 16901089-A-C ***
6089764-G-GTTTTTTTTTT 6221723-G-GTTTTTTTTTT 31×T***
6858592-C-CTTTT 6990551-C-CTTTT 25×T***
8826708-CAG-AAA 8958667-CAG-AAA ***
9342737-CA-AG 9505128-CA-AG ***
9403521-G-GTTTTTTT 9565912-G-GTTTTTTT 21×T***
9522577-GAC-CAA 9684968-GAC-CAA ***
9522586-CTGAT-TTGAG 9684977-CTGAT-TTGAG ***
9945416-TCTG-CCTA 10107807-TCTG-CCTA ***
13199164-C-CAAAA 11043488-C-CAAAA 18×A***
17802166-T-TAAAAA 15690286-T-TAAAAA 30×A***
13465305-ACCCC-TCTCA 11309629-ACCCC-TCTCA ***
13465322-TT-CC 11309646-TT-CC ***
13469487-AA-GT 11313811-AA-GT ***
13478256-CGA-TGC 11322580-CGA-TGC ***
13488556-GGCGCGTT-AGCGCGTG 11332880-GGCGCGTT-AGCGCGTG ***
13489569-GG-CA 11333893-GG-CA ***
13611988-G-GTTTTTTT 11456312-G-GTTTTTTT 19×T***
13847209-A-AAATGGAATGG 11726503-A-AAATGGAATGG 4×AATGG***
13940857-A-AAGAGAG 11820151-A-AAGAGAG 18×AG***
14624252-TACAC-T 12512452-TACAC-T 21×AC***
15171226-CTTT-C 13059312-CTTT-C 19×T***
15733879-C-CAAAA 13621999-C-CAAAA 25×A***
3628709-G-GAA 3760668-G-GAA 26×A***
13479871-G-T 11324195-G-T ***
18398155-G-A 16286275-G-A P6_Gap ***
58866446-CCCA-TCCG 56724422-TGGG-CGGA ***
22357635-G-T 20195749-G-T DYZ19 ***
58912635-G-C 56678236-C-G ***
22127975-C-CTTTTTT 19966089-C-CTTTTTT 20×T***
22488496-G-T 20326610-G-T DYZ19 ***
22488497-T-C 20326611-T-C DYZ19 ***
22496169-T-C 20334283-T-C DYZ19 ***
27499360-T-C 25353213-T-C P1_Y2 ***
58913068-C-A 56677803-G-T ***
14491215-A-AAACAT ***
28819269-GGTA-TGGG 26673122-GGTA-TGGG ***
22234427-T-A 20072541-T-A DYZ19 ***
13518312-C-T 11362636-C-T ***
3902502-TAAAAATATAATACATTCAAATAGAA-T 4034461-TAAAAATATAATACATTCAAATAGAA-T ***
5107030-A-AT 5238989-A-AT ***
5107036-ACCAT-CCCAC 5238995-ACCAT-CCCAC ***
8575956-A-AT 8707915-A-AT 28×T***
13483218-CT-TG 11327542-CT-TG ***
22327478-C-A 20165592-C-A DYZ19 ***
58838545-G-C 56752326-C-G ***
22962414-G-GTTTTT 20800528-G-GTTTTT 20×T***
58843643-C-T 56747228-G-A 4×CCATT***
58843685-G-C 56747186-C-G ***
13740850-C-T 11585174-C-T ***
22366755-AGAGA-GGAGT 20204869-AGAGA-GGAGT DYZ19 ***
8901076-C-T 9033035-C-T 15×AT***
23209065-T-TA 21047179-T-TA 10×A***
9968277-A-T 10130668-A-T ***
13456219-T-C 11300543-T-C S13825 ***
13458578-T-A 11302902-T-A ***
13649708-A-C 11494032-A-C ***
13649710-G-A 11494034-G-A ***
13801424-G-A 11680718-G-A ***
13801483-C-A 11680777-C-A ***
13826087-A-T 11705381-A-T ***
13853060-AGGGAG-A 11732354-AGGGAG-A ***
22253730-T-G 20091844-T-G DYZ19 ***
26010993-G-C 23864846-G-C P1_Y1 ***
22366714-ACT-TCG 20204828-ACT-TCG DYZ19 ***
27791872-T-G 25645725-T-G P1_Y2 ***
28799786-C-T 26653639-C-T 4×GGAGT***
28801639-G-A 26655492-G-A ***
58976909-T-C 56830762-T-C ***
58977018-T-A 56830871-T-A ***
58982926-C-T 56836779-C-T ***
22481674-T-A 20319788-T-A DYZ19 ***
22496172-T-A 20334286-T-A DYZ19 ***
22335999-TT-GG 20174113-TT-GG DYZ19 ***
22366697-TTT-AAG 20204811-TTT-AAG DYZ19 ***
58843619-CGTTTCG-GGAGTCA 56747246-CGAAACG-TGACTCC ***
58868662-G-A 56722209-C-T ***
17716176-T-C 15604296-T-C ***
13245451-C-T 11089775-C-T ***
8571150-CA-C 8703109-CA-C 14×A***
58882530-GTCCATTCCGTTCGAT-G 56708307-GGGAATCGAACGGAAT-G ***
13479873-G-A 11324197-G-A ***
13467524-A-G 11311848-A-G ***
13469483-T-C 11313807-T-C ***
13480091-C-T 11324415-C-T ***
4913977-T-A 5045936-T-A ***
9194845-C-T 9357236-C-T ***
9680117-C-T 9842508-C-T IR3_Prx ***
10025210-C-T 10187601-C-T ***
13363961-C-A 11208285-C-A ***
13482882-CT-AA 11327206-CT-AA ***
13467614-A-T 11311938-A-T ***
13473420-T-A 11317744-T-A ***
13476385-A-T 11320709-A-T ***
13676708-C-G 11521032-C-G ***
13480045-G-C 11324369-G-C ***
13480726-G-A 11325050-G-A ***
13480760-G-T 11325084-G-T ***
13726528-T-C 11570852-T-C ***
13733917-G-T 11578241-G-T ***
15252823-C-A 13140909-C-A ***
3350514-CA-C 3482473-CA-C 15×A***
14025624-GAAA-G 11904918-GAAA-G ***
5593309-CAA-C 5725268-CAA-C 15×A***
22236518-GATGG-TAAGA 20074632-GATGG-TAAGA DYZ19 ***
22495764-CTTG-GTT 20333878-CTTG-GTT DYZ19 ***
13255004-C-T 11099328-C-T ***
22499088-G-C 20337202-G-C DYZ19 ***
58840476-A-C 56750395-T-G ***
23084704-GT-G 20922818-GT-G 19×T***
10049572-T-C 10211963-T-C ***
13528617-T-C 11372941-T-C ***
22289483-G-A 20127597-G-A DYZ19 ***
58843666-T-A 56747205-A-T ***
58843684-A-C 56747187-T-G ***
22236485-A-T 20074599-A-T DYZ19 ***
22496008-C-G 20334122-C-G DYZ19 ***
3253829-C-CA 3385788-C-CA 18×A***
22289463-A-G 20127577-A-G DYZ19 ***
22342832-T-A 20180946-T-A DYZ19 ***
13467653-AGAAT-GCAAG 11311977-AGAAT-GCAAG ***
58895649-C-A 56695222-G-T ***
59013637-TA-T 56867490-TA-T ***
22360576-G-T 20198690-G-T DYZ19 ***
24207516-A-C 22061369-A-C FGC38958 P3_b1 ***
13252783-GT-G 11097107-GT-G 11×T***
19183814-C-CTTTTT 17071934-C-CTTTTT 28×T***
13805365-A-AGGATT,T 11684659-A-AGGATT,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
McClure1324141111-141212121316291710-1011112515182915-16-16-17111119-231514201737-40121211915-1681010810101323-231710121215813222013121113111212123515916122426191211121212913111011113112142413101021151612241712152412241810141791211

Age Analysis Information (work in progress)

AllMcDonaldYFull
Kit: 995121056196576134707683210
Kit: PY5HU*16000000100000008300000
Used in age calculations16000000100000008300000
Counts of SNPs63
Variant counts last updated 2017-11-13 20:44:25.

* BED data not available. Using default values.


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