Tree Position

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

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
285322
22369396-G-A 20207510-G-A DYZ19 A+
19911248-C-T 17799368-C-T P5_Prx A+
22482978-G-A 20321092-G-A DYZ19 A+
22218431-T-A 20056545-T-A DYZ19 A+
19669007-A-G 17557127-A-G P5_Prx A*
18320451-G-A 16208571-G-A P6_Prx A*
25945664-C-T 23799517-C-T P1_Y1 A*
25977443-A-G 23831296-A-G P1_Y1 A*
26123788-A-G 23977641-A-G P1_Y1 A*
19893217-T-C 17781337-T-C P5_Prx A*
19724847-T-A 17612967-T-A P5_Prx A*
22232872-A-AG 20070986-A-AG DYZ19 A*
22274307-A-G 20112421-A-G DYZ19 A*
19669005-G-C 17557125-G-C P5_Prx A*
8268111-T-A 8400070-T-A YY+
21305555-T-C 19143669-T-C BY204112 YY+
8264881-C-T 8396840-C-T BY202729 YY+
8551848-C-T 8683807-C-T BY202814 YY+
7882354-G-A 8014313-G-A BY202664 YY+
15441023-T-C 13329143-T-C BY203292 YY+
18890750-C-T 16778870-C-T BY203909 YY+
19625308-C-T 17513428-C-T BY211867 P5_Prx +
19583395-C-A 17471515-C-A BY211851 P5_Prx Y+
18890749-G-T 16778869-G-T BY203908 YY+
18883453-C-G 16771573-C-G BY203906 YY+
17193290-A-G 15081410-A-G BY203601 YY+
14077596-C-T 11956890-C-T BY203060 YY+
14465585-G-A 12344858-G-A BY203149 YY+
16338332-T-C 14226452-T-C BY203436 YY+
14516592-C-T 12404793-C-T BY203157 YY+
15799769-A-T 13687889-A-T BY203356 YY+
15772970-T-A 13661090-T-A BY203352 YY+
22440479-A-G 20278593-A-G BY218829 DYZ19 +
21371913-T-C 19210027-T-C BY204127 YY+
22459853-G-T 20297967-G-T BY202287 DYZ19 +
9860977-A-G 10023368-A-G BY202990 YY+
23474046-A-G 21312160-A-G BY204515 YY+
9971911-G-A 10134302-G-A Y+
15403271-T-C 13291391-T-C BY203286 YY+
9539360-C-A 9701751-C-A BY202960 IR3_Prx +
14783492-C-T 12671562-C-T YY*
14783481-G-A 12671551-G-A YY*
6001186-G-T 6133145-G-T *
22957571-C-T 20795685-C-T YY*
10984368-G-C **
10937939-C-A **
11672679-C-G **
13907592-C-A 11786886-C-A **
13945436-A-C 11824730-A-C **
10954928-T-C **
13945524-C-A 11824818-C-A **
13977078-A-G 11856372-A-G **
10936874-T-C **
14427560-T-C 12306835-T-C **
14449800-C-A 12329073-C-A **
10936870-T-C **
10915217-C-T **
14561294-G-A 12449495-G-A **
14569841-T-C 12458041-T-C **
10908089-G-T **
15116539-C-A 13004626-C-A **
10906168-T-C **
11665440-G-T **
13690869-A-G 11535193-A-G **
13690878-G-C 11535202-G-C **
10984332-T-A **
10988328-C-A **
10984365-C-T **
10984364-A-T **
10984385-T-A **
10992355-CA-C **
10992358-T-TC **
10984339-T-G **
11003790-T-A **
11012085-GCCACT-G **
10984328-C-T **
10954952-A-T **
10975828-C-A **
10975808-T-A **
13222861-A-G 11067185-A-G **
10972832-G-A **
10959804-C-A **
10954953-T-C **
13223348-G-A 11067672-G-A **
10985936-C-A **
13570457-G-T 11414781-G-T **
13445405-C-T 11289729-C-T **
14294070-C-A 12173364-C-A **
15688179-C-A 13576299-C-A **
24280853-A-T 22134706-A-T P3_t1 **
22292736-TTGTTCCTTG-T 20130850-TTGTTCCTTG-T DYZ19 **
22540545-T-C 20378659-T-C **
22540547-T-C 20378661-T-C **
22580066-AT-A 20418180-AT-A **
23036969-C-A 20875083-C-A **
23037928-A-G 20876042-A-G **
23056198-G-A 20894312-G-A **
23377494-T-C 21215608-T-C **
23392946-A-AT 21231060-A-AT 8×T**
23516595-G-A 21354709-G-A **
24267225-ACACAC-A 22121078-ACACAC-A P3_b1 **
24302344-T-G 22156197-T-G P3_t1 **
21677477-A-G 19515591-A-G **
24884296-A-G 22738149-A-G g1 **
25955939-G-T 23809792-G-T P1_Y1 **
26228676-T-G 24082529-T-G P1_Y1 **
27561623-A-C 25415476-A-C P1_Y2 **
28549045-A-G 26402898-A-G **
28594267-G-A 26448120-G-A **
28594269-C-T 26448122-C-T **
28707730-C-A 26561583-C-A **
28708409-C-A 26562262-C-A **
56823113-A-G **
56823928-A-G **
56838774-C-A **
21697534-G-T 19535648-G-T **
21221244-C-T 19059358-C-T **
15774274-C-A 13662394-C-A **
17250346-G-A 15138466-G-A **
15922302-G-A 13810422-G-A **
16041164-G-A 13929284-G-A **
16041284-T-C 13929404-T-C **
16052827-C-T 13940947-C-T **
16271261-G-A 14159381-G-A **
16583392-G-GAA 14471512-G-GAA 10×A**
16588311-A-G 14476431-A-G **
16588344-T-G 14476464-T-G **
10906150-G-A **
16931653-A-T 14819773-A-T **
16933021-C-T 14821141-C-T **
17092709-G-A 14980829-G-A **
17372334-C-A 15260454-C-A **
21115867-T-C 18953981-T-C **
17374455-G-T 15262575-G-T **
17930976-C-A 15819096-C-A **
18186755-C-A 16074875-C-A **
18186759-G-T 16074879-G-T **
18402534-T-G 16290654-T-G P6_Gap **
18701912-A-G 16590032-A-G **
18707150-G-C 16595270-G-C **
19168586-T-A 17056706-T-A **
20055914-T-A 17944034-T-A P5_Prx **
20206684-G-T 18044798-G-T P5_Dst 9×A**
20242458-G-T 18080572-G-T P5_Dst **
20645789-A-G 18483903-A-G P4_Prx **
16653950-A-C 14542070-A-C **
10866124-A-G **
10900874-T-G **
21115868-G-A 18953982-G-A **
6090514-C-A 6222473-C-A **
10936879-T-C **
20424904-G-T 18263018-G-T P5_Dst **
27232041-G-T 25085894-G-T P1_g3 **
23256341-C-A 21094455-C-A **
9194610-C-A 9357001-C-A **
10842645-CA-C **
10842662-T-C **
10842671-A-T **
22529986-C-A 20368100-C-A **
10796994-T-G **
22580067-T-A 20418181-T-A **
10948510-A-C **
10973658-A-C **
28635480-C-A 26489333-C-A **
10034139-C-A 10196530-C-A **
21750583-G-T **
23439945-C-A 21278059-C-A **
22485778-C-A 20323892-C-A DYZ19 **
10972211-C-A **
11036040-C-A **
8214208-G-A 8346167-G-A **
19056336-A-T 16944456-A-T **
8288844-A-T 8420803-A-T **
10866128-A-T **
10866131-C-T **
10896347-C-T **
10880002-T-A **
16828894-C-A 14717014-C-A **
23825104-C-A 21663218-C-A **
15392370-C-A 13280490-C-A **
10859884-T-C **
14559362-C-A 12447563-C-A **
13196936-A-G 11041260-A-G Z3729 **
22292704-G-T 20130818-G-T DYZ19 **
23007390-G-T 20845504-G-T **
17363031-C-A 15251151-C-A **
10943946-C-A **
11652761-T-A **
23200367-C-A 21038481-C-A **
20535105-C-A 18373219-C-A P5_Dst **
16092893-C-A 13981013-C-A **
16044250-C-A 13932370-C-A **
11022961-C-T **
14051812-G-T 11931106-G-T **
27240322-G-T 25094175-G-T P1_g3 **
10814883-C-A **
10906246-T-C **
7166947-C-A 7298906-C-A **
17535487-C-A 15423607-C-A **
13881342-C-A 11760636-C-A **
10660525-C-A **
10775311-C-A **
10779180-C-A **
8078668-G-T 8210627-G-T **
27523264-C-A 25377117-C-A P1_Y2 **
10777737-G-T **
10846421-C-A **
10984369-C-A **
10984370-C-T **
15402633-C-A 13290753-C-A **
19610394-C-A 17498514-C-A P5_Prx **
5212646-C-A 5344605-C-A **
26228670-T-G 24082523-T-G P1_Y1 **
4208878-T-G 4340837-T-G **
10906191-T-A **
9997065-G-A 10159456-G-A **
7132315-G-A 7264274-G-A **
7197416-A-C 7329375-A-C **
7277672-C-A 7409631-C-A **
7313471-T-C 7445430-T-C **
7418655-T-C 7550614-T-C **
7650381-T-C 7782340-T-C **
8214205-T-G 8346164-T-G **
8214228-G-AT 8346187-G-AT **
8379371-T-G 8511330-T-G **
8908019-T-C 9039978-T-C **
9116954-A-G 9279345-A-G **
9768162-C-A 9930553-C-A **
9967484-A-T 10129875-A-T **
10023590-C-T 10185981-C-T **
6773751-T-A 6905710-T-A **
10660550-T-C **
10678492-C-A **
10767481-C-A **
10774457-T-G **
10779935-T-A **
10779941-C-A **
10795863-T-G **
10802118-T-G **
10836582-T-C **
10841937-T-A **
10842630-CGTTTCATTTT-C **
10847272-T-C **
10860588-C-A **
10862714-T-C **
6592438-C-A 6724397-C-A **
6921874-T-C 7053833-T-C **
6714438-G-T 6846397-G-T **
5667072-C-T 5799031-C-T **
6881378-C-A 7013337-C-A **
3049570-C-T 3181529-C-T **
3294900-G-T 3426859-G-T **
3546029-T-G 3677988-T-G **
3653606-C-T 3785565-C-T **
3847240-C-A 3979199-C-A **
3913662-C-A 4045621-C-A **
4067668-C-A 4199627-C-A **
4094650-T-G 4226609-T-G **
4449102-G-T 4581061-G-T **
5162564-C-A 5294523-C-A **
5180708-T-C 5312667-T-C **
5542806-C-T 5674765-C-T **
5607518-C-G 5739477-C-G **
5468912-T-C 5600871-T-C **
5767629-C-A 5899588-C-A **
7048-G-A **
5829841-T-G 5961800-T-G **
6691981-C-A 6823940-C-A **
6687318-G-T 6819277-G-T **
6366523-A-T 6498482-A-T **
5691352-A-G 5823311-A-G **
5935745-A-C 6067704-A-C **
6354380-C-A 6486339-C-A ***
23447070-C-A 21285184-C-A ***
22164547-CAAA-C,CAAAA 20002661-CAAA-C,CAAAA 19×A***
16971437-C-A 14859557-C-A ***
28796350-A-T 26650203-A-T ***
2807047-T-C 2939006-T-C ***
6757056-C-A 6889015-C-A ***
10988626-A-G ***
13226245-G-T 11070569-G-T ***
10679548-C-T ***
19240766-ATTT-A 17128886-ATTT-A 15×T***
13453458-C-G 11297782-C-G ***
14339812-C-A 12219107-C-A 11×T***
22509471-C-T 20347585-C-T DYZ19 ***
6741534-A-G 6873493-A-G ***
10995568-C-A ***
22703650-A-G 20541764-A-G ***
10671459-G-T ***
4087805-T-C 4219764-T-C ***

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: 285322997272080824997947376
Used in age calculations997272080824997947376
Counts of SNPs2523
Variant counts last updated 2019-05-04 11:18:33.



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