Tree Position

R-P312/S116 > Z290 > L21/S145 > DF13 > Z39589 > L1335/S530 > L1065 > Z16325 > S744 > S764 > Z17611 > Z17612 > FGC17603

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
143812
FGC
J2RTF
17860501-C-T 15748621-C-T FGC17605 Y**+
14406792-C-T 12286090-C-T FGC17602 YY+
7615083-G-A 7747042-G-A FGC17599 YY++
8757139-A-G 8889098-A-G FGC17600 YY++
18859886-C-T 16748006-C-T FGC35276 Y+
9476384-A-G 9638775-A-G FGC17601 ++
19472571-C-A 17360691-C-A YY+
24523764-T-C 22377617-T-C FGC17606 ++
13805830-TAGAA-T 11685124-TAGAA-T +**
13383675-C-A 11227999-C-A FGC35277 +
6931881-A-G 7063840-A-G FGC17598 YY++
16797873-G-A 14685993-G-A FGC17604 YY++
8770009-C-A 8901968-C-A YY*
7270276-C-CTTT 7402235-C-CTTT 25×T**
22332853-A-C 20170967-A-C DYZ19 **
22421880-G-C 20259994-G-C DYZ19 ***
22355036-G-A 20193150-G-A DYZ19 ***
22355063-G-A 20193177-G-A DYZ19 ***
22355067-C-T 20193181-C-T DYZ19 ***
22358425-T-A 20196539-T-A DYZ19 ***
22342959-A-T 20181073-A-T DYZ19 ***
22421439-A-G 20259553-A-G DYZ19 ***
22342740-G-A 20180854-G-A DYZ19 ***
22309140-T-C 20147254-T-C DYZ19 ***
22421464-C-T 20259578-C-T DYZ19 ***
22309139-G-T 20147253-G-T DYZ19 ***
22421849-C-T 20259963-C-T DYZ19 ***
58974072-A-ATCCGATTCC 56827925-A-ATCCGATTCC ***
22421885-C-T 20259999-C-T DYZ19 ***
22421891-C-A 20260005-C-A DYZ19 ***
22457006-T-G 20295120-T-G DYZ19 ***
22257296-A-G 20095410-A-G DYZ19 ***
22457021-T-A 20295135-T-A DYZ19 ***
22482591-A-C 20320705-A-C DYZ19 ***
22504512-G-C 20342626-G-C DYZ19 ***
22504524-T-A 20342638-T-A DYZ19 ***
24251558-G-T 22105411-G-T P3_b1 ***
26373637-C-A 24227490-C-A P1_Y1 ***
26499808-C-T 24353661-C-T P1_Y1 ***
27308700-G-A 25162553-G-A P1_g3 ***
27308768-C-A 25162621-C-A P1_g3 ***
27314054-G-A 25167907-G-A P1_g3 ***
27829805-A-T 25683658-A-T P1_Y2 ***
22292211-T-C 20130325-T-C DYZ19 ***
22241443-A-C 20079557-A-C DYZ19 ***
22256928-A-T 20095042-A-T DYZ19 ***
19707183-C-T 17595303-C-T P5_Prx ***
13470982-G-A 11315306-G-A ***
13470988-C-A 11315312-C-A ***
13701968-T-A 11546292-T-A ***
13723630-T-C 11567954-T-C ***
13730448-C-G 11574772-C-G ***
13877442-G-A 11756736-G-A ***
15430064-G-A 13318184-G-A ***
19340207-G-A 17228327-G-A ***
19340208-C-G 17228328-C-G ***
19604096-G-T 17492216-G-T P5_Prx ***
19604097-A-T 17492217-A-T P5_Prx ***
19604104-C-T 17492224-C-T P5_Prx ***
19648529-T-A 17536649-T-A P5_Prx ***
19707239-A-C 17595359-A-C P5_Prx ***
22252587-G-T 20090701-G-T DYZ19 ***
19707289-C-T 17595409-C-T P5_Prx ***
19766020-T-A 17654140-T-A P5_Prx ***
20079812-C-A 17967932-C-A P5_Dst ***
20335258-C-T 18173372-C-T P5_Dst ***
21019724-G-T 18857838-G-T P4_Dst ***
22226535-A-T 20064649-A-T DYZ19 ***
22227918-A-T 20066032-A-T DYZ19 ***
22241428-G-A 20079542-G-A DYZ19 ***
22241432-A-C 20079546-A-C DYZ19 ***
22247985-T-A 20086099-T-A DYZ19 ***
22251476-A-G 20089590-A-G DYZ19 ***
22251523-G-C 20089637-G-C DYZ19 ***
22251524-G-T 20089638-G-T DYZ19 ***
27877579-A-T 25731432-A-T P1_Y2 ***
28356090-A-T 26209943-A-T P1_gr2 ***
28098943-T-A 25952796-T-A P1_Y2 ***
22292219-GT-TG 20130333-GT-TG DYZ19 ***
19707224-CC-TT 17595344-CC-TT P5_Prx ***
19707273-GT-AG 17595393-GT-AG P5_Prx ***
20326008-T-TTTTTTTTC 18164122-T-TTTTTTTTC P5_Dst ***
21085796-AAAAAAAAC-A 18923910-AAAAAAAAC-A ***
21561547-C-CA 19399661-C-CA 9×A***
22236469-CAAGG-TAAGT 20074583-CAAGG-TAAGT DYZ19 ***
22252577-GGTC-AGTG 20090691-GGTC-AGTG DYZ19 ***
22252598-TAC-AAA 20090712-TAC-AAA DYZ19 ***
22252612-TCC-CAA 20090726-TCC-CAA DYZ19 ***
22252637-CCAGAGTT-TTAGATTG 20090751-CCAGAGTT-TTAGATTG DYZ19 ***
22268168-AGTGG-GGTGT 20106282-AGTGG-GGTGT DYZ19 ***
22289494-CTAACA-GTACCG 20127608-CTAACA-GTACCG DYZ19 ***
22289686-AGC-TGT 20127800-AGC-TGT DYZ19 ***
22297347-CGT-AGG 20135461-CGT-AGG DYZ19 ***
19707189-GTTCCTGGGAAACATA-G 17595309-GTTCCTGGGAAACATA-G P5_Prx ***
22309139-GT-TC 20147253-GT-TC DYZ19 ***
22343203-TCAT-GCAC 20181317-TCAT-GCAC DYZ19 ***
22358418-GGC-CGA 20196532-GGC-CGA DYZ19 ***
22360472-TAG-GAA 20198586-TAG-GAA DYZ19 ***
22367118-GA-TG 20205232-GA-TG DYZ19 ***
22481563-GCAGT-ACAGC 20319677-GCAGT-ACAGC DYZ19 ***
24343462-AGGT-GGGG 22197315-AGGT-GGGG P3_t1 ***
24924270-T-CC 22778123-T-CC g1 ***
27095766-C-CA 24949619-C-CA P1_r4 10×A***
28253524-C-CA 26107377-C-CA P1_b4 ***
58820486-TAATT-CAATA 56770381-AATTA-TATTG ***
58820502-GTCCG-TTCCA 56770365-CGGAC-TGGAA ***
58847196-TTTCG-ATTCC 56743671-CGAAA-GGAAT ***
58913290-TGTGGT-AGTGAC 56677576-ACCACA-GTCACT ***
19707213-CTG-TCA 17595333-CTG-TCA P5_Prx ***
16340147-G-GAAAAAA 14228267-G-GAAAAAA 22×A***
28356058-A-T 26209911-A-T P1_gr2 ***
58883985-T-C 56706886-A-G ***
28356071-G-A 26209924-G-A P1_gr2 ***
28356076-A-G 26209929-A-G P1_gr2 ***
28356080-T-G 26209933-T-G P1_gr2 ***
58820511-A-G 56770360-T-C ***
58826879-G-T 56763992-C-A 4×CATTC***
58840284-T-C 56750587-A-G ***
58847194-C-G 56743677-G-C ***
58851665-A-T 56739206-T-A ***
58867447-A-T 56723424-T-A ***
58875241-A-C 56715630-T-G ***
58875243-T-G 56715628-A-C ***
58875797-T-C 56715074-A-G ***
58877075-C-A 56713796-G-T ***
58909171-A-T 56681700-T-A ***
15430061-ATAG-GTAA 13318181-ATAG-GTAA ***
17245529-GA-G 15133649-GA-G 22×A***
3205858-C-CAAAAGGAAAAAA 3337817-C-CAAAAGGAAAAAA 15×A***
3889019-CTT-C 4020978-CTT-C 15×T***
9502520-TGGGGGGAGGGGGGAG-T 9664911-TGGGGGGAGGGGGGAG-T ***
9951859-AT-GA 10114250-AT-GA ***
13110052-CA-AG 10599538-CA-AG ***
13110088-CACTTTA-AAGTTTT 10599574-CACTTTA-AAGTTTT ***
13110104-CTATC-GAATG 10599590-CTATC-GAATG ***
13110115-TCA-AAG 10599601-TCA-AAG ***
13110124-GT-CA 10599610-GT-CA ***
13467428-CCCA-ACTG 11311752-CCCA-ACTG ***
13805834-A-AAT 11685128-A-AAT ***
14491320-GT-CA ***
15262458-CAAA-C 13150542-CAAA-C 30×A***
13470972-G-T 11315296-G-T ***
13110052-C-A 10599538-C-A ***
13353499-C-T 11197823-C-T ***
22257030-CCACG-GCATT 20095144-CCACG-GCATT DYZ19 ***
22293063-A-C 20131177-A-C DYZ19 ***
22491029-T-A 20329143-T-A DYZ19 ***
22435744-TGA-AGC 20273858-TGA-AGC DYZ19 ***
22504528-AG-CT 20342642-AG-CT DYZ19 ***
13110090-C-G 10599576-C-G ***
13110105-T-A 10599591-T-A ***
58877144-T-C 56713727-A-G ***
58907594-T-A 56683277-A-T ***
58909129-A-C 56681742-T-G ***
22367929-CATG-GATT 20206043-CATG-GATT DYZ19 ***
58870601-A-AT 56720268-G-GA ***
58907512-TTCCC-GTCCA 56683355-GGGAA-TGGAC ***
58844027-T-TTCCATTCGATTCCA 56746842-A-AATGGAATCGAATGG ***
22342390-G-C 20180504-G-C DYZ19 ***
58973009-A-G,T 56826862-A-G,T ***
13723586-G-T 11567910-G-T ***
13723587-G-T 11567911-G-T ***
13723588-C-A 11567912-C-A ***
13723591-G-C 11567915-G-C ***
13723610-T-C 11567934-T-C ***
58829066-T-G 56761805-A-C ***
58841385-T-C 56749486-A-G ***
58841404-C-T 56749467-G-A ***
58854179-G-A 56736692-C-T ***
58889922-G-A 56700949-C-T ***
28802746-TTCAAATTGCATAGA-GTCGAATGTCAACC 26656599-TTCAAATTGCATAGA-GTCGAATGTCAACC ***
28818194-G-GTGGAATGGAATGTAA 26672047-G-GTGGAATGGAATGTAA 5×TGGAA***
13470295-ATT-GTC 11314619-ATT-GTC ***
58974807-A-T 56828660-A-T ***
58819408-C-A 56771463-G-T ***
22342970-TTA-GTC 20181084-TTA-GTC DYZ19 ***
16818971-G-GTATATA 14707091-G-GTATATA 21×TA***
9326000-C-T 9488391-C-T ***
13454827-C-G 11299151-C-G ***
13473848-G-T 11318172-G-T ***
13819029-A-C 11698323-A-C ***
13819965-G-T 11699259-G-T ***
13823161-T-G 11702455-T-G ***
13823180-A-G 11702474-A-G ***
13832565-A-ATGGAG 11711859-A-ATGGAG 4×TGGAG***
13839811-G-GAATGA 11719105-G-GAATGA ***
13839830-G-A 11719124-G-A ***
13862188-G-T 11741482-G-T ***
13862235-A-G,T 11741529-A-G,T ***
13869045-G-A 11748339-G-A ***
22258500-A-G 20096614-A-G DYZ19 ***
58819403-C-T 56771468-G-A ***
22285549-A-T 20123663-A-T DYZ19 ***
22289145-T-G 20127259-T-G DYZ19 ***
22313908-A-C 20152022-A-C DYZ19 ***
22512356-A-G 20350470-A-G DYZ19 ***
22512359-C-T 20350473-C-T DYZ19 ***
23158148-GA-G 20996262-GA-G 10×A***
26072243-G-A 23926096-G-A P1_Y1 ***
26747677-C-T 24601530-C-T P1_g2 ***
28800159-A-G 26654012-A-G ***
58819372-C-A 56771499-G-T ***
58819376-T-G 56771495-A-C ***
58819380-A-G 56771491-T-C ***
58819385-T-A 56771486-A-T ***
58819392-C-G 56771479-G-C ***
58823527-A-G 56767344-T-C ***
58909249-T-C 56681622-A-G ***
13353489-C-T 11197813-C-T ***
22252626-A-T 20090740-A-T DYZ19 ***
58821133-TTC-T 56769732-AAG-A ***
13723636-A-G 11567960-A-G ***
22236782-CGA-TGC 20074896-CGA-TGC DYZ19 ***
13110124-G-C 10599610-G-C ***
13472819-A-G 11317143-A-G ***
13473221-A-G 11317545-A-G ***
13473207-A-T 11317531-A-T ***
13473188-A-G 11317512-A-G ***
58870510-C-T 56720361-G-A ***
13110117-A-G 10599603-A-G ***
26463226-A-G 24317079-A-G P1_Y1 ***
58867683-T-A 56723188-A-T ***
13467408-T-A 11311732-T-A ***
22268228-C-T 20106342-C-T DYZ19 ***
9342740-C-A 9505131-C-A ***
3313079-T-G 3445038-T-G ***
4446674-T-C 4578633-T-C ***
4881186-T-C 5013145-T-C ***
9197019-G-A 9359410-G-A ***
9227144-G-C 9389535-G-C ***
9930805-G-A 10093196-G-A ***
13109658-G-T 10599144-G-T ***
13110003-G-T 10599489-G-T ***
13110030-T-A 10599516-T-A ***
13110088-C-A 10599574-C-A ***
13110104-C-G 10599590-C-G ***
13110108-C-G 10599594-C-G ***
13110125-T-A 10599611-T-A ***
13332842-A-G 11177166-A-G ***
13110094-A-T 10599580-A-T ***
58910250-ATCCA-CTCTG 56680617-TGGAT-CAGAG ***
13472933-A-T 11317257-A-T ***
22499545-C-A 20337659-C-A DYZ19 ***
28086215-A-C 25940068-A-C P1_Y2 ***
13864559-T-TGGAAC 11743853-T-TGGAAC ***
13110156-T-G 10599642-T-G ***
13110176-G-C 10599662-G-C ***
10092271-C-T 10254662-C-T ***
26462925-A-T 24316778-A-T P1_Y1 8×T***
22491031-T-G 20329145-T-G DYZ19 ***
22251516-T-A 20089630-T-A DYZ19 ***
22289506-G-A 20127620-G-A DYZ19 ***
22289703-T-G 20127817-T-G DYZ19 ***
22481171-G-C 20319285-G-C DYZ19 ***
22481197-G-A 20319311-G-A DYZ19 ***
22499104-G-A 20337218-G-A DYZ19 ***
13276199-A-G 11120523-A-G ***
58910210-TTT-AAA 56680659-AAA-TTT ***
22267284-C-A 20105398-C-A DYZ19 ***
22502775-C-A 20340889-C-A DYZ19 ***
25749309-GT-G 23603162-GT-G P1_b3 16×T***
26462947-G-A 24316800-G-A P1_Y1 ***
26462960-G-A 24316813-G-A P1_Y1 ***
22504362-G-A 20342476-G-A DYZ19 ***
58875765-G-T 56715106-C-A ***
58909253-G-T 56681618-C-A ***
22502815-A-T 20340929-A-T DYZ19 ***
28022805-G-A 25876658-G-A P1_Y2 ***
13462086-CT-GG 11306410-CT-GG ***
58867155-A-C 56723716-T-G ***
22450153-A-C 20288267-A-C DYZ19 ***
58870110-C-A 56720761-G-T ***
13843996-AC-A,AA 11723290-AC-A,AA ***

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.

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