Tree Position

R-P312/S116 > Z290 > L21/S145 > DF13 > Z39589

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
HQSXY
15546225-C-G 13434345-C-G FGC24305 YY+
14090334-G-T 11969628-G-T FGC24301 YY+
8274397-A-G 8406356-A-G FGC24293 YY+
16678953-G-A 14567073-G-A FGC24309 YY+
16423485-G-A 14311605-G-A FGC24307 Y+
4679104-C-T 4811063-C-T FGC24288 +
6414351-A-G 6546310-A-G FGC24291 +
15451440-T-A 13339560-T-A FGC24304 YY+
14578424-T-C 12466624-T-C FGC24302 YY+
13716760-T-G 11561084-T-G FGC24300 +
17423470-T-C 15311590-T-C L526 YY+
7394904-C-G 7526863-C-G FGC24292 Y+
13232365-C-G 11076689-C-G FGC24299 +
10082504-C-G 10244895-C-G FGC24298 +
9943259-C-T 10105650-C-T FGC24297 Y+
3333747-G-A 3465706-G-A FGC24286 +
21876765-T-C 19714879-T-C FGC24319 YY+
8678034-T-C 8809993-T-C FGC24294 YY+
17220087-C-T 15108207-C-T FGC24311 Y+
16844536-G-T 14732656-G-T FGC24310 YY+
17568697-G-A 15456817-G-A FGC24312 YY+
18641510-C-A 16529630-C-A FGC24315 YY+
5387970-C-G 5519929-C-G FGC24289 +
24380505-CT-C 22234358-CT-C +
21441676-A-G 19279790-A-G FGC24318 YY+
22271422-C-A 20109536-C-A FGC24320 DYZ19 +
20813081-G-T 18651195-G-T FGC24317 P4_Gap +
22666749-G-C 20504863-G-C FGC24321 Y+
23758028-C-G 21596142-C-G FGC24322 Y+
19377356-G-A 17265476-G-A FGC24316 YY+
18060982-A-G 15949102-A-G FGC24313 YY+
5577226-C-A 5709185-C-A FGC24290 +
13633047-A-C 11477371-A-C S3202 FGC8047 +
8505239-T-C 8637198-T-C L1406 YY+
15595252-AG-A 13483372-AG-A +
15687479-G-T 13575599-G-T FGC24306 YY*
18554020-A-T 16442140-A-T FGC24314 YY*
15157151-A-G 13045238-A-G FGC24303 YY*
15396465-TAA-T 13284585-TAA-T *
9916034-G-A 10078425-G-A FGC24296 Y*
3624356-G-A 3756315-G-A FGC24287 *
9091998-C-A 9254389-C-A FGC24295 Y*
25688668-G-A 23542521-G-A FGC24323 P1_b3 *
16670487-A-T 14558607-A-T FGC24308 YY*
6020680-T-A 6152639-T-A **
7451388-T-G 7583347-T-G IR1_L **
5537092-A-G 5669051-A-G **
5885114-C-T 6017073-C-T **
5977064-T-C 6109023-T-C **
7311461-T-TTTCC 7443420-T-TTTCC 9×TTCC**
13285040-A-G 11129364-A-G **
13615996-G-A 11460320-G-A **
15475967-G-T 13364087-G-T **
16642010-G-T 14530130-G-T **
16964272-A-C 14852392-A-C **
25024349-T-C 22878202-T-C g1 **
18850244-G-A 16738364-G-A A6465 **
22527713-T-G 20365827-T-G **
22131190-C-A 19969304-C-A **
4848553-G-C 4980512-G-C **
21961282-G-T 19799396-G-T **
4786076-G-A 4918035-G-A **
3942887-T-A 4074846-T-A **
13301571-AT-A 11145895-AT-A 10×T**
13281348-G-A 11125672-G-A **
9519800-CTTTCTT-C 9682191-CTTTCTT-C **
21732678-G-T 19570792-G-T **
9928940-ACAC-A 10091331-ACAC-A **
13289774-A-G 11134098-A-G **
13257494-A-G 11101818-A-G **
13294839-TA-T 11139163-TA-T **
13282007-T-TC 11126331-T-TC **
23437955-A-ATG 21276069-A-ATG 14×TG**
13283601-A-G 11127925-A-G **
17317720-T-TCACACA 15205840-T-TCACACA 23×CA**
13283696-C-T 11128020-C-T **
3832233-AACAC-A 3964192-AACAC-A 22×AC**
19514895-GAA-CAG 17403015-GAA-CAG ***
25246626-A-C 23100479-A-C P2_r1 ***
24751278-C-T 22605131-C-T P3_b2 ***
24869396-G-A 22723249-G-A P3_b2 ***
24919299-G-T 22773152-G-T g1 ***
15477290-TC-AA 13365410-TC-AA ***
25079997-G-A 22933850-G-A g1 ***
25080253-C-A 22934106-C-A g1 ***
14213757-G-GAGAAAGAAAGAA 12093051-G-GAGAAAGAAAGAA 13×AGAA***
25106537-A-T 22960390-A-T g1 ***
25106569-A-C 22960422-A-C g1 ***
25246553-A-C 23100406-A-C P2_r1 ***
25246592-A-T 23100445-A-T P2_r1 ***
22213987-G-T 20052101-G-T ***
24747649-A-G 22601502-A-G P3_b2 ***
25309815-C-T 23163668-C-T P2_r1 ***
13740929-AA-CC 11585253-AA-CC ***
25356594-C-T 23210447-C-T P2_r2 ***
25531152-C-A 23385005-C-A P1_gr1 ***
25606462-C-A 23460315-C-A P1_gr1 ***
13740678-GAC-CAT 11585002-GAC-CAT ***
13740650-CTGG-ATGA 11584974-CTGG-ATGA ***
22173953-G-A 20012067-G-A ***
13734111-GGAAT-AGAAA 11578435-GGAAT-AGAAA ***
25688773-T-G 23542626-T-G P1_b3 ***
58899937-G-GCATTCCATTC 56690904-A-AAATGGAATGG 5×CATTC***
24751255-C-T 22605108-C-T P3_b2 ***
22214014-A-T 20052128-A-T ***
22579992-A-T 20418106-A-T ***
24264586-G-T 22118439-G-T P3_b1 ***
22634818-G-T 20472932-G-T ***
22504843-G-C 20342957-G-C DYZ19 ***
22503129-G-C 20341243-G-C DYZ19 ***
23537546-C-A 21375660-C-A ***
22503118-G-T 20341232-G-T DYZ19 ***
24126593-T-A 21980446-T-A P3_b1 ***
16370646-TAC-AAA 14258766-TAC-AAA ***
24167156-A-C 22021009-A-C P3_b1 ***
24189054-G-C 22042907-G-C P3_b1 ***
24222790-T-C 22076643-T-C P3_b1 ***
24264574-T-C 22118427-T-C P3_b1 ***
24264579-G-A 22118432-G-A P3_b1 ***
24274026-T-A 22127879-T-A P3_b1 ***
22253044-T-C 20091158-T-C DYZ19 ***
24595414-G-T 22449267-G-T P3_t2 ***
22359341-CTG-GTA 20197455-CTG-GTA DYZ19 ***
24600565-C-T 22454418-C-T P3_t2 ***
22502597-T-C 20340711-T-C DYZ19 ***
24600575-A-T 22454428-A-T P3_t2 ***
13722877-AGAATG-A 11567201-AGAATG-A 10×GAATG***
22423930-G-C 20262044-G-C DYZ19 ***
24600598-C-T 22454451-C-T P3_t2 ***
24711165-A-C 22565018-A-C P3_b2 ***
23437960-T-TTC 21276074-T-TTC ***
24747637-T-A 22601490-T-A P3_b2 ***
24747639-C-T 22601492-C-T P3_b2 ***
15799140-CTTCCT-C 13687260-CTTCCT-C ***
13280363-AT-A 11124687-AT-A ***
25964059-T-C 23817912-T-C P1_Y1 ***
58887509-C-T 56703362-G-A ***
58892059-T-G 56698812-A-C ***
27162016-G-A 25015869-G-A P1_g3 ***
27224051-A-G 25077904-A-G P1_g3 ***
27398155-G-C 25252008-G-C P1_g3 ***
27398408-T-A 25252261-T-A P1_g3 ***
27506470-T-A 25360323-T-A P1_Y2 ***
27681386-A-C 25535239-A-C P1_Y2 ***
58887515-C-T 56703356-G-A ***
27691887-T-G 25545740-T-G P1_Y2 ***
27699834-G-A 25553687-G-A P1_Y2 ***
27699878-G-A 25553731-G-A P1_Y2 ***
27712299-T-G 25566152-T-G P1_Y2 ***
27714959-T-A 25568812-T-A P1_Y2 ***
27757708-T-A 25611561-T-A P1_Y2 8×A***
15420132-C-CA 13308252-C-CA 18×A***
58875377-T-C 56715494-A-G ***
27829137-A-T 25682990-A-T P1_Y2 ***
27829139-A-T 25682992-A-T P1_Y2 ***
58863587-C-A 56727284-G-T ***
58863582-C-T 56727289-G-A ***
27839383-A-T 25693236-A-T P1_Y2 ***
27840156-T-A 25694009-T-A P1_Y2 ***
58852972-G-T 56737899-C-A ***
27883313-T-A 25737166-T-A P1_Y2 ***
28454651-T-C 26308504-T-C P1_gr2 ***
28454875-A-T 26308728-A-T P1_gr2 ***
28454879-A-T 26308732-A-T P1_gr2 ***
28477994-A-G 26331847-A-G ***
58823327-C-A 56767544-G-T ***
15574730-CAT-C 13462850-CAT-C 8×AT***
27161988-A-C 25015841-A-C P1_g3 ***
13353698-CA-C 11198022-CA-C ***
26386550-C-T 24240403-C-T P1_Y1 ***
26089808-C-T 23943661-C-T P1_Y1 ***
58831898-G-T 56758973-C-A ***
13253999-GTTGTTTTTT-G 11098323-GTTGTTTTTT-G ***
13252573-TC-GT 11096897-TC-GT ***
10020698-GTC-TTG 10183089-GTC-TTG ***
26101382-T-A 23955235-T-A P1_Y1 ***
9928942-AC-A 10091333-AC-A ***
26215133-T-A 24068986-T-A P1_Y1 ***
8125062-G-GAGAGAAGAGAAGAGA 8257021-G-GAGAGAAGAGAAGAGA 12×AGAGA***
26270284-G-T 24124137-G-T P1_Y1 ***
5219336-A-AGT 5351295-A-AGT 19×GT***
26276032-G-T 24129885-G-T P1_Y1 ***
4389404-CA-C 4521363-CA-C 21×A***
26433572-C-T 24287425-C-T P1_Y1 19×T***
27161976-C-T 25015829-C-T P1_g3 ***
26455998-A-T 24309851-A-T P1_Y1 ***
26479608-C-T 24333461-C-T P1_Y1 ***
26479615-T-C 24333468-T-C P1_Y1 ***
3450499-CT-C 3582458-CT-C 12×T***
26488391-G-A 24342244-G-A P1_Y1 ***
3314369-AC-GT 3446328-AC-GT ***
4005057-G-GT 4137016-G-GT 13×T***
26574613-C-T 24428466-C-T P1_g2 ***
21134925-ATT-A 18973039-ATT-A 22×T***
26834580-G-A 24688433-G-A P1_g2 ***
27095964-A-T 24949817-A-T P1_r4 ***
27151303-A-C 25005156-A-C A3600 P1_g3 25×T***
27151379-A-T 25005232-A-T P1_g3 ***
3128625-C-CA 3260584-C-CA 20×A***
27161975-T-A 25015828-T-A P1_g3 ***
19121890-A-T 17010010-A-T ***
21935010-C-T 19773124-C-T ***
4581693-G-T 4713652-G-T ***
4965027-T-G 5096986-T-G ***
4964099-G-C 5096058-G-C ***
4848577-T-C 4980536-T-C ***
4663256-G-T 4795215-G-T ***
4663235-C-T 4795194-C-T ***
4598072-G-A 4730031-G-A ***
4408209-G-A 4540168-G-A ***
5336710-G-T 5468669-G-T ***
4037358-G-T 4169317-G-T ***
3922475-G-T 4054434-G-T ***
3916942-A-C 4048901-A-C ***
3890014-G-T 4021973-G-T ***
3889999-G-T 4021958-G-T ***
3853790-C-A 3985749-C-A ***
5241091-T-C 5373050-T-C ***
5350103-C-T 5482062-C-T ***
3846997-G-T 3978956-G-T ***
6293255-A-C 6425214-A-C IR3_Dst ***
6874086-G-T 7006045-G-T ***
6867699-C-T 6999658-C-T ***
6539063-A-G 6671022-A-G ***
6523322-G-A 6655281-G-A ***
6523310-A-T 6655269-A-T ***
6381217-T-A 6513176-T-A ***
6264151-G-A 6396110-G-A IR3_Dst ***
5400507-A-G 5532466-A-G ***
6191318-A-T 6323277-A-T IR3_Dst ***
6127292-G-T 6259251-G-T ***
5923482-G-T 6055441-G-T ***
5720930-G-T 5852889-G-T ***
5652196-T-G 5784155-T-G ***
5447902-G-A 5579861-G-A ***
3853775-C-A 3985734-C-A ***
3709219-C-T 3841178-C-T ***
8779535-T-C 8911494-T-C ***
13330238-A-G 11174562-A-G ***
18454881-C-T 16343001-C-T P6_Dst ***
13122177-G-T 10611663-G-T ***
16545644-A-T 14433764-A-T ***
13284919-A-G 11129243-A-G ***
13510943-T-C 11355267-T-C ***
3443749-T-C 3575708-T-C ***
13277874-T-C 11122198-T-C ***
13286614-C-T 11130938-C-T ***
26386507-G-A 24240360-G-A P1_Y1 ***
6468926-TA-T 6600885-TA-T 28×A***
9522033-T-C 9684424-T-C ***
19129793-T-TA 17017913-T-TA 13×A***
22504857-G-T 20342971-G-T DYZ19 ***
6699020-AT-A 6830979-AT-A 24×T***
19143143-G-T 17031263-G-T ***
13385752-T-G 11230076-T-G ***
3385532-C-T 3517491-C-T ***
2930054-G-T 3062013-G-T ***
3314370-C-T 3446329-C-T A3657 ***
3271523-A-T 3403482-A-T ***
3036358-G-A 3168317-G-A ***
3036340-G-T 3168299-G-T ***
2979312-G-T 3111271-G-T ***
2974886-G-A 3106845-G-A ***
2909278-G-T 3041237-G-T ***
3214873-T-C 3346832-T-C ***
2909274-G-T 3041233-G-T ***
2783715-T-A 2915674-T-A ***
2783705-G-A 2915664-G-A ***
58853194-A-T 56737677-T-A ***
10020674-A-G 10183065-A-G ***
5943666-G-C 6075625-G-C ***
7136245-C-A 7268204-C-A 14×A***
9404608-G-T 9566999-G-T ***
21726008-G-A 19564122-G-A ***
19121886-A-T 17010006-A-T ***
19345128-T-A 17233248-T-A 18×A***
19339971-T-C 17228091-T-C ***
19187423-G-C 17075543-G-C ***
19173664-G-T 17061784-G-T ***
19121899-A-T 17010019-A-T 8×T***
22505086-A-T 20343200-A-T DYZ19 ***
18976645-A-G 16864765-A-G ***
19500653-A-C 17388773-A-C FGC19967 Y6164 ***
18972035-A-G 16860155-A-G ***
18890400-T-A 16778520-T-A ***
18744169-G-T 16632289-G-T ***
18687641-C-T 16575761-C-T ***
18615997-G-T 16504117-G-T ***
18596015-G-T 16484135-G-T ***
19488980-C-A 17377100-C-A ***
19803584-T-C 17691704-T-C P5_Prx ***
18517437-T-C 16405557-T-C P6_Dst ***
20871509-T-C 18709623-T-C P4_Dst ***
21527494-A-T 19365608-A-T ***
21510404-A-T 19348518-A-T ***
21435142-G-A 19273256-G-A ***
21412299-C-A 19250413-C-A ***
21412247-A-T 19250361-A-T ***
21362984-T-A 19201098-T-A A10936 ***
20826415-G-T 18664529-G-T P4_Gap ***
20066065-T-C 17954185-T-C P5_Gap ***
20570096-A-C 18408210-A-C P5_Dst ***
20438861-G-C 18276975-G-C P5_Dst ***
20420642-C-G 18258756-C-G P5_Dst ***
20355129-C-A 18193243-C-A P5_Dst ***
20333803-G-A 18171917-G-A P5_Dst ***
20066877-T-A 17954997-T-A P5_Dst ***
18531189-G-C 16419309-G-C P6_Dst ***
18278163-C-A 16166283-C-A P6_Prx ***
9420100-T-A 9582491-T-A ***
13289813-T-A 11134137-T-A ***
14959560-A-C 12847635-A-C ***
13740966-A-T 11585290-A-T ***
13701971-C-A 11546295-C-A ***
13385674-T-A 11229998-T-A ***
13353756-T-C 11198080-T-C A3797 ***
13291789-A-C 11136113-A-C ***
13289791-G-A 11134115-G-A 8×A***
16612589-A-C 14500709-A-C ***
13271055-G-A 11115379-G-A ***
10026775-T-C 10189166-T-C ***
9836952-C-T 9999343-C-T ***
9654410-G-A 9816801-G-A IR3_Prx ***
9654394-G-A 9816785-G-A IR3_Prx ***
9420112-G-T 9582503-G-T ***
15253059-C-T 13141145-C-T ***
16743082-G-T 14631202-G-T ***
18106375-G-A 15994495-G-A ***
17994649-C-A 15882769-C-A P7_Prx ***
18082998-C-A 15971118-C-A 10×A***
18082996-C-A 15971116-C-A ***
18082972-C-A 15971092-C-A ***
18082932-G-T 15971052-G-T ***
18008975-C-T 15897095-C-T P7_Dst ***
18008888-G-A 15897008-G-A P7_Dst ***
17791329-C-T 15679449-C-T ***
16849841-G-A 14737961-G-A ***
17597187-G-T 15485307-G-T ***
17459495-A-C 15347615-A-C ***
17283151-C-A 15171271-C-A ***
17283141-G-C 15171261-G-C ***
17250030-T-A 15138150-T-A ***
17030655-G-T 14918775-G-T ***
59017771-AAAAAAAAAT-TTAA 56871624-AAAAAAAAAT-TTAA ***

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.

Age Analysis Information (work in progress)

AllMcDonaldYFull
Kit: HQSXY*16000000100000008300000
Used in age calculations16000000100000008300000
Counts of SNPs2622
Variant counts last updated 2017-11-13 20:49:55.

* BED data not available. Using default values.


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