Hinxton

aDNA: HI2

Tree Position

R-P312/S116 > Z290 > L21/S145 > DF13 > DF21/S192 > Z30233 > FGC3903/S5201 > S5199 > Z246 > Exact position not yet finalized.

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 STRaDNA
HI2		Manual
Edits
22864065-GAC-G 20702179-GAC-G 12×AC+
17379649-C-T 15267769-C-T Y+
17708150-G-GT 15596270-G-GT +
17672961-C-T 15561081-C-T YY+
17658910-G-A 15547030-G-A YY+
17636876-C-CTT 15524996-C-CTT +
17499914-C-A 15388034-C-A Y+
17481883-G-T 15370003-G-T Y+
17436800-A-G 15324920-A-G YY+
17382275-C-T 15270395-C-T PF4169 Y+
17344507-C-T 15232627-C-T YY+
17766511-G-C 15654631-G-C YY+
17305224-A-G 15193344-A-G YY+
17236391-C-A 15124511-C-A YY+
17171437-C-CTG 15059557-C-CTG +
17144624-T-C 15032744-T-C YY+
16930711-C-A 14818831-C-A Y+
16874931-G-A 14763051-G-A YY+
16758110-T-C 14646230-T-C YY+
16736171-C-A 14624291-C-A YY+
17748547-G-A 15636667-G-A YP1263 YY+
17801393-C-T 15689513-C-T YY+
16661337-G-A 14549457-G-A YY+
18699862-G-A 16587982-G-A FGC55545 YY+
18981432-C-CAT 16869552-C-CAT +
18957033-A-G 16845153-A-G YY+
18917093-A-G 16805213-A-G YY+
18887540-A-G 16775660-A-G YY+
18841694-G-A 16729814-G-A YY+
18812369-G-A 16700489-G-A YY+
18810875-C-T 16698995-C-T YY+
18788271-A-G 16676391-A-G YY+
18607257-CTG-C 16495377-CTG-C +
17928128-C-T 15816248-C-T YY+
18571407-C-T 16459527-C-T YY+
18257358-T-C 16145478-T-C +
18178101-GA-G 16066221-GA-G +
18112776-T-C 16000896-T-C YY+
18035203-G-C 15923323-G-C YY+
17947683-C-T 15835803-C-T YY+
17946483-G-A 15834603-G-A YY+
17928162-T-C 15816282-T-C YY+
16667931-G-A 14556051-G-A YY+
16613341-T-C 14501461-T-C YY+
19006799-T-C 16894919-T-C YY+
15310406-G-T 13198511-G-T YY+
15566445-A-G 13454565-A-G YY+
15550161-G-A 13438281-G-A YY+
15550152-C-T 13438272-C-T YY+
15511780-C-T 13399900-C-T YY+
15427864-A-C 13315984-A-C YY+
15420518-C-T 13308638-C-T YY+
15403809-G-T 13291929-G-T YY+
15359733-C-T 13247853-C-T YY+
15178545-C-T 13066631-C-T Y+
15580600-G-A 13468720-G-A YY+
15059443-C-T 12947535-C-T YY+
15016872-G-C 12904961-G-C YY+
15004544-C-T 12892629-C-T YY+
14974762-T-C 12862837-T-C YY+
14906578-G-A 12794645-G-A YY+
14553345-G-C 12441546-G-C YY+
14538080-C-G 12426281-C-G YY+
14538055-C-A 12426256-C-A YY+
15580583-A-G 13468703-A-G YY+
15654556-T-C 13542676-T-C YY+
16607914-C-T 14496034-C-T YY+
16238528-C-G 14126648-C-G YY+
16544628-G-A 14432748-G-A YY+
16462516-G-T 14350636-G-T YY+
16385129-C-A 14273249-C-A YY+
16350540-A-T 14238660-A-T YY+
16342565-GA-G 14230685-GA-G +
16342563-G-A 14230683-G-A YY+
16292242-C-T 14180362-C-T YY+
16280707-G-C 14168827-G-C YY+
16234890-C-T 14123010-C-T YY+
15732006-T-C 13620126-T-C YY+
16227957-G-A 14116077-G-A YY+
16086055-C-T 13974175-C-T Y+
16048325-C-T 13936445-C-T Y+
15967025-C-T 13855145-C-T YY+
15956459-G-T 13844579-G-T YY+
15913010-T-C 13801130-T-C YY+
15878467-C-T 13766587-C-T YY+
15744757-G-A 13632877-G-A YY+
18989376-C-T 16877496-C-T Y+
19053959-A-AG 16942079-A-AG +
14516061-G-A 12404262-G-A Y91621 YY+
23234909-A-G 21073023-A-G Y+
23606319-T-C 21444433-T-C YY+
23606318-G-A 21444432-G-A YY+
23602560-C-G 21440674-C-G Y+
23543844-T-TA 21381958-T-TA +
23500836-G-T 21338950-G-T YY+
23499963-T-TA 21338077-T-TA +
23454169-C-T 21292283-C-T YY+
23345945-C-T 21184059-C-T YY+
23195985-A-T 21034099-A-T Y+
23616536-A-AC 21454650-A-AC +
23195090-A-G 21033204-A-G Y+
23144690-G-A 20982804-G-A YY+
23006857-G-A 20844971-G-A Y+
23003544-G-C 20841658-G-C YY+
22938580-T-C 20776694-T-C YY+
22859887-T-C 20698001-T-C YY+
22859653-G-GCA 20697767-G-GCA +
22751276-G-A 20589390-G-A YY+
23616450-G-C 21454564-G-C YY+
23771239-C-T 21609353-C-T Y+
22700283-C-T 20538397-C-T YY+
24874493-G-A 22728346-G-A g1 +
58993621-G-T 56847474-G-T +
28812911-G-A 26666764-G-A +
28785447-G-A 26639300-G-A +
28693937-C-G 26547790-C-G +
28607007-G-C 26460860-G-C +
28607006-C-CA 26460859-C-CA +
28575634-A-AG 26429487-A-AG +
25080046-C-G 22933899-C-G g1 +
24513452-A-G 22367305-A-G +
23877318-G-T 21715432-G-T +
24509786-G-C 22363639-G-C +
24482216-G-A 22336069-G-A +
24453948-G-C 22307801-G-C Y+
24450666-T-TAC 22304519-T-TAC +
24444437-C-T 22298290-C-T Y80728 Y+
24428946-T-C 22282799-T-C Y+
24377735-A-AAG 22231588-A-AAG +
24071598-A-AG 21925451-A-AG P3_b1 +
22714215-G-A 20552329-G-A Y+
22627483-C-T 20465597-C-T YY+
19076871-TC-T 16964991-TC-T +
21302004-T-C 19140118-T-C YY+
21637184-C-T 19475298-C-T FGC50339 YY+
21574280-C-T 19412394-C-T Y+
21571133-G-C 19409247-G-C YY+
21570706-G-A 19408820-G-A YY11×A+
21568232-A-G 19406346-A-G YY+
21386042-G-T 19224156-G-T YY+
21373956-A-G 19212070-A-G YY+
21321105-G-T 19159219-G-T Y+
21275211-C-T 19113325-C-T Y+
21664559-G-A 19502673-G-A YY+
21263120-C-T 19101234-C-T YY+
21250274-G-A 19088388-G-A BY30688 Y76058 YY+
20065737-C-G 17953857-C-G P5_Gap +
19423419-A-G 17311539-A-G YY+
19382485-CTA-C 17270605-CTA-C +
19290143-GA-G 17178263-GA-G +
19158141-C-T 17046261-C-T YY+
19121317-T-C 17009437-T-C YY+
21664223-G-A 19502337-G-A YY+
21667853-C-A 19505967-C-A YY+
22575383-G-T 20413497-G-T YY+
22099490-A-ATG 19937604-A-ATG +
22552605-G-A 20390719-G-A YY+
22479103-G-C 20317217-G-C DYZ19 +
22442416-TC-T 20280530-TC-T DYZ19 +
22299853-G-A 20137967-G-A DYZ19 +
22299839-T-C 20137953-T-C DYZ19 +
22210960-C-T 20049074-C-T Y+
22202391-A-G 20040505-A-G YY+
22103250-A-G 19941364-A-G YY+
22017786-G-A 19855900-G-A Y+
21674326-T-C 19512440-T-C YY+
21993318-A-C 19831432-A-C YY+
21993288-C-T 19831402-C-T YY+
21903293-G-A 19741407-G-A YY+
21884220-G-GA 19722334-G-GA +
21874903-G-A 19713017-G-A YY+
21872757-G-C 19710871-G-C YY+
21803459-T-A 19641573-T-A Y+
21791510-G-A 19629624-G-A Y+
21681946-A-G 19520060-A-G YY+
14521503-G-T 12409704-G-T YY+
15775844-C-T 13663964-C-T Y+
14464476-T-G 12343749-T-G YY+
7566596-G-A 7698555-G-A YY+
7980442-G-T 8112401-G-T YY+
7959720-A-G 8091679-A-G YY+
7821289-G-A 7953248-G-A YY+
7757086-A-G 7889045-A-G YY+
7630396-G-A 7762355-G-A Y+
7571199-A-AT 7703158-A-AT +
7562393-T-C 7694352-T-C YY+
14404645-G-T 12283942-G-T YY+
7143766-C-T 7275725-C-T Y+
7040962-A-G 7172921-A-G Y+
7031404-C-T 7163363-C-T Y+
6952205-A-G 7084164-A-G YY+
6944457-C-T 7076416-C-T YY+
6906070-G-C 7038029-G-C YY+
6788598-A-G 6920557-A-G YY+
7990837-G-A 8122796-G-A Y+
8021955-A-G 8153914-A-G YY+
6699911-C-T 6831870-C-T YY+
8413617-G-A 8545576-G-A YY+
8769838-T-C 8901797-T-C YY+
8747535-G-A 8879494-G-A YY+
8735754-A-G 8867713-A-G Y+
8714468-G-A 8846427-G-A YY+
8661333-C-T 8793292-C-T Y+
8504715-G-T 8636674-G-T YY+
8475160-C-T 8607119-C-T YY+
8305915-G-GGA 8437874-G-GGA +
8029356-C-T 8161315-C-T YY+
8237359-C-T 8369318-C-T YY+
8223313-G-A 8355272-G-A YY+
8189692-T-C 8321651-T-C YY+
8161829-G-T 8293788-G-T YY+
8155870-T-C 8287829-T-C YY+
8126060-G-A 8258019-G-A YY+
8046202-C-T 8178161-C-T YY+
6700713-G-A 6832672-G-A YY+
6678401-A-G 6810360-A-G YY+
8799190-T-G 8931149-T-G YY+
2696312-A-G 2828271-A-G YY+
2822611-A-G 2954570-A-G YY+
2799483-C-T 2931442-C-T YY+
2790729-T-A 2922688-T-A Y+
2746337-C-A 2878296-C-A YY+
2719584-G-A 2851543-G-A YY+
2707623-TG-T 2839582-TG-T +
21741134-ATG-A 19579248-ATG-A +
2883560-C-T 3015519-C-T YY+
21055821-G-A 18893935-G-A Z11849 M8864 Y+
17274967-T-C 15163087-T-C YY+
6008275-C-T 6140234-C-T +
58967813-A-G 56821666-A-G +
16635364-TAC-T 14523484-TAC-T +
13579340-C-T 11423664-C-T +
13241656-G-A 11085980-G-A +
2859095-G-A 2991054-G-A YY+
2884603-C-G 3016562-C-G YY+
6661496-G-C 6793455-G-C YY+
4841581-C-T 4973540-C-T +
6406420-C-T 6538379-C-T +
6012582-C-T 6144541-C-T +
5388156-C-A 5520115-C-A +
5388134-C-T 5520093-C-T +
5122043-T-C 5254002-T-C +
4974766-A-G 5106725-A-G +
4920211-T-TA 5052170-T-TA +
4768125-T-C 4900084-T-C +
2906146-A-G 3038105-A-G YY+
4077578-T-TA 4209537-T-TA +
4057943-G-A 4189902-G-A +
4040853-G-C 4172812-G-C +
3635870-G-A 3767829-G-A +
3587014-T-C 3718973-T-C +
3528651-C-G 3660610-C-G +
3251283-T-C 3383242-T-C +
8779524-T-C 8911483-T-C YY+
7990844-G-A 8122803-G-A Y+
59008426-T-A 56862279-T-A +
9841525-A-AG 10003916-A-AG +
14094516-C-T 11973810-C-T YY+
9397457-C-A 9559848-C-A YY+
9404282-A-T 9566673-A-T YY+
14027609-T-C 11906903-T-C YY+
14012424-G-T 11891718-G-T Y+
10068205-A-G 10230596-A-G +
13885749-C-G 11765043-C-G Y+
13867214-A-AG 11746508-A-AG +
13815970-G-A 11695264-G-A +
9812448-C-G 9974839-C-G YY+
9824829-T-C 9987220-T-C Y+
13671281-G-A 11515605-G-A +
13629569-G-GA 11473893-G-GA +
13600274-CG-C 11444598-CG-C +
9135108-C-T 9297499-C-T Y+
9849516-T-C 10011907-T-C YY+
13483025-C-T 11327349-C-T +
13483018-A-C 11327342-A-C +
13472741-G-A 11317065-G-A +
9849540-G-T 10011931-G-T YY+
9862212-G-A 10024603-G-A YY+
9884085-T-C 10046476-T-C YY+
13372528-TA-T 11216852-TA-T +
13340639-A-AG 11184963-A-AG +
9886615-G-A 10049006-G-A YY+
9907162-G-A 10069553-G-A Y+
9946411-A-G 10108802-A-G Y+
13135799-G-T 10625285-G-T +
9395601-G-A 9557992-G-A YY+
10042606-C-T 10204997-C-T +
14104704-A-T 11983998-A-T YY+
8846009-G-T 8977968-G-T YY+
9120087-G-A 9282478-G-A Y+
8912835-G-T 9044794-G-T +
14229082-G-A 12108376-G-A YY+
14313359-T-C 12192653-T-C YY+
14147630-A-G 12026924-A-G YY+
9043583-C-T 9205974-C-T Y+
9039965-G-GTA 9202356-G-GTA +
8816469-G-A 8948428-G-A Y+
14104992-T-C 11984286-T-C YY+
13799201-G-A 11678495-G-A *
14924893-GCT-G 12812958-GCT-G *
13469179-A-G 11313503-A-G *
13651361-A-G 11495685-A-G *
13815598-G-C 11694892-G-C *
13651353-G-A 11495677-G-A *
13651374-G-A 11495698-G-A *
14709461-TTAG-T 12597528-TTAG-T *
13254897-A-G 11099221-A-G *
13469187-G-T 11313511-G-T *
15867109-C-G 13755229-C-G YY*
14374305-G-T 12253601-G-T YY*
13815607-A-T 11694901-A-T *
13448440-ATTCCG-A 11292764-ATTCCG-A *
58996050-C-T 56849903-C-T *
22166120-T-C 20004234-T-C YY*
13254928-G-A 11099252-G-A *
22020731-C-G 19858845-C-G YY*
22784414-A-G 20622528-A-G YY*
59020799-C-A 56874652-C-A *
22798665-A-ATGG 20636779-A-ATGG *
23423835-T-C 21261949-T-C YY*
59028802-CT-C 56882655-CT-C *
58986167-T-A 56840020-T-A *
13470052-C-T 11314376-C-T *
23572933-A-ATG 21411047-A-ATG *
23554507-G-A 21392621-G-A YY*
59017641-G-T 56871494-G-T *
23622158-C-G 21460272-C-G YY*
23525139-A-T 21363253-A-T YY*
59017634-G-A 56871487-G-A *
58980604-C-G 56834457-C-G *
58973597-T-C 56827450-T-C *
28794584-T-A 26648437-T-A S3116 *
15271458-A-G 13159547-A-G YY*
15510937-A-G 13399057-A-G YY*
23312390-G-T 21150504-G-T YY*
23240785-TG-T 21078899-TG-T *
24385555-C-T 22239408-C-T *
23969528-G-A 21823381-G-A F26535 Y*
15390680-C-T 13278800-C-T YY*
23193541-A-AAC 21031655-A-AAC *
13860052-A-C 11739346-A-C *
23031223-C-G 20869337-C-G YY*
13834727-A-AG 11714021-A-AG *
13834710-T-C 11714004-T-C *
15510919-A-G 13399039-A-G YY*
22863205-A-G 20701319-A-G YY*
15240957-A-T 13129043-A-T Y*
17416665-C-T 15304785-C-T YY*
15973955-C-T 13862075-C-T YY*
16803652-C-T 14691772-C-T YY*
16985861-C-A 14873981-C-A YY*
18674641-G-C 16562761-G-C YY*
18695009-C-G 16583129-C-G YY*
16985856-G-A 14873976-G-A YY*
18773415-G-T 16661535-G-T YY*
8212547-C-T 8344506-C-T Y138924 YY*
8076402-AC-A 8208361-AC-A *
18413673-A-AGT 16301793-A-AGT P6_Gap *
18938996-GC-G 16827116-GC-G *
18964200-T-C 16852320-T-C YY*
18964214-C-A 16852334-C-A YY*
18980581-T-A 16868701-T-A YY*
16717831-G-GGT 14605951-G-GGT *
8018865-TG-T 8150824-TG-T *
17091175-G-A 14979295-G-A YY*
18391767-C-T 16279887-C-T P6_Gap *
19092135-A-T 16980255-A-T YY*
8675888-C-A 8807847-C-A YY*
8790607-C-CA 8922566-C-CA *
17499390-CAG-C 15387510-CAG-C *
8827039-A-G 8958998-A-G YY*
17367601-G-A 15255721-G-A YY*
8868846-T-TTC 9000805-T-TTC *
8886158-A-ACG 9018117-A-ACG *
17181408-TA-T 15069528-TA-T *
8378512-CA-C 8510471-CA-C *
8636922-G-C 8768881-G-C YY*
8588958-CA-C 8720917-CA-C *
17181406-C-A 15069526-C-A YY*
8447419-A-G 8579378-A-G YY*
8426002-AAG-A 8557961-AAG-A *
8416865-C-CTG 8548824-C-CTG *
16653767-C-T 14541887-C-T Y*
19092137-C-G 16980257-C-G YY*
6767509-G-C 6899468-G-C YY*
7232387-C-T 7364346-C-T YY*
7729811-G-A 7861770-G-A YY*
16413950-A-T 14302070-A-T YY*
16402777-A-AAC 14290897-A-AAC *
21433759-C-T 19271873-C-T YY*
21568978-G-A 19407092-G-A Y56920 YY*
21569030-CCA-C 19407144-CCA-C *
7232382-T-C 7364341-T-C YY*
21226510-G-T 19064624-G-T YY*
7127860-C-G 7259819-C-G Y*
17434775-G-A 15322895-G-A YY*
6956360-T-C 7088319-T-C YY*
6884334-AG-A 7016293-AG-A *
10021572-C-CTG 10183963-C-CTG *
6783097-C-T 6915056-C-T YY*
7745029-A-G 7876988-A-G YY*
21226509-C-T 19064623-C-T YY*
19092141-A-G 16980261-A-G YY*
19362110-T-C 17250230-T-C YY*
9647788-A-G 9810179-A-G IR3_Prx *
9793593-T-TAG 9955984-T-TAG *
19203289-G-A 17091409-G-A YY*
19266942-G-A 17155062-G-A YY*
19272933-C-A 17161053-C-A YY*
7942732-A-AAC 8074691-A-AAC *
7936416-C-A 8068375-C-A YY*
21187579-A-G 19025693-A-G Y*
19417093-AT-A 17305213-AT-A *
7926211-C-T 8058170-C-T YY*
19550539-T-C 17438659-T-C YY*
7905277-T-C 8037236-T-C YY*
20831294-T-C 18669408-T-C P4_Gap *
21173239-TC-T 19011353-TC-T *
6956385-T-C 7088344-T-C YY*

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.

Mutation Notes:

Kit POSITION-REF-ALT (hg19) POSITION-REF-ALT (hg38) Note
Manual9129841-T-G9292232-T-G1G
Manual22304315-A-G20142429-A-G7A 1G
Manual27862535-TGAGA-T25716388-TGAGA-TJust one read with sufficient coverage, and it has the 4bp deletion.
Manual22280455-A-G20118569-A-G4A 1G
Manual18157337-C-T16045457-C-T4T
Manual13370806-G-A11215130-G-A1A 1G. The read with G has a 'C' at position 13370797.


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