The New Base of the Human Y Chromosome Phylogeny                                                  Key:    Private clade, so far   Notes

The structure of this tree is in large part derived from the work of Thomas Krahn, as seen at http://ytree.ftdna.com/

Y  Human Root
•    A00  L1086, L1087, L1088,L1091, L1092, L1094, L1096, L1097, L1102, L1103, L1104, L1106, L1107, L1108,L1109, L1110, L1111, L1113, L1114, L1115, L1117, L1119, L1122, L1126, L1131, L1133, L1134, L1138, L1139, L1140, L1141, L1144, L1146, L1147, L1148, L1151, L1152,L1154, L1156, L1157, L1158, L1159, L1160, L1161, L1163, L1233, L1234, L1236,AF4, AF5, AF6, AF7, AF8, AF9, AF10, AF13
•    •    A00a L1100, L1149 – only known so far in Perry family
•    A0-T   L1085, L1089, L1090, L1093,L1095, L1098, L1099, L1101, L1105, L1116, L1118, L1120, L1121, L1123, L1124,L1125, L1127, L1128, L1129, L1130, L1132, L1135, L1136, L1137, L1142, L1143,L1145, L1150, L1155, L1235, AF3
•   •    A0-T*  -
•   •    A0  V148, V149, V154, V157, V165, V166, V167,V172, V173, V177, V190, V196, V223, V225, V229, V233, V239, L529.2, L896,L982, L984, L990, L991, L993, L995, L997, L998, L999, L1000, L1001, L1006, L1008, L1010, L1012, L1016,L1018, L1055
•   •    •   A0*  -
•   •    •   A0a  L979, L980, L987, L996, L1011, L1015, L1017
•   •   •    •   A0a* -
•   •   •    •   A0a1 V150, V153, V157, V158, V159, V162, V164, V170, L1070, L1072, L1073,L1075, L1076, L1078, L1079, L1080, L1081, L1082
•   •   •   •   •   A0a1*  -
•   •   •   •   •   A0a1a  V151, V181,V195
•   •   •   •   •   •    A0a1a1   P114, V161.1, V169
•   •   •   •   •   A0a1b  L1289
•   •   •    •   A0a2 L981, L983, L988, L994, L1007, L1014, V203
•   •    •   A0b L92.2, L1035, L1036, L1037, L1038, L1039, L1040, L1041,L1042, L1043, L1044, L1045, L1046, L1047, L1048, L1049, L1050, L1051, L1052,L1054, L1056, L1057, L1058
•    •    A1  P305, V161.2,V168, V171, V174, V238, V241, V250, L985, L986, L989, L1002, L1003, L1004, L1005, L1009, L1013, L1053, L1084,L1112, L1153 
•   •    A1*   -
•   •    A1a   M31, P82,V4, V14, V15, V25, V26, V28, V30, V40, V48, V57, V58, V63, V76, V191, V201,V204, V215
•   •   •    A1a* -
•   •   •    A1a1 V53, V214,V236 – only known so far in one Scozzari/Cruciani sample
•   •    A1b   P108, V221
•   •    •    A1b*   -
•   •    •    A1b1   L419/PF712
•   •    •   •    A1b1*   -
•   •    •   •    A1b1a   L602, M276, V50,V82, V198, V224
•   •    •   •   •    A1b1a*   -
•   •    •   •   •    A1b1a1 [old A2]  M14, M276/P247, M277/P248, P36.1 [M23, L968/M29/P3/PN3, M71, M135, M141, M206, MEH1, P4, P5, Page71,Page87, Page95, V60, V61, V70, V72, V79,V80, V81, V97, V139.1, V141, V180, V188, V192, V200, V218.1, V228, V242, L949,L950, L951, L952, L954, L955, L956, L958, L959, L961, L964, L965, L966, L968,L973, L974, L975, L976] not yet known whether these italicized SNPs are here at A1b1a1, or possibly at A1b1a1a; they are provisionally shown at this node*
•   •    •   •   •   •    A1b1a1*   -
•   •    •   •   •   •    A1b1a1a   M6,M49/Page41, M196*
•   •    •   •   •   •    •    A1b1a1a*   -
•   •    •   •   •   •    •    A1b1a1a1    P28
•   •    •   •   •   •    •    A1b1a1a2   L963
•   •    •   •   •   •    •   •    A1b1a1a2*   -
•   •    •   •   •   •    •   •    A1b1a1a2a M114, M212
•   •    •   •   •   •    •   •    A1b1a1a2b  P262
•   •    •   •   •    A1b1a2  L600, L601, L603, L1202, L1203, L1204, L1205,L1206, L1207, L1208, L1209, L1210, L1211, L1212, L1213, L1214, L1215, L1216, L1217, L1218, L1219, L1221, L1222, L1223 -- only known so far in kit 181787, Gage.
•   •    •   •    A1b1b   [old A3] M32, P289/PF1372, V1, V194, V230
•   •    •   •   •    A1b1b*   -
•   •    •   •   •    A1b1b1   M28
•   •    •   •   •    A1b1b2   L427, L430, M144,M190/Page35, M220, M305/Page17, Page50, PF1369/V51, PF1371/V56, V98, V156, V160
•   •    •   •   •   •    A1b1b2*   -
•   •    •   •   •   •    A1b1b2a   M51/Page42, M229, M239, P100, V2, V33, V34, V262, V265, V303, V304, V313, V314
•   •    •   •   •   •    •    A1b1b2a*   -
•   •    •   •   •   •    •    A1b1b2a1 P291
•   •   •   •    •  •    •    •    A1b1b2a1a  P102
•   •    •   •   •   •    A1b1b2b [old A3b2]  M13,M63, M127, M202, M219, Page53, Page77/V10, PF1358/V193, PF1359/V89, PF1367/V243, PF1370/V66, V155, V305
•   •    •   •   •   •    •    A1b1b2b*   -
•   •    •   •   •   •    •    A1b1b2b1   M118
•   •   •   •   •   •    •    A1b1b2b2   L273.2, L274.2, L412, L420, L422, L423, L424,L425, L426, L428, L429, L437, L441, L1059 – only known so far in kit 176787, Panossian. 
•   •    •    BT   L413,L418, L438, L440, L604, L957, L962, L969, L970, L971, L977, L1060, L1016, L1062,M42, M91, M94, M139, M299, P97, Page65.1/SRY1532.1/SRY10831.1, V29, V31, PF1411/V59, PF1412/V64, V102, V187, V202, V235 -- Note that BT takes the place in the phylogeny that would otherwise be known as A1b2.

Many Geno 2.0 SNPs are not yet being placed on the tree becauseof insufficient data of unknown quality.

* Batini, 2011, found five Baka Pygmy samples that were negative for M6, M49, and M196, but positive for P36, P247, P248, M206, and M14.