Aedes aegypti from Yogyakarta, Indonesia collected in 2011 and 2012
ddRADseq as described in PMID: 24726019; use the following information to demultiplex samples from files (e.g. using the program ddemux described in PMID: 24726019)  # read, barcode number, "barcode sequence"  Barcodes:  1, 1,  "CATG"  1, 2,  "TGCA"  1, 3,  "ACGT"  1, 4,  "GTAC"  1, 5,  "CTAG"  1, 6,  "AGCT"  1, 7,  "TCGA"  1, 8,  "GATC"  1, 9,  "ACGCT"  1, 10, "GGTTG"  1, 11, "ACAGTG"  1, 12, "GAGTGG"  1, 13, "GCCAAT"  1, 14, "CCAACA"  1, 15, "CTGTAA"  1, 16, "AGTTCCA"  1, 17, "TATAATG"  1, 18, "TACAGCA"  1, 19, "CGATGTA"  1, 20, "GGTAGCA"  2, 1,  "CATG"  2, 2,  "TGCA"  2, 3,  "ACGT"    # read 1 barcode number, read 2 barcode number, sample name  # For example:  # 5, 3, In501  # specifies that the combination of barcode 5 on read 1 AND barcode 3 on read 2   # defines the sample In501.    Runs In11In12-1 and In11In12-1b  Samples:  1, 1, 1007-11  2, 1, 1023-11  3, 1, 1051-11  4, 1, 1025-11  5, 1, 1428-12  6, 1, 1462-12  7, 1, 1478-12  8, 1, 1426-12  9, 1, 1096-11  10, 1, 1425-12  11, 1, 1457-12  12, 1, 1464-12  13, 1, 1453-12  14, 1, 1073-11  15, 1, 1034-11  16, 1, 1404-12  17, 1, 1362-12  18, 1, 1436-12  19, 1, 1466-12  20, 1, 1375-12  1, 2, 1083-11  2, 2, 1057-11  3, 2, 1080i-12  4, 2, 1348-12  5, 2, 1353-12  6, 2, 1491-12  7, 2, 1011-11  8, 2, 1461-12  9, 2, 1073i-12  10, 2, 1057-12  11, 2, 1086-11  12, 2, 1312-12  13, 2, 1323-12  14, 2, 1047-11  15, 2, 1421-12  16, 2, 1037-11  17, 2, 1040-11  18, 2, 1061i-12  19, 2, 1359-12  20, 2, 1020-11  1, 3, 1080-11  2, 3, 1061-11  3, 3, 1083-12  4, 3, 1097-12  5, 3, 1494-12  6, 3, 1098-11  7, 3, 1490-12  8, 3, 1419-12  9, 3, 1031-11  10, 3, 1051i-12  11, 3, 1431-12  12, 3, 1096-12  13, 3, 1086-12  14, 3, 1017-11  15, 3, 1383-12  16, 3, 1345-12  17, 3, 1047-12  18, 3, 1483-12  19, 3, 1405-12  20, 3, 1304-12    Run In11In12-2  Samples:  1, 1, 17-11  2, 1, 76-11  3, 1, 132-11  4, 1, 154-11  5, 1, 578i-12  6, 1, 186-11  7, 1, 143-11  8, 1, 194-12  9, 1, 582i-12  10, 1, 556i-12  11, 1, 568i-12  12, 1, 141-11  13, 1, 597-11  14, 1, 132-12  15, 1, 194-11  16, 1, 3-11  17, 1, 25-11  18, 1, 548-12  19, 1, 68-12  20, 1, 8-12  1, 2, 557i-12  2, 2, 31-11  3, 2, 526-12  4, 2, 86-11  5, 2, 96-12  6, 2, 567-11  7, 2, 17-12  8, 2, 588-11  9, 2, 51-11  10, 2, 582-11  11, 2, 198-12  12, 2, 536-12  13, 2, 164-11  14, 2, 583-12  15, 2, 561-11  16, 2, 67-11  17, 2, 163-12  18, 2, 76-12  19, 2, 583-11  20, 2, 560-11  1, 3, 40-12  2, 3, 65-11  3, 3, 154-12  4, 3, 534i-12  5, 3, 562-12  6, 3, 598-12  7, 3, 185-12  8, 3, 57-12  9, 3, 520-12  10, 3, 144-12  11, 3, 142-12  12, 3, 198-11  13, 3, 6-11  14, 3, 85-12  15, 3, 3-12  16, 3, 524-12  17, 3, 25-12  18, 3, 578-11  19, 3, 551-12  20, 3, 527-12    Run In11In12-3  Samples:  1, 1, 502i-12  2, 1, 728i-12  3, 1, 703-11  4, 1, 772i-12  5, 1, 917-11  6, 1, 559i-12  7, 1, 766-12  8, 1, 925-11  9, 1, 735i-12  10, 1, 710-11  11, 1, 928-12  12, 1, 917i-12  13, 1, 726-11  14, 1, 39-11  15, 1, 31-12  16, 1, 737-12  17, 1, 730i-12  18, 1, 728-11  19, 1, 550i-12  20, 1, 716-11  1, 2, 735-11  2, 2, 794-12  3, 2, 96-11  4, 2, 726-12  5, 2, 716i-12  6, 2, 759-12  7, 2, 778-11  8, 2, 773i-12  9, 2, 782i-12  10, 2, 707-11  11, 2, 948-12  12, 2, 926-12  13, 2, 759-11  14, 2, 704i-12  15, 2, 707-12  16, 2, 910-11  17, 2, 948-11  18, 2, 730-11  19, 2, 931-11  20, 2, 782-11  1, 3, 931-12  2, 3, 714-11  3, 3, 724-11  4, 3, 766-11  5, 3, 778-12  6, 3, 731-11  7, 3, 943-11  8, 3, 925i-12  9, 3, 724i-12  10, 3, 794-11  11, 3, 757-11  12, 3, 745i-12  13, 3, 65-12  14, 3, 712-12  15, 3, 732i-12  16, 3, 715i-12  17, 3, 746-11  18, 3, 588-12  19, 3, 903-12  20, 3, 772-11    Run In11In12-4  Samples:  1, 1, 1322-12  2, 1, 1269-12  3, 1, 1326-12  4, 1, 1305-12  5, 1, 1251-12  6, 1, 910-12  7, 1, 1017i-12  8, 1, 1205-12  9, 1, 962-12  10, 1, 971-11  11, 1, 1328-12  12, 1, 965-11  13, 1, 1313-12  14, 1, 968-11  15, 1, 1038-12  16, 1, 1273-12  17, 1, 1230-12  18, 1, 1025-12  19, 1, 995-11  20, 1, 943-12  1, 2, 968-12  2, 2, 1342-12  3, 2, 950-11  4, 2, 1261-12  5, 2, 998-11  6, 2, 1298-12  7, 2, 1011-12  8, 2, 1040i-12  9, 2, 1020i-12  10, 2, 1247-12  11, 2, 1302-12  12, 2, 1218-12  13, 2, 1285-12  14, 2, 1023i-12  15, 2, 950-12  16, 2, 1231-12  17, 2, 903-11  18, 2, 1318-12  19, 2, 954-11  20, 2, 1203-12  1, 3, 1249-12  2, 3, 1258-12  3, 3, 1308-12  4, 3, 1254-12  5, 3, 773-11  6, 3, 1380-12  7, 3, 1219-12  8, 3, 1277-12  9, 3, 965-12  10, 3, 962-11  11, 3, 954-12  12, 3, 998-12  13, 3, 1034-12  14, 3, 1260-12  15, 3, 1032-12  16, 3, 1211-12  17, 3, 928-11  18, 3, 972-12  19, 3, 1007i-12  20, 3, 920-11