IDT for Illumina UD Indexes

The following tables depict plate layouts and pooling strategies for IDT for Illumina UD Indexes, which are designed for dual indexing.

The IDT for Illumina UD Indexes include IDT for Illumina Nextera DNA UD Indexes, IDT for Illumina DNA/RNA UD Indexes, and IDT for Illumina PCR UD Indexes.

IDT for Illumina UD Indexes Plate A/Set 1

	1	2	3	4	5	6	7	8	9	10	11	12
A	UDP0001	UDP0009	UDP0017	UDP0025	UDP0033	UDP0041	UDP0049	UDP0057	UDP0065	UDP0073	UDP0081	UDP0089
B	UDP0002	UDP0010	UDP0018	UDP0026	UDP0034	UDP0042	UDP0050	UDP0058	UDP0066	UDP0074	UDP0082	UDP0090
C	UDP0003	UDP0011	UDP0019	UDP0027	UDP0035	UDP0043	UDP0051	UDP0059	UDP0067	UDP0075	UDP0083	UDP0091
D	UDP0004	UDP0012	UDP0020	UDP0028	UDP0036	UDP0044	UDP0052	UDP0060	UDP0068	UDP0076	UDP0084	UDP0092
E	UDP0005	UDP0013	UDP0021	UDP0029	UDP0037	UDP0045	UDP0053	UDP0061	UDP0069	UDP0077	UDP0085	UDP0093
F	UDP0006	UDP0014	UDP0022	UDP0030	UDP0038	UDP0046	UDP0054	UDP0062	UDP0070	UDP0078	UDP0086	UDP0094
G	UDP0007	UDP0015	UDP0023	UDP0031	UDP0039	UDP0047	UDP0055	UDP0063	UDP0071	UDP0079	UDP0087	UDP0095
H	UDP0008	UDP0016	UDP0024	UDP0032	UDP0040	UDP0048	UDP0056	UDP0064	UDP0072	UDP0080	UDP0088	UDP0096

IDT for Illumina UD Indexes Plate B/Set 2

	1	2	3	4	5	6	7	8	9	10	11	12
A	UDP0097	UDP0105	UDP0113	UDP0121	UDP0129	UDP0137	UDP0145	UDP0153	UDP0161	UDP0169	UDP0177	UDP0185
B	UDP0098	UDP0106	UDP0114	UDP0122	UDP0130	UDP0138	UDP0146	UDP0154	UDP0162	UDP0170	UDP0178	UDP0186
C	UDP0099	UDP0107	UDP0115	UDP0123	UDP0131	UDP0139	UDP0147	UDP0155	UDP0163	UDP0171	UDP0179	UDP0187
D	UDP0100	UDP0108	UDP0116	UDP0124	UDP0132	UDP0140	UDP0148	UDP0156	UDP0164	UDP0172	UDP0180	UDP0188
E	UDP0101	UDP0109	UDP0117	UDP0125	UDP0133	UDP0141	UDP0149	UDP0157	UDP0165	UDP0173	UDP0181	UDP0189
F	UDP0102	UDP0110	UDP0118	UDP0126	UDP0134	UDP0142	UDP0150	UDP0158	UDP0166	UDP0174	UDP0182	UDP0190
G	UDP0103	UDP0111	UDP0119	UDP0127	UDP0135	UDP0143	UDP0151	UDP0159	UDP0167	UDP0175	UDP0183	UDP0191
H	UDP0104	UDP0112	UDP0120	UDP0128	UDP0136	UDP0144	UDP0152	UDP0160	UDP0168	UDP0176	UDP0184	UDP0192

IDT for Illumina UD Indexes Plate C/Set 3

The V2 indication applies only to IDT for Illumina DNA/RNA and PCR UD Indexes. IDT for Illumina Nextera DNA UD Indexes do not include V2 indexes.

	1	2	3	4	5	6	7	8	9	10	11	12
A	UDP0193	UDP0201	UDP0209	UDP0217	UDP0225	UDP0233	UDP0241	UDP0249	UDP0257	UDP0265	UDP0273	UDP0281
B	UDP0194	UDP0202	UDP0210	UDP0218	UDP0226	UDP0234	UDP0242	UDP0250	UDP0256V2	UDP0266	UDP0274	UDP0282
C	UDP0195	UDP0203	UDP0211	UDP0219	UDP0227	UDP0235	UDP0243	UDP0251	UDP0259	UDP0267	UDP0275	UDP0283
D	UDP0196	UDP0204	UDP0212	UDP0220	UDP0228	UDP0236	UDP0244	UDP0252V2	UDP0260	UDP0268	UDP0276	UDP0284
E	UDP0197	UDP0205	UDP0213	UDP0221	UDP0229	UDP0237	UDP0245	UDP0253	UDP0261	UDP0269	UDP0277	UDP0285
F	UDP0198	UDP0206	UDP0214	UDP0222	UDP0230	UDP0238	UDP0246	UDP0254	UDP0262	UDP0270	UDP0278	UDP0286
G	UDP0199	UDP0207	UDP0215	UDP0223	UDP0231	UDP0239	UDP0247	UDP0255	UDP0263	UDP0271	UDP0279	UDP0287
H	UDP0200	UDP0208	UDP0216	UDP0224	UDP0232	UDP0240	UDP0248	UDP0256	UDP0264	UDP0272	UDP0280	UDP0288

IDT for Illumina UD Indexes Plate D/Set 4

The V2 indication applies only to IDT for Illumina DNA/RNA and PCR UD Indexes. IDT for Illumina Nextera DNA UD Indexes do not include V2 indexes.

	1	2	3	4	5	6	7	8	9	10	11	12
A	UDP0289V2	UDP0297	UDP0305	UDP0313	UDP0321	UDP0329	UDP0337	UDP0345	UDP0353	UDP0361	UDP0369	UDP0377
B	UDP0290V2	UDP0298	UDP0306	UDP0314	UDP0322	UDP0330	UDP0338	UDP0346	UDP0354	UDP0362	UDP0370	UDP0378
C	UDP0291V2	UDP0299	UDP0307	UDP0315	UDP0323	UDP0331	UDP0339	UDP0347	UDP0355	UDP0363	UDP0371	UDP0379
D	UDP0292	UDP0300	UDP0308	UDP0316	UDP0324	UDP0332	UDP0340	UDP0348	UDP0356	UDP0364	UDP0372	UDP0380
E	UDP0293	UDP0301V2	UDP0309	UDP0317	UDP0325	UDP0333	UDP0341	UDP0349	UDP0357	UDP0365	UDP0373	UDP0381
F	UDP0294	UDP0302	UDP0310	UDP0318	UDP0326	UDP0334	UDP0342	UDP0350	UDP0358	UDP0366	UDP0374	UDP0382
G	UDP0295	UDP0303	UDP0311	UDP0319	UDP0327	UDP0335	UDP0343	UDP0351	UDP0359	UDP0367	UDP0375	UDP0383
H	UDP0296	UDP0304	UDP0312	UDP0320	UDP0328	UDP0336	UDP0344	UDP0352	UDP0360	UDP0368	UDP0376	UDP0384

Two-Plex Through Eight-Plex Pooling Strategies

The following table shows index adapters (wells) that can be combined in a two- to eight-plex pool, while the color-coded figure illustrates each combination.

Pool any plexity ≥ 2 from the top or bottom of a column. Do not pool across a row.

Plexity

Combinations

Color in Figure

The first two or last two wells in a column:

•

A and B

•

G and H

Rows C–F are not used.

Orange

The first three or last three wells in a column:

•

A–C

•

F–H

Rows D and E are not used.

Gray

The first four or last four wells in a column:

•

A–D

•

E–H

Purple

The first five or last five wells in a column:

•

A–E

•

D–H

Blue

[Option 1] The first six or last six wells in a column:

•

A–F

•

C–H

[Option 2] The first two wells (A and B) or last two wells (G and H) in one column, and any four wells in an adjacent column.

Green

The first seven or last seven wells in a column:

•

A–G

•

B–H

Pink

The entire column.

Teal

[XLEAP-SBS Chemistry] Two-Plex Through Eight-Plex Pooling Strategies

This section applies to any instruments using XLEAP-SBS Chemistry.

Pool any plexity ≥ 2 from the top or bottom of a column. Do not pool across a row.

The following table shows index adapters (wells) that can be combined in a two-plex or three-plex pool.

Plexity

Combinations Set A

Combinations Set B

•

C6, D11

•

C6, H10

•

E4, A11

•

F1, H12

•

F3, G11

•

B9, D11

•

D11, A12

•

D11, B12

•

F3, D11

•

G3, C10

•

G3, D11

•

H5, G9

•

H7, B10

•

H8, D11

•

A3, C3, D3

•

E3, G3, H3

•

B4, C4, D4

•

F8, G8, H8

•

B11, C11, G11

•

B11, F11, G11

•

A12, G12, H12

•

E12, G12, H12

•

F8, G8, H8

•

E9, G9, H9

•

B10, C10, D10

•

C10, D10, E10

•

A12, C12, E12

•

A12, C12, F12

•

B12, F12, H12

The following figures display four-plex through eight-plex index pooling recommendations by column for Plates A and B. Numbers represent plate columns, and letters represent the rows to be paired within each column. For instance, Plate A, column 2, rows ABCD represent indexes UDP0009, UDP0010, UDP0011, and UDP0012.

The orange wells in the following color-coded figures are not recommended for use.

IDT for Illumina UD Plate A Indexes

IDT for Illumina UD Plate B Indexes