IDT for Illumina–TruSeq UD Indexes

The following tables depict plate layouts for IDT for Illumina–TruSeq UD Indexes.

These indexes include IDT for Illumina–TruSeq DNA UD Indexes and IDT for Illumina–TruSeq RNA UD Indexes. These indexes are designed for select TruSeq libraries.

For NextSeq 2000 two-plex pooling, pool two consecutive wells in a column as follows.

• A and B
• C and D
• E and F
• G and H

For other systems, pool any plexity ≥ 2 down a column. Do not pool across a row.

 

1

2

3

4

5

6

7

8

9

10

11

12

A

UDI0001

UDI0009

UDI0017

UDI0025

UDI0033

UDI0041

UDI0049

UDI0057

UDI0065

UDI0073

UDI0081

UDI0089

B

UDI0002

UDI0010

UDI0018

UDI0026

UDI0034

UDI0042

UDI0050

UDI0058

UDI0066

UDI0074

UDI0082

UDI0090

C

UDI0003

UDI0011

UDI0019

UDI0027

UDI0035

UDI0043

UDI0051

UDI0059

UDI0067

UDI0075

UDI0083

UDI0091

D

UDI0004

UDI0012

UDI0020

UDI0028

UDI0036

UDI0044

UDI0052

UDI0060

UDI0068

UDI0076

UDI0084

UDI0092

E

UDI0005

UDI0013

UDI0021

UDI0029

UDI0037

UDI0045

UDI0053

UDI0061

UDI0069

UDI0077

UDI0085

UDI0093

F

UDI0006

UDI0014

UDI0022

UDI0030

UDI0038

UDI0046

UDI0054

UDI0062

UDI0070

UDI0078

UDI0086

UDI0094

G

UDI0007

UDI0015

UDI0023

UDI0031

UDI0039

UDI0047

UDI0055

UDI0063

UDI0071

UDI0079

UDI0087

UDI0095

H

UDI0008

UDI0016

UDI0024

UDI0032

UDI0040

UDI0048

UDI0056

UDI0064

UDI0072

UDI0080

UDI0088

UDI0096
 

1

2

3

4

5

6

7

8

9

10

11

12

A

UDI0001

UDI0009

UDI0017

UDI0001

UDI0009

UDI0017

UDI0001

UDI0009

UDI0017

UDI0001

UDI0009

UDI0017

B

UDI0002

UDI0010

UDI0018

UDI0002

UDI0010

UDI0018

UDI0002

UDI0010

UDI0018

UDI0002

UDI0010

UDI0018

C

UDI0003

UDI0011

UDI0019

UDI0003

UDI0011

UDI0019

UDI0003

UDI0011

UDI0019

UDI0003

UDI0011

UDI0019

D

UDI0004

UDI0012

UDI0020

UDI0004

UDI0012

UDI0020

UDI0004

UDI0012

UDI0020

UDI0004

UDI0012

UDI0020

E

UDI0005

UDI0013

UDI0021

UDI0005

UDI0013

UDI0021

UDI0005

UDI0013

UDI0021

UDI0005

UDI0013

UDI0021

F

UDI0006

UDI0014

UDI0022

UDI0006

UDI0014

UDI0022

UDI0006

UDI0014

UDI0022

UDI0006

UDI0014

UDI0022

G

UDI0007

UDI0015

UDI0023

UDI0007

UDI0015

UDI0023

UDI0007

UDI0015

UDI0023

UDI0007

UDI0015

UDI0023

H

UDI0008

UDI0016

UDI0024

UDI0008

UDI0016

UDI0024

UDI0008

UDI0016

UDI0024

UDI0008

UDI0016

UDI0024

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

Two-plex through eight-plex pooling strategies are provided for use of IDT for Illumina TruSeq UD Indexes (96 Indexes, 96 Samples). For more information, refer to Color Balance or contact Illumina Technical Support.

The following table shows index adapters (wells) that can be combined in two-plex through eight-plex pools. For two-plex pools, the listed index pools make sure that green signal is present in every index cycle. For three-plex through eight-plex pools, the following index pools are examples that include two-channel representation in each cycle. Additional options are available that combine samples from multiple columns (three- to six-plex), within the same column (four- to six-plex), or that meet less stringent requirement of at least green signal every index cycle.

Plexity

Recommended Index Combinations

2
• A7, E10
• A7, F10
• A8, C9
• A8, D9
• B7, E10
• B7, F10
• B8, C9
• B8, D9
• C2, A11
• C2, A3
• C2, A7
• C2, B11
• C2, B3
• C2, B7
• C4, A7
• C4, B7
• C9, G10
• C9, H10
• D2, A11
• D2, A3
• D2, A7
• D2, B11
• D2, B3
• D2, B7
• D4, A7
• D4, B7
• D9, G10
• D9, H10
• G10, E12
• G10, F12
• H10, E12
• H10, F12

3
• A4, F4, H4
• D5, F5, G5
• A10, D10, H10
• A11, C11, G11
• A11, D11, G11
• C11, F11, G11

4
• A1, D1, E1, H1
• B1, C1, E1, G1
• A2, C2, E2, G2
• B2, D2, F2, H2
• A4, B4, E4, G4
• B4, C4, F4, H4
• A5, B5, C5, E5
• C5, D5, F5, H5
• A7, C7, F7, G7
• B7, D7, E7, H7
• A8, B8, C8, G8
• D8, E8, F8, H8
• A9, C9, F9, H9
• B9, D9, E9, H9
• A10, C10, F10, H10
• B10, D10, E10, G10
• A11, B11, C11, E11
• D11, F11, G11, H11

5
• A1, B1, C1, E1, G1
• B1, D1, E1, F1, H1
• A2, B2, C2, E2, G2
• B2, C2, D2, F2, H2
• A4, B4, C4, E4, G4
• B4, C4, D4, F4, H4
• A5, B5, C5, D5, E5
• D5, E5, F5, G5, H5
• A7, B7, C7, E7, G7
• B7, C7, D7, F7, H7
• A8, B8, C8, D8, G8
• B8, C8, E8, F8, H8
• A9, B9, C9, E9, G9
• B9, D9, F9, G9, H9
• A10, B10, C10, D10, G10
• B10, D10, E10, F10, H10
• A11, B11, C11, D11, E11
• D11, E11, F11, G11, H11

6
• A1, B1, C1, D1, E1, G1
• B2, D2, E2, F2, G2, H2
• A4, B4, C4, D4, E4, G4
• B4, D4, E4, F4, G4, H4
• A5, B5, C5, D5, E5, F5
• C5, D5, E5, F5, G5, H5
• A7, B7, C7, D7, E7, G7
• B7, D7, E7, F7, G7, H7
• A8, B8, C8, D8, E8, G8
• C8, D8, E8, F8, G8, H8
• A9, B9, C9, D9, E9, G9
• B9, D9, E9, F9, G9, H9
• A10, B10, C10, D10, E10, G10
• B10, D10, E10, F10, G10, H10
• A11, B11, C11, D11, E11, F11
• C11, D11, E11, F11, G11, H11

The following figure displays seven-plex and eight-plex index pooling recommendations by column. Numbers represent plate columns, and letters represent the rows to be paired within each column.

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

IDT for Illumina TruSeq UD Indexes