Target Files Error Code
Genotyping
101
Flanking sequence is too short.
102
Polymorphism or sequence formatting error. Possible causes can include:
Incorrect polymorphism format. Example: SNP => [X/Y], INDEL => [-/XYZ], CpG => [CG].
More than one set of brackets in a sequence.
Missing brackets around polymorphism format.
SNP alleles are not separated by a /.
Spaces in a sequence.
Possible solution:
Correct the issue and resubmit your target file.
103
Cannot determine the top/bot strand.
Low sequence complexity.
104
Polymorphism is not appropriate for the Illumina platform. Possible causes can include:
Tri- or quad-alleic SNP.
Contains characters other than A, G, C, T.
105
Polymorphism is on the mitochondrial genome. Illumina does not recommend using mitochondrial polymorphisms for oligo pools. Possible solution:
Remove any polymorphism on the mitochondrial DNA from your target file and resubmit your design.
106
Degenerate nucleotides are included in the assay design region. For example, the W, R, S, N assay, or others.
107
Cannot locate the SNP sequence.
108
The final score is under assay limit.
109
The indels do not support the Infinium I assay type.
110
The locus name is duplicated in the base commercial content. Possible solution:
Rename the locus name that is identified as duplicate in the excluded content file.
111
The normalization bin count for the following species does not meet the minimum limit (100) required for ordering: Homo sapiens. Scenario:
Any design that has normalization bin A/B that is > 0 and < 100, or a normalization bin C that is > 0 and < 1000.
Possible solution:
Remove or add [G/C] and [A/T] SNPs to within the limit.
Use the score.csv file to identify Bin A/B content and fill in a new Sequence Input file.
Replicate these designs, with unique names, to > 99.
Use the score.csv file to identify Bin C content. Redesign all Bin C using sequence input file, forcing Infinium I chemistry (Force_Infinium_to True), using unique names. Use the resulting score.csv file to fill Bin A/B to > 99. Combine content from multiple score files using the Existing Input file.
112
The total bead count for this add-on does not meet the minimum limit {{MinBeadCount}} required for ordering. Scenario:
An Infinium iSelect design doesn't meet the required bead count limit for ordering.
An Infinium iSelect+ design does not meet the minimum bead count in the add-on content.
Possible solution:
Add more content or replicate the existing content using unique names.
113
The total bead count exceeds the maximum limit {{MaxBeadCount}} and cannot be ordered. Scenario:
A design exceeds the max bead count for ordering.
Possible solution:
Trim lower value content to below the limit.
Alternatively, contact Sales for additional options.
114
The following species must occupy at least 20% of the total content for this design to be orderable: Hordeum vulgare. Scenario:
An Infinium XT iSelect design has a spewcies that does not occupy at least 20% of the total design.
Possible solution:
Add more content for the specified species or replicate the existing content using unique names.
Remove content from higher-represented species.
115
The number of designed targets does not meet the minimum limit {MinimumTargetLimit}} required for ordering. Scenario:
An Infinium design does not meet the minimum target count for ordering.
An Infinium XT iSelect+ design does not have the minimum target count in the add-on content.
Possible solution:
Add more content or replicate the existing content using unique names.
116
The number of designed targets does not meet the maximum limit {MaxTargetDesignLimit}} required for ordering. Refer to the data sheet for the base content array and for the allowable add-on content. Scenario:
An Infinium design exceeds the maximum targets allowed for ordering.
An Infinium XT iSelect+ design's target count exceeds the maximum capacity.
Possible solution:
Trim lower value content to below the limit.
Alternatively, contact your Illumina sales representative for additional options.
117
The number of chromosomes exceeds the maximum allowed unique chromosomes per design. For example, 255. Scenario:
Any design exceeding 255 unique chromosomes will not proceed.
Possible solution:
Change chromosome fields to 0 until below the limit. Keep the look-up file as a reference during analysis.
118
Representation of sex chromosome loci {sexrepresentation}% for normalization bin A {binA total count} exceeds limit of {RepresentationLimit}%. Scenario:
Any design with sex representation for Normalization Bins exceeding 20% of the total count for the bin will not proceed.
Possible solution:
Add non-sex chromosone content to Bin until below the limit. Or, remove sex chromosome content from Bin until below the limit.
301
Polymorphism in duplicated region.
302
Melting temperature is outside assay limits.
304
There are SNPs in the probe region. Refer to the Underlying_SNP column for details.
311
SNP is not supported for Infinium I assay type.
340
Another polymorphism on the list is equal to or fewer than 60 nucleotides away.
360
Low design score: Possible solution:
Remove the targets with a low design score and resubmit the targets for design.
399
Review the Score File or Input File used to create the design for inaccuracies.
601
The genome has multiple target sequences.
602
Probe sequence is duplicated in the base commercial content.
603
Probe sequence is duplicated in the custom content. Possible solution:
Remove the probes with duplicated sequence and resubmit the probes for design.
604
The normalization bin count does not meet the recommended limit (200) for optimal performance if the species is a polyploid organism. Secnario:
Any polyploid design that has a normalization bin that falls between 100 and 200.
Possible solution:
Remove or add [G/C] and [A/T] SNPs to be within the limit.
Use the score.csv file to identify Bin A/B content and fill in a new Sequence Input file.
Replicate these designs, with unique names, to > 99.
Use the score.csv file to identify Bin C content. Redesign all Bin C using sequence input file, forcing Infinium I chemistry (Force_Infinium_I to True), using unique names. Use the resulting score.csv file to fill Bin A/B to > 99. Combine content from multiple score files using the Existing Input file.
Methylation
101
Flanking sequence is too short.
103
Cannot determine the top/bot strand.
Low sequence complexity.
105
Polymorphism is on the mitochondrial genome. Illumina does not recommend using mitochondrial polymorphisms for oligo pools. Possible solution:
Remove any polymorphism on the mitochondrial DNA from your target file and resubmit your design.
107
Target Not found.
108
The final score is under assay limit.
115
The number of designed targets does not meet the minimum limit {MinimumTargetLimit}} required for ordering. Scenario:
An Infinium design does not meet the minimum target count for ordering.
Possible solution:
Add more content or replicate the existing content using unique names.
116
The number of designed targets does not meet the maximum limit {MaxTargetDesignLimit}} required for ordering. Refer to the data sheet for the base content array and for the allowable add-on content. Scenario:
An Infinium design exceeds the maximum targets allowed for ordering.
Possible solution:
Trim lower value content to below the limit.
Alternatively, contact your Illumina sales representative for additional options.
117
The number of chromosomes exceeds the maximum allowed unique chromosomes per design. For example, 255. Scenario:
Any design exceeding 255 unique chromosomes will not proceed.
Possible solution:
Change chromosome fields to 0 until below the limit. Keep the look-up file as a reference during analysis.
301
Polymorphism in duplicated region. This means that a multi-mapper is found for this target. Hence, this target has been excluded.
399
Review the Design File or Input File used to create the design for inaccuracies.
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