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Note: We do not remove the reads that are suppose to be filtered by the solexa pipeline in version 1.4. However, reads suppose to be filtered are marked using a binary system of 1 = Good/Not Filtered and 0 = Bad/Filtered within the read ID. This information is in the quality score/FASTQ files.

Sequencing Quality Control Based On FASTQ (Basecalls and quality scores) || Go to Sequencing Quality Control Based On ELAND Alignments