Table 1. Probes used in redesigning probesets for Affymetrix arrays.
| Array | total | aligneda | Distinctb | mRNAc | Probesetsd |
| Affymetrix Mouse U74 v2 | 197 993 | 158 698 | 131 223 | 123 532 | 8 162 |
| Affymetrix Mouse 430 v2 | 496 468 | 456 432 | 403 718 | 344 849 | 21 650 |
| Affymetrix Human U95A v2 | 201 800 | 185 329 | 155 252 | 146 124 | 8 551 |
| Affymetrix Human U133Av2 | 247 899 | 226 893 | 188 942 | 177 661 | 12 678 |
| Affymetrix Human U133 Plus 2 | 604 258 | 562 248 | 484 344 | 393 924 | 23 581 |
| Affymetrix Zebrafish | 249 742 | 201 798 | 173 345 | 70 900 | 4 700 |
a
number of probes successfully aligned to the current NCBI genomes with PASS [36].
b
number of probes with a single match to the genome of the central 23 nucleotides with 1 or fewer mismatched nucleotide.
c
number of distinct probes that mapped to an exon or UTR of our expanded gene annotation set.
d
total number of probesets in our custom CDF.