Picky parameter settings for this computation: maximum_oligo_size = 70 minimum_oligo_size = 50 maximum_match_len = 16 minimum_match_len = 10 maximum_gc_content = 70 minimum_gc_content = 30 candidates_per_gene = 5 probes_per_gene = 1 minimum_similarity = 75 minimum_temp_separation = 20 DNA_concentration = 1 Salt_concentration = 75 single_strand_only = 0 Job started on Wed 11 May 2005 02:25:12 PM CDT Step 1 of 6: Constructing the suffix array... 26236 target sequences. 26236 total sequences. 32759147 total DNA bases. 15717 is the longest sequence length. Step 2 of 6: Computing invert and lcp arrays... 9948 is the longest common overlap region length among sequences. 92.75 is the average common overlap region length among sequences. Step 3 of 6: Generating unique probe candidates... 4 CPU(s) used in this computation; step 3 is slower, be patient.... 51 sequences have no unique probe due to short overlaps with others. 8465 sequences have no unique probe due to long overlaps with others. 303 sequences have no good probe candidates due to temperature limit. 76645 initial unique probe candidates detected. Step 4 of 6: Identifying long common overlap regions... 29441 potentially sharable long common overlap regions identified. 11264 sequences hosting long common overlap regions identified. Step 5 of 6: Generating shared probe candidates... 4 CPU(s) used in this computation; step 5 is also slow, be patient... 96 host sequences were not useful due to short overlaps. 1507 host sequences were taken by the other host sequences. 1155 host sequences produce no probes due to temperature limit. 33176 additional sharable probe candidates detected. Step 6 of 6: Determining the optimal oligo set... 7245 sequences/regions without probe at 63.13 C, 2465 below, 4780 above. 7245 sequences/regions without probe at 63.24 C, 2556 below, 4689 above. 7243 sequences/regions without probe at 63.46 C, 2758 below, 4485 above. 7254 sequences/regions without probe at 63.65 C, 2939 below, 4315 above. 7360 sequences/regions without probe at 63.93 C, 3256 below, 4104 above. 7465 sequences/regions without probe at 64.18 C, 3523 below, 3942 above. 7567 sequences/regions without probe at 64.44 C, 3836 below, 3731 above. 7535 sequences/regions without probe at 64.36 C, 3739 below, 3796 above. 7243 sequences/regions without probe at 20.00 separation temperature. 15344 unique oligo probes designed for 15344 sequences. 4796 shared oligo probes designed for 7721 additional sequences. 20 maximum number of sequences sharing the same oligo probe. 2.48 average number of sequences sharing the same oligo probe. 53.46 C is the maximum estimated probe-nontarget temperature. 73.46 C is the minimum estimated probe-target temperature. 63.46 C is the optimal estimated experiment temperature. 20140 total oligo probes designed for 23065 sequences. Job completed on Wed 11 May 2005 04:34:53 PM CDT Total time elapsed 02h:09m:41s.