Picky parameter settings for this computation: maximum_oligo_size = 70 minimum_oligo_size = 50 maximum_match_len = 15 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 Fri 27 May 2005 10:48:06 AM CDT Step 1 of 6: Constructing the suffix array... 30935 target sequences. 30935 total sequences. 34783951 total DNA bases. 16380 is the longest sequence length. Step 2 of 6: Computing invert and lcp arrays... 16380 is the longest common overlap region length among sequences. 115.38 is the average common overlap region length among sequences. Step 3 of 6: Generating unique probe candidates... 2 CPU(s) used in this computation; step 3 is slower, be patient.... 2224 sequences have no unique probe due to short overlaps with others. 9639 sequences have no unique probe due to long overlaps with others. 826 sequences have no good probe candidates due to temperature limit. 56323 initial unique probe candidates detected. Step 4 of 6: Identifying long common overlap regions... 14531 potentially sharable long common overlap regions identified. 7546 sequences hosting long common overlap regions identified. Step 5 of 6: Generating shared probe candidates... 2 CPU(s) used in this computation; step 5 is also slow, be patient... 714 host sequences were not useful due to short overlaps. 3035 host sequences were taken by the other host sequences. 434 host sequences produce no probes due to temperature limit. 8149 additional sharable probe candidates detected. Step 6 of 6: Determining the optimal oligo set... 4841 sequences/regions without probe at 62.79 C, 2419 below, 2422 above. 4847 sequences/regions without probe at 62.83 C, 2457 below, 2390 above. 4841 sequences/regions without probe at 20.00 separation temperature. 14799 unique oligo probes designed for 14799 sequences. 2088 shared oligo probes designed for 3075 additional sequences. 11 maximum number of sequences sharing the same oligo probe. 2.25 average number of sequences sharing the same oligo probe. 52.79 C is the maximum estimated probe-nontarget temperature. 72.79 C is the minimum estimated probe-target temperature. 62.79 C is the optimal estimated experiment temperature. 16887 total oligo probes designed for 17874 sequences. Job completed on Fri 27 May 2005 11:29:35 AM CDT Total time elapsed 00h:41m:29s.