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 Fri 27 May 2005 01:08:44 PM 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.... 711 sequences have no unique probe due to short overlaps with others. 7288 sequences have no unique probe due to long overlaps with others. 813 sequences have no good probe candidates due to temperature limit. 89412 initial unique probe candidates detected. Step 4 of 6: Identifying long common overlap regions... 14681 potentially sharable long common overlap regions identified. 7588 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... 315 host sequences were not useful due to short overlaps. 1475 host sequences were taken by the other host sequences. 1033 host sequences produce no probes due to temperature limit. 16758 additional sharable probe candidates detected. Step 6 of 6: Determining the optimal oligo set... 3988 sequences/regions without probe at 62.46 C, 2197 below, 1791 above. 3988 sequences/regions without probe at 62.38 C, 2138 below, 1850 above. 3984 sequences/regions without probe at 62.38 C, 2133 below, 1851 above. 3997 sequences/regions without probe at 62.22 C, 2037 below, 1960 above. 3984 sequences/regions without probe at 62.14 C, 1967 below, 2017 above. 3984 sequences/regions without probe at 20.00 separation temperature. 19764 unique oligo probes designed for 19764 sequences. 2664 shared oligo probes designed for 3428 additional sequences. 11 maximum number of sequences sharing the same oligo probe. 2.25 average number of sequences sharing the same oligo probe. 52.38 C is the maximum estimated probe-nontarget temperature. 72.38 C is the minimum estimated probe-target temperature. 62.38 C is the optimal estimated experiment temperature. 22428 total oligo probes designed for 23192 sequences. Job completed on Fri 27 May 2005 05:25:40 PM CDT Total time elapsed 04h:16m:56s.