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 13 May 2005 04:55:07 PM CDT Step 1 of 6: Constructing the suffix array... 18962 target sequences. 18962 total sequences. 32217720 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. 485.55 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.... 18 sequences have no unique probe due to short overlaps with others. 6600 sequences have no unique probe due to long overlaps with others. 104 sequences have no good probe candidates due to temperature limit. 53668 initial unique probe candidates detected. Step 4 of 6: Identifying long common overlap regions... 6502 potentially sharable long common overlap regions identified. 4190 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... 23 host sequences were not useful due to short overlaps. 271 host sequences were taken by the other host sequences. 157 host sequences produce no probes due to temperature limit. 19000 additional sharable probe candidates detected. Step 6 of 6: Determining the optimal oligo set... 1981 sequences/regions without probe at 64.92 C, 557 below, 1424 above. 1892 sequences/regions without probe at 65.18 C, 603 below, 1289 above. 1873 sequences/regions without probe at 65.28 C, 630 below, 1243 above. 1796 sequences/regions without probe at 65.71 C, 720 below, 1076 above. 1758 sequences/regions without probe at 66.03 C, 805 below, 953 above. 1743 sequences/regions without probe at 66.42 C, 909 below, 834 above. 1743 sequences/regions without probe at 20.00 separation temperature. 11133 unique oligo probes designed for 11133 sequences. 3292 shared oligo probes designed for 6888 additional sequences. 26 maximum number of sequences sharing the same oligo probe. 2.82 average number of sequences sharing the same oligo probe. 56.41 C is the maximum estimated probe-nontarget temperature. 76.42 C is the minimum estimated probe-target temperature. 66.42 C is the optimal estimated experiment temperature. 14425 total oligo probes designed for 18021 sequences. Job completed on Fri 13 May 2005 08:23:54 PM CDT Total time elapsed 03h:28m:47s.