Picky parameter settings for this computation: maximum_oligo_size = 70 minimum_oligo_size = 50 maximum_match_len = 17 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 = 10 DNA_concentration = 1 Salt_concentration = 75 single_strand_only = 0 Job started on Wed 18 May 2005 05:50:15 PM CDT Step 1 of 6: Constructing the suffix array... 35284 target sequences. 35284 total sequences. 68639601 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. 213.78 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.... 56 sequences have no unique probe due to short overlaps with others. 8750 sequences have no unique probe due to long overlaps with others. 677 sequences have no good probe candidates due to temperature limit. 109368 initial unique probe candidates detected. Step 4 of 6: Identifying long common overlap regions... 29465 potentially sharable long common overlap regions identified. 12806 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... 169 host sequences were not useful due to short overlaps. 3330 host sequences were taken by the other host sequences. 1397 host sequences produce no probes due to temperature limit. 39954 additional sharable probe candidates detected. Step 6 of 6: Determining the optimal oligo set... 2416 sequences/regions without probe at 64.63 C, 447 below, 1969 above. 2334 sequences/regions without probe at 65.07 C, 534 below, 1800 above. 2280 sequences/regions without probe at 65.28 C, 584 below, 1696 above. 2220 sequences/regions without probe at 65.63 C, 664 below, 1556 above. 2206 sequences/regions without probe at 66.09 C, 809 below, 1397 above. 2186 sequences/regions without probe at 66.40 C, 889 below, 1297 above. 2200 sequences/regions without probe at 66.75 C, 1008 below, 1192 above. 2230 sequences/regions without probe at 67.08 C, 1128 below, 1102 above. 2213 sequences/regions without probe at 66.84 C, 1040 below, 1173 above. 2186 sequences/regions without probe at 10.00 separation temperature. 24621 unique oligo probes designed for 24621 sequences. 3814 shared oligo probes designed for 5096 additional sequences. 16 maximum number of sequences sharing the same oligo probe. 2.39 average number of sequences sharing the same oligo probe. 61.40 C is the maximum estimated probe-nontarget temperature. 71.41 C is the minimum estimated probe-target temperature. 66.40 C is the optimal estimated experiment temperature. 28435 total oligo probes designed for 29717 sequences. Job completed on Thu 19 May 2005 03:26:22 AM CDT Total time elapsed 09h:36m:07s.