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 = 10 DNA_concentration = 1 Salt_concentration = 75 single_strand_only = 0 Job started on Tue 10 May 2005 10:10:25 AM CDT Step 1 of 6: Constructing the suffix array... 28205 target sequences. 28205 total sequences. 72748721 total DNA bases. 16380 is the longest sequence length. Step 2 of 6: Computing invert and lcp arrays... 16179 is the longest common overlap region length among sequences. 292.92 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.... 2813 sequences have no unique probe due to short overlaps with others. 9979 sequences have no unique probe due to long overlaps with others. 86 sequences have no good probe candidates due to temperature limit. 40260 initial unique probe candidates detected. Step 4 of 6: Identifying long common overlap regions... 21834 potentially sharable long common overlap regions identified. 8271 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... 651 host sequences were not useful due to short overlaps. 4543 host sequences were taken by the other host sequences. 85 host sequences produce no probes due to temperature limit. 6989 additional sharable probe candidates detected. Step 6 of 6: Determining the optimal oligo set... 2103 sequences/regions without probe at 64.08 C, 340 below, 1763 above. 1979 sequences/regions without probe at 64.95 C, 542 below, 1437 above. 2012 sequences/regions without probe at 65.79 C, 840 below, 1172 above. 2129 sequences/regions without probe at 66.54 C, 1162 below, 967 above. 1979 sequences/regions without probe at 10.00 separation temperature. 13850 unique oligo probes designed for 13850 sequences. 2300 shared oligo probes designed for 5042 additional sequences. 24 maximum number of sequences sharing the same oligo probe. 2.70 average number of sequences sharing the same oligo probe. 59.95 C is the maximum estimated probe-nontarget temperature. 69.96 C is the minimum estimated probe-target temperature. 64.95 C is the optimal estimated experiment temperature. 16150 total oligo probes designed for 18892 sequences. Job completed on Tue 10 May 2005 10:45:31 AM CDT Total time elapsed 00h:35m:06s.