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 = 20 DNA_concentration = 1 Salt_concentration = 75 single_strand_only = 0 Job started on Fri 27 May 2005 10:52:51 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... 4 CPU(s) used in this computation; step 3 is slower, be patient.... 433 sequences have no unique probe due to short overlaps with others. 6391 sequences have no unique probe due to long overlaps with others. 827 sequences have no good probe candidates due to temperature limit. 96035 initial unique probe candidates detected. Step 4 of 6: Identifying long common overlap regions... 14764 potentially sharable long common overlap regions identified. 7607 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... 181 host sequences were not useful due to short overlaps. 1044 host sequences were taken by the other host sequences. 1897 host sequences produce no probes due to temperature limit. 16323 additional sharable probe candidates detected. Step 6 of 6: Determining the optimal oligo set... 3661 sequences/regions without probe at 62.36 C, 2173 below, 1488 above. 3663 sequences/regions without probe at 62.30 C, 2135 below, 1528 above. 3634 sequences/regions without probe at 62.12 C, 2011 below, 1623 above. 3615 sequences/regions without probe at 61.86 C, 1840 below, 1775 above. 3609 sequences/regions without probe at 61.76 C, 1779 below, 1830 above. 3609 sequences/regions without probe at 20.00 separation temperature. 21068 unique oligo probes designed for 21068 sequences. 2330 shared oligo probes designed for 2921 additional sequences. 11 maximum number of sequences sharing the same oligo probe. 2.23 average number of sequences sharing the same oligo probe. 51.76 C is the maximum estimated probe-nontarget temperature. 71.76 C is the minimum estimated probe-target temperature. 61.76 C is the optimal estimated experiment temperature. 23398 total oligo probes designed for 23989 sequences. Job completed on Fri 27 May 2005 02:28:12 PM CDT Total time elapsed 03h:35m:21s.