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 Fri 27 May 2005 03:28:49 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... 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. 200 sequences have no good probe candidates due to temperature limit. 99650 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. 1697 host sequences produce no probes due to temperature limit. 17269 additional sharable probe candidates detected. Step 6 of 6: Determining the optimal oligo set... 793 sequences/regions without probe at 62.44 C, 224 below, 569 above. 817 sequences/regions without probe at 62.61 C, 269 below, 548 above. 855 sequences/regions without probe at 62.97 C, 349 below, 506 above. 937 sequences/regions without probe at 63.54 C, 493 below, 444 above. 879 sequences/regions without probe at 63.22 C, 406 below, 473 above. 793 sequences/regions without probe at 10.00 separation temperature. 23414 unique oligo probes designed for 23414 sequences. 2188 shared oligo probes designed for 2545 additional sequences. 11 maximum number of sequences sharing the same oligo probe. 2.28 average number of sequences sharing the same oligo probe. 57.44 C is the maximum estimated probe-nontarget temperature. 67.44 C is the minimum estimated probe-target temperature. 62.44 C is the optimal estimated experiment temperature. 25602 total oligo probes designed for 25959 sequences. Job completed on Fri 27 May 2005 07:06:11 PM CDT Total time elapsed 03h:37m:22s.