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 Thu 19 May 2005 11:06:22 AM 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.... 210 sequences have no unique probe due to short overlaps with others. 10645 sequences have no unique probe due to long overlaps with others. 1466 sequences have no good probe candidates due to temperature limit. 94494 initial unique probe candidates detected. Step 4 of 6: Identifying long common overlap regions... 29011 potentially sharable long common overlap regions identified. 12715 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... 236 host sequences were not useful due to short overlaps. 4317 host sequences were taken by the other host sequences. 1116 host sequences produce no probes due to temperature limit. 32351 additional sharable probe candidates detected. Step 6 of 6: Determining the optimal oligo set... 7634 sequences/regions without probe at 64.18 C, 2830 below, 4804 above. 7625 sequences/regions without probe at 64.25 C, 2898 below, 4727 above. 7639 sequences/regions without probe at 64.31 C, 2962 below, 4677 above. 7625 sequences/regions without probe at 64.46 C, 3101 below, 4524 above. 7631 sequences/regions without probe at 64.51 C, 3144 below, 4487 above. 7620 sequences/regions without probe at 64.62 C, 3263 below, 4357 above. 7599 sequences/regions without probe at 64.71 C, 3336 below, 4263 above. 7594 sequences/regions without probe at 64.89 C, 3510 below, 4084 above. 7611 sequences/regions without probe at 64.94 C, 3555 below, 4056 above. 7657 sequences/regions without probe at 65.10 C, 3756 below, 3901 above. 7684 sequences/regions without probe at 65.16 C, 3837 below, 3847 above. 7713 sequences/regions without probe at 65.29 C, 3986 below, 3727 above. 7594 sequences/regions without probe at 20.00 separation temperature. 18680 unique oligo probes designed for 18680 sequences. 4148 shared oligo probes designed for 6342 additional sequences. 13 maximum number of sequences sharing the same oligo probe. 2.38 average number of sequences sharing the same oligo probe. 54.89 C is the maximum estimated probe-nontarget temperature. 74.89 C is the minimum estimated probe-target temperature. 64.89 C is the optimal estimated experiment temperature. 22828 total oligo probes designed for 25022 sequences. Job completed on Thu 19 May 2005 04:05:11 PM CDT Total time elapsed 04h:58m:49s.