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 Mon 02 May 2005 10:56:13 AM CDT Step 1 of 6: Constructing the suffix array... 61251 target sequences. 61251 total sequences. 94194626 total DNA bases. 16380 is the longest sequence length. Step 2 of 6: Computing invert and lcp arrays... 9306 is the longest common overlap region length among sequences. 99.94 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.... 805 sequences have no unique probe due to short overlaps with others. 13674 sequences have no unique probe due to long overlaps with others. 2254 sequences have no good probe candidates due to temperature limit. 174229 initial unique probe candidates detected. Step 4 of 6: Identifying long common overlap regions... 54598 potentially sharable long common overlap regions identified. 19869 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... 1235 host sequences were not useful due to short overlaps. 10447 host sequences were taken by the other host sequences. 2014 host sequences produce no probes due to temperature limit. 26361 additional sharable probe candidates detected. Step 6 of 6: Determining the optimal oligo set... 6703 sequences/regions without probe at 64.65 C, 686 below, 6017 above. 6644 sequences/regions without probe at 64.77 C, 744 below, 5900 above. 6432 sequences/regions without probe at 65.11 C, 849 below, 5583 above. 6315 sequences/regions without probe at 65.29 C, 921 below, 5394 above. 6232 sequences/regions without probe at 65.45 C, 994 below, 5238 above. 6200 sequences/regions without probe at 65.52 C, 1027 below, 5173 above. 6127 sequences/regions without probe at 65.72 C, 1136 below, 4991 above. 6071 sequences/regions without probe at 65.93 C, 1243 below, 4828 above. 6008 sequences/regions without probe at 66.16 C, 1381 below, 4627 above. 5928 sequences/regions without probe at 66.46 C, 1557 below, 4371 above. 5906 sequences/regions without probe at 66.58 C, 1631 below, 4275 above. 5890 sequences/regions without probe at 66.77 C, 1760 below, 4130 above. 5889 sequences/regions without probe at 66.78 C, 1764 below, 4125 above. 5860 sequences/regions without probe at 67.01 C, 1920 below, 3940 above. 5858 sequences/regions without probe at 67.10 C, 1983 below, 3875 above. 5853 sequences/regions without probe at 67.20 C, 2056 below, 3797 above. 5884 sequences/regions without probe at 67.44 C, 2244 below, 3640 above. 5890 sequences/regions without probe at 67.61 C, 2381 below, 3509 above. 5919 sequences/regions without probe at 67.76 C, 2510 below, 3409 above. 5932 sequences/regions without probe at 67.85 C, 2576 below, 3356 above. 5980 sequences/regions without probe at 67.98 C, 2724 below, 3256 above. 6028 sequences/regions without probe at 68.14 C, 2897 below, 3131 above. 6119 sequences/regions without probe at 68.33 C, 3111 below, 3008 above. 5853 sequences/regions without probe at 10.00 separation temperature. 40224 unique oligo probes designed for 40224 sequences. 3152 shared oligo probes designed for 4749 additional sequences. 13 maximum number of sequences sharing the same oligo probe. 2.38 average number of sequences sharing the same oligo probe. 62.19 C is the maximum estimated probe-nontarget temperature. 72.20 C is the minimum estimated probe-target temperature. 67.20 C is the optimal estimated experiment temperature. 43376 total oligo probes designed for 44973 sequences. Job completed on Mon 02 May 2005 09:29:48 PM CDT Total time elapsed 10h:33m:35s.