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Table 2 Runtimes for different applications of ClustDB to 1377 Medicago BACs and their complementary sequences (324 MB of sequence)

From: Simultaneous identification of long similar substrings in large sets of sequences

W K Runtime matches
50 5 00:25:05 849
50 10 00:35:35 949
50 15 00:42:57 963
50 20 00:51:32 995
80 5 00:38:31 826
80 10 00:57:29 924
80 15 01:12:40 951
80 20 01:28:31 968
100 5 00:50:45 823
100 10 01:12:37 917
100 15 01:34:00 951
100 20 01:50:46 968
100 30 02:20:48 1015
  1. We present the runtimes in hours (column 3) and the number of complete matches found (column 4) as function of the maximum number of errors (column 2) allowed in all sliding windows of size W (column 1). All computations were performed using a Pentium 4 PC with 2 GB of RAM and 2.6 GHz processor speed.