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Table 4 Validation of physical map assembly by linkage mapping of microsatellites isolated from clones that were part of 11 of the largest contigs in the rainbow trout physical map.

From: A first generation BAC-based physical map of the rainbow trout genome

Contig No. of Clones (Q)a Contig Length (Kb) No. of Markers rb LOD Chr.
58 174 (3) 1,938 2 0.000 29.2 1
84c 190 (3) 2,300 2 0.014 19.1 18
100 313 (2) 3,300 2 0.101 20.6 27
168 306 (3) 2,934 2 0.009 28.7 10
172 299 (6) 3,167 3 0.040 8.1 6
260c 224 (1) 2,692 4 0.039 31.3 2
336 136 (0) 1,722 3 0.005 46.3 3
791c 124 (0) 1,722 2 0.000 25.2 22
930 112 (1) 1,394 2 0.006 49.7 11
Mis-joined Contigs
138a 431 (4) 4,590 2 0.043 16.0 1
138b 431 (4) 4,590 1 N/A 32.0 27
450a 334 (4) 3,709 2 0.006 38.6 22
450b 334 (4) 3,709 1 N/A 39.4 1
  1. aNumber of Q-clones in parenthesis. Clones that were assigned to a contig but may be false positives (e.g. chimerical clones) are marked by FPC as Q-clones.
  2. bTwo point linkage recombination between markers from the two most distant clones in the contig.
  3. cAdditional markers that were previously isolated from other BACs in the contigs were linked to the new BAC end sequence microsatellites by two point linkage analysis and included in this table. Contig 84: OMM3090/MHCI-A [27]; Contig260: OMM3079/TAP1 [23]; Contig 791: OMM3183/TLR8a (manuscript in preparation).