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Table 1 Comparison of number of rearrangements detected by ESP and FPP in a 487 MCF7 BACs

From: A BAC clone fingerprinting approach to the detection of human genome rearrangements

  

ESP

  

N

Y

  

No. of clones

Agree

Disagree

No. of clones

No. agree

No. disagree

FPP

N

250

243

2b/5c

72

3

63d/6e

 

Ya

11

8

2f/1g

154

126

26h/2i

  1. The clones are partitioned based on whether a rearrangement was detected by ESP and/or FPP. For each combination of detection (for example, FPP = Y, ESP = N, where Y/N indicates the presence/absence of rearrangement, respectively, as measured by the corresponding method), the table shows the number of clones in this category, which is further broken down into the number of clones in which ESP and FPP mappings agreed and the number of clones for which ESP and FPP mappings did not agree (for example, both can show no rearrangement but disagree about clone position). Clones in the 'Agree' column have an FPP alignment within 50 kb of both end sequence alignments. Clones in the 'Disagree' column are reported as two groups: clones with an FPP alignment agreeing with one end sequence alignment and clones for which no agreement with either end sequence alignment was detected. Both groups with the disagree category are annotated with a reason for the disagreement. aClones in this row are further classified based on the number of FPP alignments in Table 2. bDel (2); cmispick (5); dbne (33), hr (14), lowcomplex (1), nip (10), rep (5); elowcomplex (1), mispick (3), rep (2); frep (2); gmispick (1); hbne (14), hr (8), nip (3), rep (1); ibne (1), mispick (1). Bne, breakpoint near end of clone; del, clone appears deleted; hr, highly rearranged; lowcomplex, fingerprint has very few fragments; mispick, FPP/ESP data mismatch; nip, FPP alignment detected but not added to partition; rep, alignments in repeat regions.