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E. coli K-12 Paralog Table
The table contains a summary of the search results obtained by pairwise
comparison of all predicted open reading frames (ORFs) from the E. coli
K-12 genome. The sequence corresponding to each ORF was compared against
a database of all 4290 ORFs using a Decypher (Time Logic, Inc.) search engine
that performs Smith-Waterman global sequence alignments. For each ORF, the
top ten highest scoring matches (that contained at least 200 bp with at
least 50% identity) are reported in this table. To obtain a non-redundant
list of only the best matches for each ORF simply sort on the Rank column
and retain matches with rank=1. There are a total of 586 ORFs that have
at least 200 bp with 50% identity. The table contains the following information:
E. coli K-12 Paralog Table
- b-number: corresponds to the non-redundant identifier assigned to each ORF by the Blattner Lab
- Gene: common name of an ORF; if unnamed this field contains the b-number
- Rank: if there are multiple paralogs for an ORF, this field contains their ranking
- Paralog b-number: the b-number of the paralogous sequence
- Paralog gene: the common name for the paralogous ORF
- Align length: the length of the alignable region between the target and query ORFs
- Pct Identity: the percent identity within the aligned region
- Gaps: the number of gaps in the alignment used to compute the percent identity
- No. of paralogs: the number of paralogous ORFs in the K-12 genome (maximum of 9)
Jeremy Glasner 9/27/99