Strain Fitness in Shewanella oneidensis MR-1 around SO1880

Experiment: methylglyoxal 0.004 vol%

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Only strains with sufficient reads to estimate fitness are shown, but the strain fitness values are still rather noisy and may be biased towards zero. Strains near the edge of a gene are not shown as being associated with that gene (they are in grey). Strains in the central 10-90% of a gene are color coded by the insertion's strand. Usually, "+" means that the selectable marker is encoded on the forward strand, i.e., transcribed rightward.

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500 ntdapA and nlpB are separated by 3 nucleotidesnlpB and SO1881 are separated by 616 nucleotides SO1879: dapA - dihydrodipicolinate synthase (NCBI ptt file), at 1,974,639 to 1,975,523 dapA SO1880: nlpB - lipoprotein-34 NlpB (NCBI ptt file), at 1,975,527 to 1,976,624 nlpB SO1881: SO1881 - HlyD family-related protein (NCBI ptt file), at 1,977,241 to 1,978,323 SO1881 Position (kb) 1975 1976 1977Strain fitness (log2 ratio) -3 -2 -1 0 1at 1974.553 kb on - strandat 1974.579 kb on - strandat 1975.817 kb on + strand, within nlpBat 1975.940 kb on - strand, within nlpBat 1975.974 kb on + strand, within nlpBat 1975.982 kb on - strand, within nlpBat 1976.153 kb on + strand, within nlpBat 1976.161 kb on - strand, within nlpBat 1976.161 kb on - strand, within nlpBat 1976.161 kb on - strand, within nlpBat 1976.187 kb on + strand, within nlpBat 1976.242 kb on + strand, within nlpBat 1976.242 kb on + strand, within nlpBat 1976.370 kb on + strand, within nlpBat 1976.370 kb on + strand, within nlpBat 1976.378 kb on - strand, within nlpBat 1976.574 kb on + strandat 1976.582 kb on - strandat 1976.582 kb on - strandat 1977.218 kb on - strandat 1977.397 kb on - strand, within SO1881at 1977.398 kb on - strand, within SO1881at 1977.445 kb on - strand, within SO1881

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Per-strain Table

Position Strand Gene LocusTag Fraction methylglyoxal 0.004 vol%
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1,974,553 - +0.6
1,974,579 - +1.5
1,975,817 + nlpB SO1880 0.26 -2.9
1,975,940 - nlpB SO1880 0.38 -1.1
1,975,974 + nlpB SO1880 0.41 +0.7
1,975,982 - nlpB SO1880 0.41 -1.2
1,976,153 + nlpB SO1880 0.57 -0.7
1,976,161 - nlpB SO1880 0.58 -0.5
1,976,161 - nlpB SO1880 0.58 -3.7
1,976,161 - nlpB SO1880 0.58 -2.3
1,976,187 + nlpB SO1880 0.60 -0.5
1,976,242 + nlpB SO1880 0.65 +0.7
1,976,242 + nlpB SO1880 0.65 -3.6
1,976,370 + nlpB SO1880 0.77 -0.5
1,976,370 + nlpB SO1880 0.77 -1.2
1,976,378 - nlpB SO1880 0.78 +1.0
1,976,574 + -0.6
1,976,582 - -0.1
1,976,582 - +0.3
1,977,218 - -0.2
1,977,397 - SO1881 0.14 +0.3
1,977,398 - SO1881 0.14 +0.6
1,977,445 - SO1881 0.19 +0.9

Or see this region's nucleotide sequence