Strain Fitness in Shewanella loihica PV-4 around Shew_0439

Experiment: Fumarate (C)

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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 ntShew_0438 and Shew_0439 are separated by 107 nucleotidesShew_0439 and Shew_0440 are separated by 8 nucleotidesShew_0440 and Shew_0441 are separated by 130 nucleotides Shew_0438: Shew_0438 - GumN family protein (RefSeq), at 488,537 to 489,421 _0438 Shew_0439: Shew_0439 - CheD, stimulates methylation of MCP proteins (RefSeq), at 489,529 to 490,161 _0439 Shew_0440: Shew_0440 - methyltransferase type 12 (RefSeq), at 490,170 to 491,024 _0440 Shew_0441: Shew_0441 - dehydratase (RefSeq), at 491,155 to 491,994 _0441 Position (kb) 489 490 491Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 489.092 kb on - strand, within Shew_0438at 489.658 kb on + strand, within Shew_0439at 489.916 kb on - strand, within Shew_0439at 490.044 kb on + strand, within Shew_0439at 490.214 kb on - strandat 490.405 kb on - strand, within Shew_0440at 490.551 kb on - strand, within Shew_0440at 490.600 kb on - strand, within Shew_0440at 490.607 kb on + strand, within Shew_0440at 490.742 kb on + strand, within Shew_0440at 490.742 kb on + strand, within Shew_0440at 490.742 kb on + strand, within Shew_0440at 491.118 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Fumarate (C)
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489,092 - Shew_0438 0.63 +1.4
489,658 + Shew_0439 0.20 +1.6
489,916 - Shew_0439 0.61 -0.6
490,044 + Shew_0439 0.81 -1.5
490,214 - +0.7
490,405 - Shew_0440 0.27 -0.4
490,551 - Shew_0440 0.45 -0.0
490,600 - Shew_0440 0.50 -0.0
490,607 + Shew_0440 0.51 +0.4
490,742 + Shew_0440 0.67 +0.4
490,742 + Shew_0440 0.67 +2.3
490,742 + Shew_0440 0.67 +0.5
491,118 - -2.9

Or see this region's nucleotide sequence