Strain Fitness in Shewanella loihica PV-4 around Shew_1888

Experiment: NAG (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_1887 and Shew_1888 are separated by 173 nucleotidesShew_1888 and Shew_1889 are separated by 485 nucleotides Shew_1887: Shew_1887 - alpha amylase, catalytic region (RefSeq), at 2,173,512 to 2,175,476 _1887 Shew_1888: Shew_1888 - TonB-dependent receptor, plug (RefSeq), at 2,175,650 to 2,178,478 _1888 Shew_1889: Shew_1889 - alpha amylase, catalytic region (RefSeq), at 2,178,964 to 2,180,589 _1889 Position (kb) 2175 2176 2177 2178 2179Strain fitness (log2 ratio) -1 0 1at 2175.134 kb on + strand, within Shew_1887at 2175.715 kb on - strandat 2175.932 kb on - strandat 2176.180 kb on + strand, within Shew_1888at 2176.222 kb on - strand, within Shew_1888at 2176.383 kb on + strand, within Shew_1888at 2176.560 kb on + strand, within Shew_1888at 2176.670 kb on - strand, within Shew_1888at 2176.741 kb on - strand, within Shew_1888at 2176.972 kb on - strand, within Shew_1888at 2177.190 kb on + strand, within Shew_1888at 2177.476 kb on - strand, within Shew_1888at 2177.783 kb on - strand, within Shew_1888at 2178.101 kb on - strand, within Shew_1888at 2178.450 kb on - strandat 2178.508 kb on - strandat 2178.525 kb on - strandat 2178.903 kb on - strandat 2179.282 kb on + strand, within Shew_1889at 2179.335 kb on + strand, within Shew_1889at 2179.363 kb on - strand, within Shew_1889

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Per-strain Table

Position Strand Gene LocusTag Fraction NAG (C)
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2,175,134 + Shew_1887 0.83 +0.3
2,175,715 - -1.2
2,175,932 - -1.7
2,176,180 + Shew_1888 0.19 +1.1
2,176,222 - Shew_1888 0.20 -0.0
2,176,383 + Shew_1888 0.26 -0.5
2,176,560 + Shew_1888 0.32 -0.1
2,176,670 - Shew_1888 0.36 +1.1
2,176,741 - Shew_1888 0.39 +0.2
2,176,972 - Shew_1888 0.47 +0.3
2,177,190 + Shew_1888 0.54 -0.1
2,177,476 - Shew_1888 0.65 +0.9
2,177,783 - Shew_1888 0.75 -0.4
2,178,101 - Shew_1888 0.87 +0.4
2,178,450 - +0.4
2,178,508 - -0.5
2,178,525 - +0.5
2,178,903 - -1.4
2,179,282 + Shew_1889 0.20 +0.6
2,179,335 + Shew_1889 0.23 +1.3
2,179,363 - Shew_1889 0.25 +1.7

Or see this region's nucleotide sequence