Strain Fitness in Shewanella amazonensis SB2B around Sama_1962

Experiment: a-Ketoglutaric

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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 ntSama_1960 and Sama_1961 are separated by 0 nucleotidesSama_1961 and Sama_1962 are separated by 278 nucleotidesSama_1962 and Sama_1963 are separated by 73 nucleotides Sama_1960: Sama_1960 - cold-shock DNA-binding domain-containing protein (RefSeq), at 2,389,189 to 2,389,401 _1960 Sama_1961: Sama_1961 - pyridoxamine 5'-phosphate oxidase (RefSeq), at 2,389,402 to 2,390,040 _1961 Sama_1962: Sama_1962 - adenosylmethionine decarboxylase (RefSeq), at 2,390,319 to 2,391,248 _1962 Sama_1963: Sama_1963 - arginine decarboxylase (RefSeq), at 2,391,322 to 2,393,232 _1963 Position (kb) 2390 2391 2392Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 2390.063 kb on - strandat 2390.175 kb on - strandat 2390.175 kb on - strandat 2390.188 kb on - strandat 2390.193 kb on + strandat 2390.193 kb on + strandat 2390.193 kb on + strandat 2390.194 kb on - strandat 2390.194 kb on - strandat 2390.194 kb on - strandat 2390.216 kb on + strandat 2390.217 kb on - strandat 2390.239 kb on - strandat 2390.239 kb on - strandat 2390.268 kb on + strandat 2390.269 kb on - strandat 2390.321 kb on - strandat 2390.321 kb on - strandat 2390.321 kb on - strandat 2390.362 kb on + strandat 2390.381 kb on + strandat 2390.382 kb on - strandat 2390.382 kb on - strandat 2390.382 kb on - strandat 2390.382 kb on - strandat 2390.382 kb on - strandat 2390.382 kb on - strandat 2390.382 kb on - strandat 2390.382 kb on - strandat 2390.496 kb on - strand, within Sama_1962at 2390.563 kb on + strand, within Sama_1962at 2390.564 kb on - strand, within Sama_1962at 2390.564 kb on - strand, within Sama_1962at 2390.564 kb on - strand, within Sama_1962at 2390.564 kb on - strand, within Sama_1962at 2390.564 kb on - strand, within Sama_1962at 2390.585 kb on + strand, within Sama_1962at 2390.586 kb on - strand, within Sama_1962at 2390.586 kb on - strand, within Sama_1962at 2390.586 kb on - strand, within Sama_1962at 2390.589 kb on - strand, within Sama_1962at 2390.627 kb on + strand, within Sama_1962at 2390.628 kb on - strand, within Sama_1962at 2390.628 kb on - strand, within Sama_1962at 2390.628 kb on - strand, within Sama_1962at 2390.628 kb on - strand, within Sama_1962at 2390.632 kb on + strand, within Sama_1962at 2390.633 kb on - strand, within Sama_1962at 2390.665 kb on - strand, within Sama_1962at 2390.740 kb on + strand, within Sama_1962at 2390.767 kb on + strand, within Sama_1962at 2390.768 kb on - strand, within Sama_1962at 2390.768 kb on - strand, within Sama_1962at 2390.768 kb on - strand, within Sama_1962at 2390.786 kb on + strand, within Sama_1962at 2390.787 kb on - strand, within Sama_1962at 2390.787 kb on - strand, within Sama_1962at 2390.810 kb on - strand, within Sama_1962at 2390.834 kb on - strand, within Sama_1962at 2390.959 kb on + strand, within Sama_1962at 2390.960 kb on - strand, within Sama_1962at 2390.960 kb on - strand, within Sama_1962at 2391.000 kb on - strand, within Sama_1962at 2391.000 kb on - strand, within Sama_1962at 2391.095 kb on - strand, within Sama_1962at 2391.095 kb on - strand, within Sama_1962at 2391.210 kb on + strandat 2391.211 kb on - strandat 2391.211 kb on - strandat 2391.257 kb on - strandat 2391.257 kb on - strandat 2391.277 kb on + strandat 2391.278 kb on - strandat 2391.313 kb on + strandat 2391.314 kb on - strandat 2391.314 kb on - strandat 2391.317 kb on - strandat 2391.324 kb on - strandat 2391.339 kb on - strandat 2391.339 kb on - strandat 2391.339 kb on - strandat 2391.345 kb on - strandat 2391.345 kb on - strandat 2391.426 kb on - strandat 2391.462 kb on - strandat 2391.470 kb on - strandat 2391.484 kb on - strandat 2391.484 kb on - strandat 2391.496 kb on + strandat 2391.497 kb on - strandat 2391.553 kb on - strand, within Sama_1963at 2391.553 kb on - strand, within Sama_1963at 2391.624 kb on - strand, within Sama_1963at 2391.670 kb on - strand, within Sama_1963at 2391.683 kb on - strand, within Sama_1963at 2391.683 kb on - strand, within Sama_1963at 2391.683 kb on - strand, within Sama_1963at 2391.686 kb on + strand, within Sama_1963at 2391.687 kb on - strand, within Sama_1963at 2391.687 kb on - strand, within Sama_1963at 2391.701 kb on - strand, within Sama_1963at 2391.834 kb on + strand, within Sama_1963at 2391.942 kb on + strand, within Sama_1963at 2391.943 kb on - strand, within Sama_1963at 2391.943 kb on - strand, within Sama_1963at 2391.943 kb on - strand, within Sama_1963at 2392.151 kb on + strand, within Sama_1963at 2392.152 kb on - strand, within Sama_1963at 2392.152 kb on - strand, within Sama_1963at 2392.152 kb on - strand, within Sama_1963at 2392.225 kb on - strand, within Sama_1963

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Per-strain Table

Position Strand Gene LocusTag Fraction a-Ketoglutaric
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2,390,063 - -0.9
2,390,175 - +2.3
2,390,175 - +0.0
2,390,188 - -1.1
2,390,193 + +0.9
2,390,193 + +2.0
2,390,193 + -0.4
2,390,194 - -0.8
2,390,194 - -0.9
2,390,194 - +0.1
2,390,216 + +0.7
2,390,217 - +0.8
2,390,239 - +0.9
2,390,239 - -1.0
2,390,268 + -1.3
2,390,269 - -0.3
2,390,321 - -1.9
2,390,321 - -0.9
2,390,321 - +0.2
2,390,362 + -1.1
2,390,381 + -1.6
2,390,382 - -3.2
2,390,382 - -2.0
2,390,382 - -3.5
2,390,382 - -2.3
2,390,382 - +0.5
2,390,382 - -3.5
2,390,382 - -3.7
2,390,382 - -2.3
2,390,496 - Sama_1962 0.19 -1.5
2,390,563 + Sama_1962 0.26 -1.3
2,390,564 - Sama_1962 0.26 -0.9
2,390,564 - Sama_1962 0.26 -2.6
2,390,564 - Sama_1962 0.26 -3.7
2,390,564 - Sama_1962 0.26 -2.6
2,390,564 - Sama_1962 0.26 -2.1
2,390,585 + Sama_1962 0.29 -2.8
2,390,586 - Sama_1962 0.29 -1.1
2,390,586 - Sama_1962 0.29 -0.9
2,390,586 - Sama_1962 0.29 -2.5
2,390,589 - Sama_1962 0.29 -3.5
2,390,627 + Sama_1962 0.33 +0.1
2,390,628 - Sama_1962 0.33 -2.4
2,390,628 - Sama_1962 0.33 -0.5
2,390,628 - Sama_1962 0.33 -2.5
2,390,628 - Sama_1962 0.33 -0.8
2,390,632 + Sama_1962 0.34 -1.6
2,390,633 - Sama_1962 0.34 -2.5
2,390,665 - Sama_1962 0.37 +0.1
2,390,740 + Sama_1962 0.45 -2.1
2,390,767 + Sama_1962 0.48 -2.1
2,390,768 - Sama_1962 0.48 -1.9
2,390,768 - Sama_1962 0.48 +0.1
2,390,768 - Sama_1962 0.48 +0.2
2,390,786 + Sama_1962 0.50 +0.7
2,390,787 - Sama_1962 0.50 -0.7
2,390,787 - Sama_1962 0.50 -3.7
2,390,810 - Sama_1962 0.53 +1.7
2,390,834 - Sama_1962 0.55 -1.3
2,390,959 + Sama_1962 0.69 -1.9
2,390,960 - Sama_1962 0.69 +1.5
2,390,960 - Sama_1962 0.69 -0.5
2,391,000 - Sama_1962 0.73 -0.9
2,391,000 - Sama_1962 0.73 -0.9
2,391,095 - Sama_1962 0.83 -1.9
2,391,095 - Sama_1962 0.83 -1.6
2,391,210 + -2.3
2,391,211 - -0.5
2,391,211 - -3.5
2,391,257 - -1.3
2,391,257 - -2.9
2,391,277 + +0.3
2,391,278 - -3.1
2,391,313 + -2.8
2,391,314 - -2.5
2,391,314 - -1.3
2,391,317 - +0.5
2,391,324 - -2.2
2,391,339 - -2.3
2,391,339 - -1.3
2,391,339 - -1.3
2,391,345 - -1.1
2,391,345 - -2.8
2,391,426 - -1.3
2,391,462 - -3.9
2,391,470 - -1.9
2,391,484 - -1.6
2,391,484 - +1.2
2,391,496 + -1.6
2,391,497 - -1.6
2,391,553 - Sama_1963 0.12 -2.1
2,391,553 - Sama_1963 0.12 -1.6
2,391,624 - Sama_1963 0.16 -1.8
2,391,670 - Sama_1963 0.18 -0.9
2,391,683 - Sama_1963 0.19 -0.9
2,391,683 - Sama_1963 0.19 -3.9
2,391,683 - Sama_1963 0.19 -2.3
2,391,686 + Sama_1963 0.19 -3.1
2,391,687 - Sama_1963 0.19 -3.8
2,391,687 - Sama_1963 0.19 -0.6
2,391,701 - Sama_1963 0.20 -2.3
2,391,834 + Sama_1963 0.27 -1.6
2,391,942 + Sama_1963 0.32 -1.6
2,391,943 - Sama_1963 0.32 -2.6
2,391,943 - Sama_1963 0.32 -1.3
2,391,943 - Sama_1963 0.32 -3.8
2,392,151 + Sama_1963 0.43 -1.9
2,392,152 - Sama_1963 0.43 -2.0
2,392,152 - Sama_1963 0.43 -0.2
2,392,152 - Sama_1963 0.43 -0.3
2,392,225 - Sama_1963 0.47 +0.4

Or see this region's nucleotide sequence