Strain Fitness in Pseudomonas putida KT2440 around PP_1418

Experiment: Growth at pH6 and (C) Trisodium citrate

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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 ntPP_1416 and PP_1417 are separated by 1 nucleotidesPP_1417 and PP_1418 are separated by 172 nucleotidesPP_1418 and PP_1419 are separated by 46 nucleotides PP_1416: PP_1416 - putative Tricarboxylate transport protein TctA, at 1,615,744 to 1,617,258 _1416 PP_1417: PP_1417 - putative Tricarboxylate transport protein TctB, at 1,617,260 to 1,617,745 _1417 PP_1418: PP_1418 - putative Tricarboxylate transport protein TctC, at 1,617,918 to 1,618,898 _1418 PP_1419: PP_1419 - tricarboxylate-specific outer membrane porin, at 1,618,945 to 1,620,234 _1419 Position (kb) 1617 1618 1619Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 1617.207 kb on - strandat 1617.242 kb on + strandat 1617.243 kb on - strandat 1617.243 kb on - strandat 1617.252 kb on + strandat 1617.561 kb on + strand, within PP_1417at 1617.561 kb on + strand, within PP_1417at 1617.561 kb on + strand, within PP_1417at 1617.561 kb on + strand, within PP_1417at 1617.562 kb on - strand, within PP_1417at 1617.627 kb on + strand, within PP_1417at 1617.628 kb on - strand, within PP_1417at 1617.646 kb on - strand, within PP_1417at 1617.646 kb on - strand, within PP_1417at 1617.646 kb on - strand, within PP_1417at 1617.804 kb on + strandat 1617.825 kb on + strandat 1617.826 kb on - strandat 1617.826 kb on - strandat 1617.826 kb on - strandat 1617.838 kb on - strandat 1617.919 kb on + strandat 1617.920 kb on - strandat 1617.955 kb on + strandat 1617.956 kb on - strandat 1617.956 kb on - strandat 1617.979 kb on + strandat 1617.979 kb on + strandat 1617.980 kb on - strandat 1617.980 kb on - strandat 1618.093 kb on + strand, within PP_1418at 1618.093 kb on + strand, within PP_1418at 1618.093 kb on + strand, within PP_1418at 1618.123 kb on + strand, within PP_1418at 1618.124 kb on - strand, within PP_1418at 1618.348 kb on + strand, within PP_1418at 1618.495 kb on + strand, within PP_1418at 1618.496 kb on - strand, within PP_1418at 1618.528 kb on + strand, within PP_1418at 1618.528 kb on + strand, within PP_1418at 1618.529 kb on - strand, within PP_1418at 1618.602 kb on - strand, within PP_1418at 1618.672 kb on + strand, within PP_1418at 1618.673 kb on - strand, within PP_1418at 1618.702 kb on + strand, within PP_1418at 1618.702 kb on + strand, within PP_1418at 1618.702 kb on + strand, within PP_1418at 1618.702 kb on + strand, within PP_1418at 1618.703 kb on - strand, within PP_1418at 1618.703 kb on - strand, within PP_1418at 1618.703 kb on - strand, within PP_1418at 1618.703 kb on - strand, within PP_1418at 1618.740 kb on + strand, within PP_1418at 1618.740 kb on + strand, within PP_1418at 1618.741 kb on - strand, within PP_1418at 1618.939 kb on - strandat 1618.964 kb on + strandat 1618.964 kb on + strandat 1618.965 kb on - strandat 1618.965 kb on - strandat 1618.965 kb on - strandat 1619.065 kb on + strandat 1619.066 kb on - strandat 1619.066 kb on - strandat 1619.066 kb on - strandat 1619.073 kb on - strandat 1619.073 kb on - strandat 1619.073 kb on - strandat 1619.147 kb on + strand, within PP_1419at 1619.196 kb on - strand, within PP_1419at 1619.202 kb on - strand, within PP_1419at 1619.268 kb on - strand, within PP_1419at 1619.268 kb on - strand, within PP_1419at 1619.289 kb on - strand, within PP_1419at 1619.355 kb on - strand, within PP_1419at 1619.355 kb on - strand, within PP_1419at 1619.501 kb on + strand, within PP_1419at 1619.506 kb on - strand, within PP_1419at 1619.506 kb on - strand, within PP_1419at 1619.528 kb on + strand, within PP_1419at 1619.528 kb on + strand, within PP_1419at 1619.558 kb on + strand, within PP_1419at 1619.559 kb on - strand, within PP_1419at 1619.855 kb on + strand, within PP_1419

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Per-strain Table

Position Strand Gene LocusTag Fraction Growth at pH6 and (C) Trisodium citrate
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1,617,207 - -1.3
1,617,242 + -0.4
1,617,243 - -3.4
1,617,243 - +0.0
1,617,252 + -1.9
1,617,561 + PP_1417 0.62 -4.5
1,617,561 + PP_1417 0.62 -2.8
1,617,561 + PP_1417 0.62 -4.6
1,617,561 + PP_1417 0.62 -2.4
1,617,562 - PP_1417 0.62 -2.1
1,617,627 + PP_1417 0.76 -0.1
1,617,628 - PP_1417 0.76 -3.4
1,617,646 - PP_1417 0.79 -1.3
1,617,646 - PP_1417 0.79 -3.6
1,617,646 - PP_1417 0.79 -0.1
1,617,804 + -1.1
1,617,825 + -1.5
1,617,826 - -1.0
1,617,826 - -3.1
1,617,826 - +2.6
1,617,838 - -0.6
1,617,919 + -3.0
1,617,920 - +1.9
1,617,955 + -4.0
1,617,956 - -1.4
1,617,956 - +1.0
1,617,979 + -3.9
1,617,979 + -3.7
1,617,980 - -4.6
1,617,980 - -2.1
1,618,093 + PP_1418 0.18 -4.0
1,618,093 + PP_1418 0.18 -2.0
1,618,093 + PP_1418 0.18 -2.4
1,618,123 + PP_1418 0.21 -2.0
1,618,124 - PP_1418 0.21 -3.7
1,618,348 + PP_1418 0.44 -3.8
1,618,495 + PP_1418 0.59 -3.2
1,618,496 - PP_1418 0.59 -4.0
1,618,528 + PP_1418 0.62 -3.7
1,618,528 + PP_1418 0.62 +0.5
1,618,529 - PP_1418 0.62 -2.8
1,618,602 - PP_1418 0.70 -3.6
1,618,672 + PP_1418 0.77 -4.5
1,618,673 - PP_1418 0.77 -2.2
1,618,702 + PP_1418 0.80 -3.9
1,618,702 + PP_1418 0.80 -3.5
1,618,702 + PP_1418 0.80 -3.5
1,618,702 + PP_1418 0.80 -3.0
1,618,703 - PP_1418 0.80 -3.6
1,618,703 - PP_1418 0.80 -3.0
1,618,703 - PP_1418 0.80 -3.1
1,618,703 - PP_1418 0.80 -4.3
1,618,740 + PP_1418 0.84 -4.3
1,618,740 + PP_1418 0.84 -2.6
1,618,741 - PP_1418 0.84 -0.8
1,618,939 - +0.9
1,618,964 + -0.9
1,618,964 + -3.4
1,618,965 - -1.6
1,618,965 - +0.6
1,618,965 - +0.1
1,619,065 + +0.6
1,619,066 - +0.4
1,619,066 - +1.3
1,619,066 - -2.5
1,619,073 - -1.9
1,619,073 - -4.0
1,619,073 - -0.8
1,619,147 + PP_1419 0.16 -2.4
1,619,196 - PP_1419 0.19 -1.4
1,619,202 - PP_1419 0.20 +0.0
1,619,268 - PP_1419 0.25 +0.5
1,619,268 - PP_1419 0.25 -3.0
1,619,289 - PP_1419 0.27 +0.3
1,619,355 - PP_1419 0.32 +0.2
1,619,355 - PP_1419 0.32 -0.4
1,619,501 + PP_1419 0.43 -0.5
1,619,506 - PP_1419 0.43 -0.4
1,619,506 - PP_1419 0.43 -4.4
1,619,528 + PP_1419 0.45 -4.0
1,619,528 + PP_1419 0.45 -4.0
1,619,558 + PP_1419 0.48 +0.8
1,619,559 - PP_1419 0.48 -0.2
1,619,855 + PP_1419 0.71 -3.4

Or see this region's nucleotide sequence