Strain Fitness in Pseudomonas putida KT2440 around PP_0029

Experiment: pH 4

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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_0028 and PP_5422 are separated by 198 nucleotidesPP_5422 and PP_0029 are separated by 317 nucleotidesPP_0029 and PP_0030 overlap by 4 nucleotides PP_0028: PP_0028 - conserved hypothetical protein, at 31,877 to 32,203 _0028 PP_5422: PP_5422 - hypothetical protein, at 32,402 to 32,575 _5422 PP_0029: PP_0029 - two component heavy metal response regulator, at 32,893 to 33,567 _0029 PP_0030: PP_0030 - metal-sensor histidine kinase, at 33,564 to 34,982 _0030 Position (kb) 32 33 34Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3 4at 31.947 kb on + strand, within PP_0028at 31.964 kb on + strand, within PP_0028at 31.965 kb on - strand, within PP_0028at 31.965 kb on - strand, within PP_0028at 31.965 kb on - strand, within PP_0028at 31.965 kb on - strand, within PP_0028at 31.994 kb on + strand, within PP_0028at 31.994 kb on + strand, within PP_0028at 31.994 kb on + strand, within PP_0028at 31.995 kb on - strand, within PP_0028at 31.995 kb on - strand, within PP_0028at 31.995 kb on - strand, within PP_0028at 31.998 kb on + strand, within PP_0028at 31.998 kb on + strand, within PP_0028at 31.998 kb on + strand, within PP_0028at 31.998 kb on + strand, within PP_0028at 31.998 kb on + strand, within PP_0028at 31.998 kb on + strand, within PP_0028at 31.999 kb on - strand, within PP_0028at 31.999 kb on - strand, within PP_0028at 31.999 kb on - strand, within PP_0028at 32.009 kb on - strand, within PP_0028at 32.038 kb on - strand, within PP_0028at 32.079 kb on + strand, within PP_0028at 32.098 kb on + strand, within PP_0028at 32.099 kb on - strand, within PP_0028at 32.104 kb on + strand, within PP_0028at 32.105 kb on - strand, within PP_0028at 32.119 kb on + strand, within PP_0028at 32.119 kb on + strandat 32.190 kb on - strandat 32.204 kb on - strandat 32.204 kb on - strandat 32.255 kb on - strandat 32.268 kb on - strandat 32.268 kb on - strandat 32.440 kb on + strand, within PP_5422at 32.445 kb on + strand, within PP_5422at 32.556 kb on + strand, within PP_5422at 32.557 kb on - strand, within PP_5422at 32.573 kb on + strandat 32.573 kb on + strandat 32.574 kb on - strandat 32.629 kb on + strandat 32.629 kb on + strandat 32.630 kb on - strandat 32.630 kb on - strandat 32.701 kb on + strandat 32.702 kb on - strandat 32.844 kb on + strandat 32.859 kb on - strandat 32.904 kb on - strandat 32.922 kb on + strandat 32.936 kb on - strandat 32.965 kb on + strand, within PP_0029at 32.965 kb on + strand, within PP_0029at 32.965 kb on + strand, within PP_0029at 32.977 kb on - strand, within PP_0029at 32.994 kb on - strand, within PP_0029at 32.994 kb on - strand, within PP_0029at 32.994 kb on - strand, within PP_0029at 33.017 kb on + strand, within PP_0029at 33.018 kb on + strand, within PP_0029at 33.019 kb on - strand, within PP_0029at 33.093 kb on + strand, within PP_0029at 33.093 kb on + strand, within PP_0029at 33.094 kb on - strand, within PP_0029at 33.094 kb on - strand, within PP_0029at 33.094 kb on - strand, within PP_0029at 33.181 kb on + strand, within PP_0029at 33.181 kb on + strand, within PP_0029at 33.181 kb on + strand, within PP_0029at 33.182 kb on - strand, within PP_0029at 33.182 kb on - strand, within PP_0029at 33.182 kb on - strand, within PP_0029at 33.255 kb on - strand, within PP_0029at 33.255 kb on - strand, within PP_0029at 33.467 kb on + strand, within PP_0029at 33.467 kb on + strand, within PP_0029at 33.468 kb on - strand, within PP_0029at 33.468 kb on - strand, within PP_0029at 33.598 kb on + strandat 33.651 kb on + strandat 33.662 kb on - strandat 33.704 kb on - strandat 33.810 kb on + strand, within PP_0030at 33.810 kb on + strandat 33.811 kb on - strand, within PP_0030at 33.820 kb on + strand, within PP_0030at 33.820 kb on + strand, within PP_0030at 33.821 kb on - strand, within PP_0030at 33.821 kb on - strand, within PP_0030at 33.824 kb on - strand, within PP_0030at 33.935 kb on + strand, within PP_0030at 33.935 kb on + strand, within PP_0030at 33.936 kb on - strand, within PP_0030at 33.936 kb on - strand, within PP_0030at 34.005 kb on + strand, within PP_0030at 34.005 kb on + strand, within PP_0030at 34.005 kb on + strand, within PP_0030at 34.005 kb on + strand, within PP_0030at 34.006 kb on - strand, within PP_0030at 34.006 kb on - strand, within PP_0030at 34.006 kb on - strand, within PP_0030at 34.006 kb on - strand, within PP_0030at 34.006 kb on - strand, within PP_0030at 34.006 kb on - strand, within PP_0030at 34.006 kb on - strand, within PP_0030at 34.006 kb on - strand, within PP_0030at 34.007 kb on + strand, within PP_0030at 34.007 kb on + strand, within PP_0030at 34.007 kb on + strand, within PP_0030at 34.007 kb on + strand, within PP_0030at 34.007 kb on + strand, within PP_0030at 34.007 kb on + strand, within PP_0030at 34.007 kb on + strand, within PP_0030at 34.008 kb on - strand, within PP_0030at 34.008 kb on - strand, within PP_0030at 34.008 kb on - strand, within PP_0030at 34.008 kb on - strand, within PP_0030at 34.008 kb on - strand, within PP_0030at 34.008 kb on - strand, within PP_0030at 34.008 kb on - strand, within PP_0030at 34.135 kb on + strand, within PP_0030at 34.135 kb on + strand, within PP_0030at 34.136 kb on - strand, within PP_0030at 34.136 kb on - strand, within PP_0030

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Per-strain Table

Position Strand Gene LocusTag Fraction pH 4
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31,947 + PP_0028 0.21 -0.0
31,964 + PP_0028 0.27 +1.4
31,965 - PP_0028 0.27 -1.2
31,965 - PP_0028 0.27 +0.2
31,965 - PP_0028 0.27 -0.5
31,965 - PP_0028 0.27 -0.8
31,994 + PP_0028 0.36 +0.4
31,994 + PP_0028 0.36 +0.4
31,994 + PP_0028 0.36 -1.1
31,995 - PP_0028 0.36 -1.0
31,995 - PP_0028 0.36 -0.7
31,995 - PP_0028 0.36 +0.7
31,998 + PP_0028 0.37 -1.8
31,998 + PP_0028 0.37 +4.0
31,998 + PP_0028 0.37 +1.5
31,998 + PP_0028 0.37 +0.9
31,998 + PP_0028 0.37 -2.0
31,998 + PP_0028 0.37 -1.1
31,999 - PP_0028 0.37 +1.1
31,999 - PP_0028 0.37 -0.2
31,999 - PP_0028 0.37 -0.0
32,009 - PP_0028 0.40 -0.6
32,038 - PP_0028 0.49 -0.6
32,079 + PP_0028 0.62 +0.4
32,098 + PP_0028 0.68 -0.5
32,099 - PP_0028 0.68 +0.2
32,104 + PP_0028 0.69 -0.4
32,105 - PP_0028 0.70 +1.4
32,119 + PP_0028 0.74 -0.3
32,119 + +0.4
32,190 - +0.0
32,204 - +2.0
32,204 - -0.2
32,255 - +2.0
32,268 - -1.9
32,268 - -2.9
32,440 + PP_5422 0.22 +2.3
32,445 + PP_5422 0.25 +0.2
32,556 + PP_5422 0.89 +0.1
32,557 - PP_5422 0.89 -2.4
32,573 + -1.4
32,573 + -1.9
32,574 - -3.3
32,629 + -1.3
32,629 + +1.4
32,630 - -2.6
32,630 - -3.2
32,701 + +1.3
32,702 - +0.4
32,844 + +0.4
32,859 - -2.5
32,904 - -0.3
32,922 + +0.4
32,936 - +0.6
32,965 + PP_0029 0.11 +0.2
32,965 + PP_0029 0.11 -0.1
32,965 + PP_0029 0.11 +0.5
32,977 - PP_0029 0.12 +0.2
32,994 - PP_0029 0.15 -0.1
32,994 - PP_0029 0.15 +1.2
32,994 - PP_0029 0.15 +0.1
33,017 + PP_0029 0.18 +1.9
33,018 + PP_0029 0.19 -0.5
33,019 - PP_0029 0.19 -0.8
33,093 + PP_0029 0.30 +0.7
33,093 + PP_0029 0.30 -0.8
33,094 - PP_0029 0.30 +2.4
33,094 - PP_0029 0.30 +0.4
33,094 - PP_0029 0.30 -0.3
33,181 + PP_0029 0.43 -2.8
33,181 + PP_0029 0.43 +0.6
33,181 + PP_0029 0.43 +0.5
33,182 - PP_0029 0.43 +0.4
33,182 - PP_0029 0.43 -1.2
33,182 - PP_0029 0.43 -3.3
33,255 - PP_0029 0.54 +0.5
33,255 - PP_0029 0.54 +2.4
33,467 + PP_0029 0.85 +0.4
33,467 + PP_0029 0.85 -0.8
33,468 - PP_0029 0.85 +0.7
33,468 - PP_0029 0.85 +0.7
33,598 + -0.6
33,651 + +1.8
33,662 - -1.9
33,704 - +1.5
33,810 + PP_0030 0.17 -0.6
33,810 + +0.4
33,811 - PP_0030 0.17 -1.6
33,820 + PP_0030 0.18 -1.5
33,820 + PP_0030 0.18 -2.9
33,821 - PP_0030 0.18 +0.4
33,821 - PP_0030 0.18 +0.9
33,824 - PP_0030 0.18 -0.0
33,935 + PP_0030 0.26 +0.3
33,935 + PP_0030 0.26 +0.4
33,936 - PP_0030 0.26 -0.3
33,936 - PP_0030 0.26 -1.3
34,005 + PP_0030 0.31 -0.5
34,005 + PP_0030 0.31 +0.7
34,005 + PP_0030 0.31 +0.4
34,005 + PP_0030 0.31 -0.7
34,006 - PP_0030 0.31 +0.4
34,006 - PP_0030 0.31 -0.8
34,006 - PP_0030 0.31 -1.9
34,006 - PP_0030 0.31 -0.9
34,006 - PP_0030 0.31 +2.7
34,006 - PP_0030 0.31 +1.2
34,006 - PP_0030 0.31 +1.4
34,006 - PP_0030 0.31 +2.0
34,007 + PP_0030 0.31 -1.6
34,007 + PP_0030 0.31 -2.1
34,007 + PP_0030 0.31 -0.6
34,007 + PP_0030 0.31 +2.7
34,007 + PP_0030 0.31 +0.4
34,007 + PP_0030 0.31 +0.1
34,007 + PP_0030 0.31 -1.6
34,008 - PP_0030 0.31 +0.4
34,008 - PP_0030 0.31 +0.4
34,008 - PP_0030 0.31 +0.4
34,008 - PP_0030 0.31 -1.1
34,008 - PP_0030 0.31 -0.6
34,008 - PP_0030 0.31 -0.7
34,008 - PP_0030 0.31 -1.2
34,135 + PP_0030 0.40 +3.4
34,135 + PP_0030 0.40 -2.9
34,136 - PP_0030 0.40 +0.4
34,136 - PP_0030 0.40 -0.4

Or see this region's nucleotide sequence