Strain Fitness in Pseudomonas putida KT2440 around PP_5005

Experiment: R2A with Fusaric 480 ug/mL

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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_5003 and PP_5004 are separated by 62 nucleotidesPP_5004 and PP_5005 are separated by 49 nucleotidesPP_5005 and PP_5006 are separated by 12 nucleotidesPP_5006 and PP_5007 are separated by 111 nucleotides PP_5003: PP_5003 - poly(3-hydroxyalkanoate) polymerase 1, at 5,699,523 to 5,701,202 _5003 PP_5004: PP_5004 - Poly(3-hydroxyalkanoate) depolymerase, at 5,701,265 to 5,702,116 _5004 PP_5005: PP_5005 - Poly(3-hydroxyalkanoate) polymerase 2, at 5,702,166 to 5,703,848 _5005 PP_5006: PP_5006 - Transcriptional regulator, TetR family, at 5,703,861 to 5,704,475 _5006 PP_5007: PP_5007 - Polyhydroxyalkanoate granule-associated protein GA2, at 5,704,587 to 5,705,372 _5007 Position (kb) 5702 5703 5704Strain fitness (log2 ratio) -2 -1 0 1 2at 5701.185 kb on + strandat 5701.185 kb on + strandat 5701.185 kb on + strandat 5701.186 kb on - strandat 5701.186 kb on - strandat 5701.205 kb on + strandat 5701.242 kb on + strandat 5701.243 kb on - strandat 5701.367 kb on - strand, within PP_5004at 5701.472 kb on - strand, within PP_5004at 5701.533 kb on - strand, within PP_5004at 5701.533 kb on - strand, within PP_5004at 5701.541 kb on + strand, within PP_5004at 5701.660 kb on - strand, within PP_5004at 5701.713 kb on - strand, within PP_5004at 5701.754 kb on + strand, within PP_5004at 5701.755 kb on - strand, within PP_5004at 5701.755 kb on - strand, within PP_5004at 5701.833 kb on - strand, within PP_5004at 5701.835 kb on + strand, within PP_5004at 5701.835 kb on + strand, within PP_5004at 5701.835 kb on + strand, within PP_5004at 5701.836 kb on - strand, within PP_5004at 5701.986 kb on + strand, within PP_5004at 5701.986 kb on + strand, within PP_5004at 5701.986 kb on + strand, within PP_5004at 5701.987 kb on - strand, within PP_5004at 5702.310 kb on - strandat 5702.434 kb on - strand, within PP_5005at 5702.455 kb on - strand, within PP_5005at 5702.455 kb on - strand, within PP_5005at 5702.455 kb on - strandat 5702.455 kb on - strand, within PP_5005at 5702.455 kb on - strand, within PP_5005at 5702.850 kb on + strand, within PP_5005at 5702.851 kb on - strand, within PP_5005at 5702.889 kb on + strand, within PP_5005at 5702.889 kb on + strand, within PP_5005at 5702.889 kb on + strand, within PP_5005at 5702.889 kb on + strand, within PP_5005at 5702.890 kb on - strand, within PP_5005at 5702.890 kb on - strand, within PP_5005at 5702.890 kb on - strand, within PP_5005at 5702.890 kb on - strand, within PP_5005at 5702.890 kb on - strand, within PP_5005at 5702.890 kb on - strand, within PP_5005at 5702.973 kb on + strand, within PP_5005at 5702.973 kb on + strand, within PP_5005at 5702.973 kb on + strand, within PP_5005at 5702.974 kb on - strand, within PP_5005at 5703.015 kb on - strand, within PP_5005at 5703.132 kb on + strand, within PP_5005at 5703.132 kb on + strand, within PP_5005at 5703.300 kb on + strand, within PP_5005at 5703.435 kb on + strand, within PP_5005at 5703.436 kb on - strand, within PP_5005at 5703.546 kb on + strand, within PP_5005at 5703.645 kb on + strand, within PP_5005at 5703.645 kb on + strand, within PP_5005at 5703.648 kb on + strand, within PP_5005at 5703.648 kb on + strand, within PP_5005at 5703.648 kb on + strand, within PP_5005at 5703.648 kb on + strand, within PP_5005at 5703.649 kb on - strand, within PP_5005at 5703.649 kb on - strand, within PP_5005at 5703.779 kb on + strandat 5703.779 kb on + strandat 5703.779 kb on + strandat 5703.801 kb on + strandat 5703.801 kb on + strandat 5703.801 kb on + strandat 5703.831 kb on + strandat 5703.831 kb on + strandat 5703.831 kb on + strandat 5703.831 kb on + strandat 5703.831 kb on + strandat 5703.831 kb on + strandat 5703.831 kb on + strandat 5703.831 kb on + strandat 5703.832 kb on - strandat 5703.832 kb on - strandat 5703.832 kb on - strandat 5703.928 kb on + strand, within PP_5006at 5703.929 kb on - strand, within PP_5006at 5703.978 kb on + strand, within PP_5006at 5703.979 kb on - strand, within PP_5006at 5703.981 kb on + strand, within PP_5006at 5703.981 kb on + strand, within PP_5006at 5703.982 kb on - strand, within PP_5006at 5703.982 kb on - strand, within PP_5006at 5704.135 kb on - strand, within PP_5006at 5704.271 kb on - strand, within PP_5006at 5704.280 kb on + strand, within PP_5006at 5704.281 kb on - strand, within PP_5006at 5704.386 kb on + strand, within PP_5006at 5704.386 kb on + strand, within PP_5006at 5704.386 kb on + strand, within PP_5006at 5704.490 kb on + strandat 5704.490 kb on + strandat 5704.490 kb on + strandat 5704.490 kb on + strandat 5704.490 kb on + strandat 5704.491 kb on - strandat 5704.491 kb on - strandat 5704.491 kb on - strandat 5704.529 kb on + strandat 5704.529 kb on + strandat 5704.550 kb on + strandat 5704.551 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction R2A with Fusaric 480 ug/mL
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5,701,185 + +0.2
5,701,185 + +0.4
5,701,185 + +0.3
5,701,186 - +0.8
5,701,186 - +0.3
5,701,205 + +0.3
5,701,242 + +0.5
5,701,243 - -1.1
5,701,367 - PP_5004 0.12 +0.1
5,701,472 - PP_5004 0.24 -0.7
5,701,533 - PP_5004 0.31 +0.0
5,701,533 - PP_5004 0.31 +0.0
5,701,541 + PP_5004 0.32 +0.9
5,701,660 - PP_5004 0.46 +0.6
5,701,713 - PP_5004 0.53 +0.7
5,701,754 + PP_5004 0.57 +0.7
5,701,755 - PP_5004 0.58 -2.0
5,701,755 - PP_5004 0.58 -0.6
5,701,833 - PP_5004 0.67 +0.3
5,701,835 + PP_5004 0.67 -1.1
5,701,835 + PP_5004 0.67 -0.4
5,701,835 + PP_5004 0.67 -1.0
5,701,836 - PP_5004 0.67 -0.5
5,701,986 + PP_5004 0.85 +0.0
5,701,986 + PP_5004 0.85 -1.1
5,701,986 + PP_5004 0.85 -0.7
5,701,987 - PP_5004 0.85 +1.4
5,702,310 - +0.1
5,702,434 - PP_5005 0.16 +0.9
5,702,455 - PP_5005 0.17 +1.3
5,702,455 - PP_5005 0.17 +0.7
5,702,455 - +0.5
5,702,455 - PP_5005 0.17 +0.6
5,702,455 - PP_5005 0.17 +1.4
5,702,850 + PP_5005 0.41 +0.9
5,702,851 - PP_5005 0.41 +0.6
5,702,889 + PP_5005 0.43 -0.4
5,702,889 + PP_5005 0.43 +1.8
5,702,889 + PP_5005 0.43 -0.1
5,702,889 + PP_5005 0.43 +0.4
5,702,890 - PP_5005 0.43 +1.0
5,702,890 - PP_5005 0.43 -0.2
5,702,890 - PP_5005 0.43 +0.2
5,702,890 - PP_5005 0.43 +0.4
5,702,890 - PP_5005 0.43 +0.9
5,702,890 - PP_5005 0.43 +0.5
5,702,973 + PP_5005 0.48 -0.6
5,702,973 + PP_5005 0.48 +0.3
5,702,973 + PP_5005 0.48 +1.1
5,702,974 - PP_5005 0.48 +1.2
5,703,015 - PP_5005 0.50 +0.6
5,703,132 + PP_5005 0.57 +0.4
5,703,132 + PP_5005 0.57 +1.1
5,703,300 + PP_5005 0.67 -0.7
5,703,435 + PP_5005 0.75 +0.8
5,703,436 - PP_5005 0.75 +0.4
5,703,546 + PP_5005 0.82 -0.1
5,703,645 + PP_5005 0.88 +0.7
5,703,645 + PP_5005 0.88 -0.2
5,703,648 + PP_5005 0.88 +0.0
5,703,648 + PP_5005 0.88 +1.1
5,703,648 + PP_5005 0.88 +0.5
5,703,648 + PP_5005 0.88 +0.9
5,703,649 - PP_5005 0.88 -0.2
5,703,649 - PP_5005 0.88 +0.3
5,703,779 + -0.7
5,703,779 + +0.3
5,703,779 + +1.0
5,703,801 + +0.3
5,703,801 + +0.9
5,703,801 + +0.7
5,703,831 + +0.5
5,703,831 + +0.7
5,703,831 + +0.1
5,703,831 + +0.7
5,703,831 + +1.1
5,703,831 + +0.3
5,703,831 + +1.0
5,703,831 + +0.5
5,703,832 - +0.7
5,703,832 - +0.6
5,703,832 - +1.0
5,703,928 + PP_5006 0.11 +0.7
5,703,929 - PP_5006 0.11 +0.3
5,703,978 + PP_5006 0.19 +0.7
5,703,979 - PP_5006 0.19 +0.4
5,703,981 + PP_5006 0.20 +1.2
5,703,981 + PP_5006 0.20 +0.2
5,703,982 - PP_5006 0.20 +0.1
5,703,982 - PP_5006 0.20 +0.3
5,704,135 - PP_5006 0.45 -0.1
5,704,271 - PP_5006 0.67 -2.4
5,704,280 + PP_5006 0.68 -0.2
5,704,281 - PP_5006 0.68 +0.7
5,704,386 + PP_5006 0.85 +1.1
5,704,386 + PP_5006 0.85 +0.7
5,704,386 + PP_5006 0.85 +0.4
5,704,490 + +0.4
5,704,490 + +0.3
5,704,490 + +0.6
5,704,490 + -2.2
5,704,490 + -0.1
5,704,491 - +0.3
5,704,491 - +0.2
5,704,491 - +0.1
5,704,529 + -0.7
5,704,529 + +1.0
5,704,550 + -0.8
5,704,551 - -0.2

Or see this region's nucleotide sequence