Strain Fitness in Pseudomonas putida KT2440 around PP_5004

Experiment: Dimethyl Sulfoxide 1 vol%

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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 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 Position (kb) 5701 5702 5703Strain fitness (log2 ratio) -2 -1 0 1 2 3at 5700.330 kb on + strandat 5700.428 kb on + strand, within PP_5003at 5700.429 kb on - strand, within PP_5003at 5700.447 kb on + strand, within PP_5003at 5700.447 kb on + strand, within PP_5003at 5700.447 kb on + strand, within PP_5003at 5700.577 kb on - strand, within PP_5003at 5700.577 kb on - strand, within PP_5003at 5700.655 kb on - strand, within PP_5003at 5700.670 kb on - strand, within PP_5003at 5700.670 kb on - strand, within PP_5003at 5700.852 kb on + strandat 5700.852 kb on + strand, within PP_5003at 5700.853 kb on - strand, within PP_5003at 5700.853 kb on - strand, within PP_5003at 5700.853 kb on - strand, within PP_5003at 5700.853 kb on - strand, within PP_5003at 5700.853 kb on - strand, within PP_5003at 5700.940 kb on + strand, within PP_5003at 5700.941 kb on - strand, within PP_5003at 5701.151 kb on + strandat 5701.152 kb on - strandat 5701.155 kb on + strandat 5701.155 kb on + strandat 5701.155 kb on + strandat 5701.155 kb on + strandat 5701.156 kb on - strandat 5701.156 kb on - strandat 5701.156 kb on - strandat 5701.156 kb on - strandat 5701.156 kb on - strandat 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_5005

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Per-strain Table

Position Strand Gene LocusTag Fraction Dimethyl Sulfoxide 1 vol%
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5,700,330 + +0.8
5,700,428 + PP_5003 0.54 +0.1
5,700,429 - PP_5003 0.54 +0.2
5,700,447 + PP_5003 0.55 +0.7
5,700,447 + PP_5003 0.55 -0.8
5,700,447 + PP_5003 0.55 +0.3
5,700,577 - PP_5003 0.63 +0.3
5,700,577 - PP_5003 0.63 -0.1
5,700,655 - PP_5003 0.67 -0.3
5,700,670 - PP_5003 0.68 -0.1
5,700,670 - PP_5003 0.68 +0.1
5,700,852 + +1.0
5,700,852 + PP_5003 0.79 -0.2
5,700,853 - PP_5003 0.79 +0.4
5,700,853 - PP_5003 0.79 -0.0
5,700,853 - PP_5003 0.79 +0.8
5,700,853 - PP_5003 0.79 -0.4
5,700,853 - PP_5003 0.79 +0.0
5,700,940 + PP_5003 0.84 -0.1
5,700,941 - PP_5003 0.84 +0.0
5,701,151 + +0.3
5,701,152 - +0.3
5,701,155 + +0.0
5,701,155 + +0.1
5,701,155 + +0.3
5,701,155 + -0.1
5,701,156 - -0.2
5,701,156 - +0.1
5,701,156 - +0.3
5,701,156 - +0.3
5,701,156 - +0.1
5,701,185 + +0.0
5,701,185 + +0.1
5,701,185 + +0.0
5,701,186 - +0.3
5,701,186 - -0.7
5,701,205 + +0.4
5,701,242 + +0.1
5,701,243 - +0.8
5,701,367 - PP_5004 0.12 -0.2
5,701,472 - PP_5004 0.24 -0.4
5,701,533 - PP_5004 0.31 -0.1
5,701,533 - PP_5004 0.31 -0.1
5,701,541 + PP_5004 0.32 -0.6
5,701,660 - PP_5004 0.46 -0.5
5,701,713 - PP_5004 0.53 +0.3
5,701,754 + PP_5004 0.57 +0.3
5,701,755 - PP_5004 0.58 +0.1
5,701,755 - PP_5004 0.58 +0.1
5,701,833 - PP_5004 0.67 -0.5
5,701,835 + PP_5004 0.67 -0.3
5,701,835 + PP_5004 0.67 +0.0
5,701,835 + PP_5004 0.67 +0.3
5,701,836 - PP_5004 0.67 -0.2
5,701,986 + PP_5004 0.85 +0.0
5,701,986 + PP_5004 0.85 +0.0
5,701,986 + PP_5004 0.85 -0.7
5,701,987 - PP_5004 0.85 +0.0
5,702,310 - +0.3
5,702,434 - PP_5005 0.16 -0.4
5,702,455 - PP_5005 0.17 -0.2
5,702,455 - PP_5005 0.17 +0.3
5,702,455 - +3.2
5,702,455 - PP_5005 0.17 +0.2
5,702,455 - PP_5005 0.17 -0.6
5,702,850 + PP_5005 0.41 +0.8
5,702,851 - PP_5005 0.41 +0.0
5,702,889 + PP_5005 0.43 +0.6
5,702,889 + PP_5005 0.43 -0.1
5,702,889 + PP_5005 0.43 -0.2
5,702,889 + PP_5005 0.43 +0.1
5,702,890 - PP_5005 0.43 +0.2
5,702,890 - PP_5005 0.43 -0.1
5,702,890 - PP_5005 0.43 +0.3
5,702,890 - PP_5005 0.43 +0.3
5,702,890 - PP_5005 0.43 -1.9
5,702,890 - PP_5005 0.43 -0.0
5,702,973 + PP_5005 0.48 -0.1
5,702,973 + PP_5005 0.48 +0.3
5,702,973 + PP_5005 0.48 -0.5
5,702,974 - PP_5005 0.48 +0.3
5,703,015 - PP_5005 0.50 +0.4

Or see this region's nucleotide sequence