Strain Fitness in Pseudomonas putida KT2440 around PP_3843

Experiment: 24hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% DO.

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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_3842 and PP_3843 are separated by 125 nucleotidesPP_3843 and PP_3844 are separated by 179 nucleotides PP_3842: PP_3842 - conserved protein of unknown function, at 4,365,212 to 4,366,309 _3842 PP_3843: PP_3843 - conserved protein of unknown function, at 4,366,435 to 4,366,734 _3843 PP_3844: PP_3844 - putative D-aminopeptidase, at 4,366,914 to 4,368,047 _3844 Position (kb) 4366 4367Strain fitness (log2 ratio) -2 -1 0 1 2 3at 4365.585 kb on + strand, within PP_3842at 4365.637 kb on + strand, within PP_3842at 4365.638 kb on - strand, within PP_3842at 4365.638 kb on - strand, within PP_3842at 4365.674 kb on + strand, within PP_3842at 4365.685 kb on - strandat 4365.734 kb on + strand, within PP_3842at 4365.736 kb on + strand, within PP_3842at 4365.736 kb on + strand, within PP_3842at 4365.736 kb on + strand, within PP_3842at 4365.736 kb on + strand, within PP_3842at 4365.737 kb on - strand, within PP_3842at 4365.737 kb on - strand, within PP_3842at 4365.737 kb on - strand, within PP_3842at 4365.737 kb on - strand, within PP_3842at 4365.737 kb on - strand, within PP_3842at 4365.758 kb on + strand, within PP_3842at 4365.759 kb on - strand, within PP_3842at 4365.778 kb on + strand, within PP_3842at 4365.778 kb on + strand, within PP_3842at 4365.779 kb on - strand, within PP_3842at 4365.779 kb on - strand, within PP_3842at 4365.779 kb on - strand, within PP_3842at 4365.808 kb on + strand, within PP_3842at 4365.809 kb on - strand, within PP_3842at 4365.917 kb on + strand, within PP_3842at 4365.917 kb on + strand, within PP_3842at 4365.918 kb on - strand, within PP_3842at 4365.918 kb on - strand, within PP_3842at 4365.984 kb on + strand, within PP_3842at 4365.984 kb on + strand, within PP_3842at 4365.985 kb on - strand, within PP_3842at 4365.986 kb on + strand, within PP_3842at 4365.986 kb on + strand, within PP_3842at 4365.987 kb on - strand, within PP_3842at 4366.038 kb on + strand, within PP_3842at 4366.038 kb on + strand, within PP_3842at 4366.039 kb on - strand, within PP_3842at 4366.039 kb on - strand, within PP_3842at 4366.063 kb on + strand, within PP_3842at 4366.064 kb on - strand, within PP_3842at 4366.064 kb on - strand, within PP_3842at 4366.064 kb on - strand, within PP_3842at 4366.065 kb on + strand, within PP_3842at 4366.065 kb on + strand, within PP_3842at 4366.065 kb on + strand, within PP_3842at 4366.065 kb on + strand, within PP_3842at 4366.065 kb on + strand, within PP_3842at 4366.065 kb on + strand, within PP_3842at 4366.066 kb on - strand, within PP_3842at 4366.066 kb on - strand, within PP_3842at 4366.066 kb on - strand, within PP_3842at 4366.066 kb on - strand, within PP_3842at 4366.066 kb on - strand, within PP_3842at 4366.066 kb on - strand, within PP_3842at 4366.066 kb on - strand, within PP_3842at 4366.066 kb on - strand, within PP_3842at 4366.071 kb on + strand, within PP_3842at 4366.147 kb on + strand, within PP_3842at 4366.199 kb on + strand, within PP_3842at 4366.199 kb on + strand, within PP_3842at 4366.199 kb on + strand, within PP_3842at 4366.200 kb on - strandat 4366.200 kb on - strandat 4366.207 kb on + strandat 4366.207 kb on + strandat 4366.250 kb on + strandat 4366.398 kb on + strandat 4366.399 kb on - strandat 4366.399 kb on - strandat 4366.567 kb on - strand, within PP_3843at 4366.586 kb on + strand, within PP_3843at 4366.586 kb on + strand, within PP_3843at 4366.586 kb on + strand, within PP_3843at 4366.587 kb on - strand, within PP_3843at 4366.587 kb on - strand, within PP_3843at 4366.587 kb on - strand, within PP_3843at 4366.587 kb on - strand, within PP_3843at 4366.646 kb on + strand, within PP_3843at 4366.646 kb on + strand, within PP_3843at 4366.646 kb on + strand, within PP_3843at 4366.646 kb on + strand, within PP_3843at 4366.646 kb on + strand, within PP_3843at 4366.646 kb on + strand, within PP_3843at 4366.646 kb on + strand, within PP_3843at 4366.646 kb on + strand, within PP_3843at 4366.646 kb on + strand, within PP_3843at 4366.647 kb on - strand, within PP_3843at 4366.647 kb on - strand, within PP_3843at 4366.647 kb on - strand, within PP_3843at 4366.647 kb on - strand, within PP_3843at 4366.647 kb on - strand, within PP_3843at 4366.647 kb on - strand, within PP_3843at 4366.647 kb on - strand, within PP_3843at 4366.647 kb on - strand, within PP_3843at 4366.647 kb on - strand, within PP_3843at 4366.647 kb on - strand, within PP_3843at 4366.726 kb on + strandat 4366.726 kb on + strandat 4366.745 kb on + strandat 4366.745 kb on + strandat 4366.754 kb on - strandat 4366.754 kb on - strandat 4366.754 kb on - strandat 4366.759 kb on + strandat 4366.773 kb on - strandat 4366.773 kb on - strandat 4366.783 kb on + strandat 4366.783 kb on + strandat 4366.915 kb on + strandat 4366.915 kb on + strandat 4366.986 kb on + strandat 4367.022 kb on + strandat 4367.025 kb on + strandat 4367.025 kb on + strandat 4367.025 kb on + strandat 4367.026 kb on - strandat 4367.026 kb on - strandat 4367.084 kb on + strand, within PP_3844at 4367.105 kb on + strand, within PP_3844at 4367.105 kb on + strand, within PP_3844at 4367.105 kb on + strand, within PP_3844at 4367.105 kb on + strand, within PP_3844at 4367.105 kb on + strand, within PP_3844at 4367.105 kb on + strand, within PP_3844at 4367.106 kb on - strand, within PP_3844at 4367.106 kb on - strand, within PP_3844at 4367.106 kb on - strand, within PP_3844at 4367.106 kb on - strand, within PP_3844at 4367.106 kb on - strand, within PP_3844at 4367.132 kb on + strand, within PP_3844at 4367.141 kb on - strand, within PP_3844at 4367.141 kb on - strand, within PP_3844at 4367.258 kb on + strand, within PP_3844at 4367.259 kb on - strandat 4367.304 kb on + strand, within PP_3844at 4367.304 kb on + strand, within PP_3844at 4367.304 kb on + strand, within PP_3844at 4367.305 kb on - strand, within PP_3844at 4367.368 kb on + strand, within PP_3844at 4367.368 kb on + strand, within PP_3844at 4367.369 kb on - strand, within PP_3844at 4367.369 kb on - strand, within PP_3844at 4367.463 kb on - strand, within PP_3844at 4367.463 kb on - strand, within PP_3844at 4367.463 kb on - strand, within PP_3844at 4367.560 kb on - strand, within PP_3844at 4367.560 kb on - strand, within PP_3844at 4367.567 kb on + strand, within PP_3844at 4367.567 kb on + strand, within PP_3844at 4367.567 kb on + strand, within PP_3844at 4367.567 kb on + strand, within PP_3844at 4367.568 kb on - strand, within PP_3844at 4367.568 kb on - strand, within PP_3844at 4367.635 kb on + strand, within PP_3844at 4367.635 kb on + strand, within PP_3844at 4367.635 kb on + strand, within PP_3844at 4367.636 kb on - strand, within PP_3844at 4367.665 kb on + strand, within PP_3844at 4367.669 kb on + strand, within PP_3844at 4367.669 kb on + strand, within PP_3844at 4367.669 kb on + strand, within PP_3844at 4367.669 kb on + strand, within PP_3844

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Per-strain Table

Position Strand Gene LocusTag Fraction 24hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% DO.
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4,365,585 + PP_3842 0.34 +1.0
4,365,637 + PP_3842 0.39 -0.5
4,365,638 - PP_3842 0.39 +0.3
4,365,638 - PP_3842 0.39 +0.2
4,365,674 + PP_3842 0.42 +1.2
4,365,685 - +2.0
4,365,734 + PP_3842 0.48 -0.8
4,365,736 + PP_3842 0.48 -0.1
4,365,736 + PP_3842 0.48 +0.3
4,365,736 + PP_3842 0.48 -2.0
4,365,736 + PP_3842 0.48 -0.7
4,365,737 - PP_3842 0.48 -0.1
4,365,737 - PP_3842 0.48 -0.2
4,365,737 - PP_3842 0.48 -0.3
4,365,737 - PP_3842 0.48 -0.5
4,365,737 - PP_3842 0.48 -0.7
4,365,758 + PP_3842 0.50 +1.4
4,365,759 - PP_3842 0.50 -0.1
4,365,778 + PP_3842 0.52 -0.9
4,365,778 + PP_3842 0.52 +0.2
4,365,779 - PP_3842 0.52 -0.6
4,365,779 - PP_3842 0.52 -0.7
4,365,779 - PP_3842 0.52 +0.1
4,365,808 + PP_3842 0.54 +0.8
4,365,809 - PP_3842 0.54 +0.5
4,365,917 + PP_3842 0.64 +0.7
4,365,917 + PP_3842 0.64 -0.2
4,365,918 - PP_3842 0.64 +0.2
4,365,918 - PP_3842 0.64 +0.2
4,365,984 + PP_3842 0.70 -1.0
4,365,984 + PP_3842 0.70 -1.2
4,365,985 - PP_3842 0.70 +1.7
4,365,986 + PP_3842 0.70 -0.2
4,365,986 + PP_3842 0.70 +2.4
4,365,987 - PP_3842 0.71 -0.4
4,366,038 + PP_3842 0.75 -0.0
4,366,038 + PP_3842 0.75 -0.3
4,366,039 - PP_3842 0.75 -0.4
4,366,039 - PP_3842 0.75 -2.4
4,366,063 + PP_3842 0.78 -0.5
4,366,064 - PP_3842 0.78 +0.9
4,366,064 - PP_3842 0.78 -0.0
4,366,064 - PP_3842 0.78 +0.5
4,366,065 + PP_3842 0.78 +0.6
4,366,065 + PP_3842 0.78 +0.0
4,366,065 + PP_3842 0.78 -0.4
4,366,065 + PP_3842 0.78 +0.1
4,366,065 + PP_3842 0.78 +1.0
4,366,065 + PP_3842 0.78 -0.0
4,366,066 - PP_3842 0.78 -0.4
4,366,066 - PP_3842 0.78 -1.3
4,366,066 - PP_3842 0.78 -0.3
4,366,066 - PP_3842 0.78 -0.9
4,366,066 - PP_3842 0.78 -0.8
4,366,066 - PP_3842 0.78 -1.2
4,366,066 - PP_3842 0.78 -1.5
4,366,066 - PP_3842 0.78 -0.6
4,366,071 + PP_3842 0.78 +1.0
4,366,147 + PP_3842 0.85 -0.4
4,366,199 + PP_3842 0.90 -0.7
4,366,199 + PP_3842 0.90 +1.3
4,366,199 + PP_3842 0.90 -2.1
4,366,200 - +0.3
4,366,200 - +0.8
4,366,207 + -0.3
4,366,207 + +1.0
4,366,250 + +1.1
4,366,398 + +0.3
4,366,399 - -0.1
4,366,399 - +3.0
4,366,567 - PP_3843 0.44 -1.1
4,366,586 + PP_3843 0.50 -0.1
4,366,586 + PP_3843 0.50 -0.0
4,366,586 + PP_3843 0.50 -1.4
4,366,587 - PP_3843 0.51 +0.6
4,366,587 - PP_3843 0.51 -0.1
4,366,587 - PP_3843 0.51 -0.6
4,366,587 - PP_3843 0.51 +1.3
4,366,646 + PP_3843 0.70 -0.3
4,366,646 + PP_3843 0.70 +0.1
4,366,646 + PP_3843 0.70 -1.1
4,366,646 + PP_3843 0.70 -0.2
4,366,646 + PP_3843 0.70 +0.3
4,366,646 + PP_3843 0.70 +1.2
4,366,646 + PP_3843 0.70 +0.5
4,366,646 + PP_3843 0.70 +0.7
4,366,646 + PP_3843 0.70 -0.4
4,366,647 - PP_3843 0.71 +1.2
4,366,647 - PP_3843 0.71 -1.4
4,366,647 - PP_3843 0.71 -1.9
4,366,647 - PP_3843 0.71 -0.5
4,366,647 - PP_3843 0.71 +0.7
4,366,647 - PP_3843 0.71 -0.2
4,366,647 - PP_3843 0.71 +0.8
4,366,647 - PP_3843 0.71 +1.0
4,366,647 - PP_3843 0.71 +0.7
4,366,647 - PP_3843 0.71 +0.6
4,366,726 + +1.2
4,366,726 + +0.5
4,366,745 + +0.5
4,366,745 + +0.6
4,366,754 - +0.3
4,366,754 - -0.1
4,366,754 - +1.2
4,366,759 + -1.6
4,366,773 - +0.0
4,366,773 - -0.7
4,366,783 + +1.4
4,366,783 + -1.4
4,366,915 + -0.6
4,366,915 + +0.6
4,366,986 + +0.4
4,367,022 + +0.8
4,367,025 + -0.9
4,367,025 + +0.1
4,367,025 + -0.1
4,367,026 - -0.9
4,367,026 - -0.2
4,367,084 + PP_3844 0.15 +3.0
4,367,105 + PP_3844 0.17 +0.4
4,367,105 + PP_3844 0.17 -0.3
4,367,105 + PP_3844 0.17 -0.1
4,367,105 + PP_3844 0.17 -0.6
4,367,105 + PP_3844 0.17 +0.4
4,367,105 + PP_3844 0.17 -0.7
4,367,106 - PP_3844 0.17 -0.6
4,367,106 - PP_3844 0.17 -0.8
4,367,106 - PP_3844 0.17 -0.2
4,367,106 - PP_3844 0.17 +0.3
4,367,106 - PP_3844 0.17 -0.2
4,367,132 + PP_3844 0.19 -0.4
4,367,141 - PP_3844 0.20 -0.6
4,367,141 - PP_3844 0.20 -0.6
4,367,258 + PP_3844 0.30 -0.2
4,367,259 - +0.2
4,367,304 + PP_3844 0.34 -1.2
4,367,304 + PP_3844 0.34 -0.6
4,367,304 + PP_3844 0.34 -0.5
4,367,305 - PP_3844 0.34 +0.3
4,367,368 + PP_3844 0.40 -1.1
4,367,368 + PP_3844 0.40 -0.8
4,367,369 - PP_3844 0.40 -1.0
4,367,369 - PP_3844 0.40 +0.3
4,367,463 - PP_3844 0.48 +0.9
4,367,463 - PP_3844 0.48 -1.4
4,367,463 - PP_3844 0.48 -0.3
4,367,560 - PP_3844 0.57 +0.2
4,367,560 - PP_3844 0.57 -0.8
4,367,567 + PP_3844 0.58 +0.5
4,367,567 + PP_3844 0.58 -1.9
4,367,567 + PP_3844 0.58 -0.4
4,367,567 + PP_3844 0.58 -1.7
4,367,568 - PP_3844 0.58 -1.2
4,367,568 - PP_3844 0.58 -0.5
4,367,635 + PP_3844 0.64 -0.0
4,367,635 + PP_3844 0.64 -0.6
4,367,635 + PP_3844 0.64 -1.3
4,367,636 - PP_3844 0.64 +0.2
4,367,665 + PP_3844 0.66 -1.0
4,367,669 + PP_3844 0.67 +0.3
4,367,669 + PP_3844 0.67 +0.1
4,367,669 + PP_3844 0.67 -0.3
4,367,669 + PP_3844 0.67 -1.5

Or see this region's nucleotide sequence