Strain Fitness in Pseudomonas putida KT2440 around PP_3841

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_3839 and PP_3840 are separated by 73 nucleotidesPP_3840 and PP_5635 are separated by 276 nucleotidesPP_5635 and PP_3841 are separated by 31 nucleotidesPP_3841 and PP_3842 are separated by 72 nucleotides PP_3839: PP_3839 - short-chain alcohol dehydrogenase, at 4,362,915 to 4,363,925 _3839 PP_3840: PP_3840 - conserved protein of unknown function, at 4,363,999 to 4,364,223 _3840 PP_5635: PP_5635 - conserved protein of unknown function, at 4,364,500 to 4,364,736 _5635 PP_3841: PP_3841 - Transcriptional regulator, MerR family, at 4,364,768 to 4,365,139 _3841 PP_3842: PP_3842 - conserved protein of unknown function, at 4,365,212 to 4,366,309 _3842 Position (kb) 4364 4365 4366Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 4363.769 kb on + strand, within PP_3839at 4363.769 kb on + strand, within PP_3839at 4363.769 kb on + strand, within PP_3839at 4363.769 kb on + strand, within PP_3839at 4363.769 kb on + strand, within PP_3839at 4363.770 kb on - strand, within PP_3839at 4363.909 kb on + strandat 4363.909 kb on + strandat 4363.965 kb on + strandat 4363.965 kb on + strandat 4363.966 kb on - strandat 4363.966 kb on - strandat 4363.987 kb on + strandat 4363.996 kb on + strandat 4363.996 kb on + strandat 4363.996 kb on + strandat 4363.996 kb on + strandat 4363.996 kb on + strandat 4363.997 kb on - strandat 4363.997 kb on - strandat 4363.997 kb on - strandat 4364.047 kb on - strand, within PP_3840at 4364.216 kb on - strandat 4364.216 kb on - strandat 4364.216 kb on - strandat 4364.216 kb on - strandat 4364.232 kb on - strandat 4364.232 kb on - strandat 4364.255 kb on + strandat 4364.255 kb on + strandat 4364.256 kb on - strandat 4364.485 kb on + strandat 4364.485 kb on + strandat 4364.485 kb on + strandat 4364.486 kb on - strandat 4364.486 kb on - strandat 4364.486 kb on - strandat 4364.499 kb on + strandat 4364.499 kb on + strandat 4364.499 kb on + strandat 4364.499 kb on + strandat 4364.500 kb on - strandat 4364.500 kb on - strandat 4364.611 kb on + strand, within PP_5635at 4364.658 kb on + strand, within PP_5635at 4364.658 kb on + strand, within PP_5635at 4364.658 kb on + strand, within PP_5635at 4364.659 kb on - strand, within PP_5635at 4364.659 kb on - strand, within PP_5635at 4364.662 kb on + strand, within PP_5635at 4364.662 kb on + strand, within PP_5635at 4364.662 kb on + strand, within PP_5635at 4364.662 kb on + strand, within PP_5635at 4364.662 kb on + strand, within PP_5635at 4364.663 kb on - strand, within PP_5635at 4364.663 kb on - strand, within PP_5635at 4364.663 kb on - strand, within PP_5635at 4364.663 kb on - strand, within PP_5635at 4364.663 kb on - strand, within PP_5635at 4364.663 kb on - strand, within PP_5635at 4364.663 kb on - strand, within PP_5635at 4364.706 kb on + strand, within PP_5635at 4364.777 kb on + strandat 4364.777 kb on + strandat 4364.778 kb on - strandat 4364.795 kb on - strandat 4364.795 kb on - strandat 4364.916 kb on + strand, within PP_3841at 4364.942 kb on + strand, within PP_3841at 4364.942 kb on + strand, within PP_3841at 4364.943 kb on - strand, within PP_3841at 4364.943 kb on - strand, within PP_3841at 4364.993 kb on + strand, within PP_3841at 4364.994 kb on - strand, within PP_3841at 4365.027 kb on + strand, within PP_3841at 4365.037 kb on - strand, within PP_3841at 4365.081 kb on + strand, within PP_3841at 4365.081 kb on + strand, within PP_3841at 4365.082 kb on - strand, within PP_3841at 4365.095 kb on - strand, within PP_3841at 4365.095 kb on - strand, within PP_3841at 4365.095 kb on - strand, within PP_3841at 4365.095 kb on - strand, within PP_3841at 4365.143 kb on - strandat 4365.171 kb on - strandat 4365.171 kb on - strandat 4365.171 kb on - strandat 4365.349 kb on - strand, within PP_3842at 4365.374 kb on + strand, within PP_3842at 4365.374 kb on + strand, within PP_3842at 4365.374 kb on + strand, within PP_3842at 4365.374 kb on + strandat 4365.374 kb on + strand, within PP_3842at 4365.374 kb on + strand, within PP_3842at 4365.374 kb on + strand, within PP_3842at 4365.375 kb on - strand, within PP_3842at 4365.375 kb on - strand, within PP_3842at 4365.375 kb on - strand, within PP_3842at 4365.375 kb on - strand, within PP_3842at 4365.375 kb on - strand, within PP_3842at 4365.375 kb on - strand, within PP_3842at 4365.375 kb on - strand, within PP_3842at 4365.376 kb on + strandat 4365.376 kb on + strand, within PP_3842at 4365.376 kb on + strandat 4365.376 kb on + strand, within PP_3842at 4365.377 kb on - strand, within PP_3842at 4365.377 kb on - strand, within PP_3842at 4365.377 kb on - strand, within PP_3842at 4365.377 kb on - strand, within PP_3842at 4365.377 kb on - strand, within PP_3842at 4365.398 kb on - strand, within PP_3842at 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_3842

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Per-strain Table

Position Strand Gene LocusTag Fraction Growth at pH6 and (C) Trisodium citrate
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4,363,769 + PP_3839 0.84 +1.0
4,363,769 + PP_3839 0.84 -1.4
4,363,769 + PP_3839 0.84 +1.3
4,363,769 + PP_3839 0.84 +0.1
4,363,769 + PP_3839 0.84 +1.0
4,363,770 - PP_3839 0.85 +0.4
4,363,909 + +0.7
4,363,909 + -3.8
4,363,965 + -2.6
4,363,965 + -1.3
4,363,966 - -0.2
4,363,966 - +1.0
4,363,987 + +0.9
4,363,996 + -0.8
4,363,996 + -3.6
4,363,996 + -0.1
4,363,996 + -0.1
4,363,996 + +2.4
4,363,997 - -1.7
4,363,997 - -0.0
4,363,997 - +0.9
4,364,047 - PP_3840 0.21 -2.6
4,364,216 - -1.4
4,364,216 - +0.3
4,364,216 - +0.8
4,364,216 - +0.5
4,364,232 - -3.9
4,364,232 - -0.0
4,364,255 + -0.1
4,364,255 + +0.8
4,364,256 - +0.0
4,364,485 + -0.8
4,364,485 + -1.7
4,364,485 + +1.6
4,364,486 - +0.7
4,364,486 - -0.9
4,364,486 - +1.0
4,364,499 + -2.3
4,364,499 + +0.4
4,364,499 + +0.0
4,364,499 + -0.3
4,364,500 - +1.0
4,364,500 - +0.5
4,364,611 + PP_5635 0.47 -0.5
4,364,658 + PP_5635 0.67 +0.7
4,364,658 + PP_5635 0.67 -0.7
4,364,658 + PP_5635 0.67 +1.1
4,364,659 - PP_5635 0.67 +0.4
4,364,659 - PP_5635 0.67 -0.4
4,364,662 + PP_5635 0.68 +1.6
4,364,662 + PP_5635 0.68 +1.1
4,364,662 + PP_5635 0.68 +1.4
4,364,662 + PP_5635 0.68 -3.0
4,364,662 + PP_5635 0.68 +1.2
4,364,663 - PP_5635 0.69 +0.7
4,364,663 - PP_5635 0.69 +1.4
4,364,663 - PP_5635 0.69 +0.5
4,364,663 - PP_5635 0.69 -1.7
4,364,663 - PP_5635 0.69 +0.9
4,364,663 - PP_5635 0.69 +1.9
4,364,663 - PP_5635 0.69 -1.5
4,364,706 + PP_5635 0.87 -1.9
4,364,777 + -0.1
4,364,777 + +1.1
4,364,778 - +0.7
4,364,795 - -0.7
4,364,795 - -0.1
4,364,916 + PP_3841 0.40 -3.5
4,364,942 + PP_3841 0.47 -0.3
4,364,942 + PP_3841 0.47 +0.3
4,364,943 - PP_3841 0.47 -2.7
4,364,943 - PP_3841 0.47 -2.3
4,364,993 + PP_3841 0.60 +1.5
4,364,994 - PP_3841 0.61 -0.7
4,365,027 + PP_3841 0.70 -3.1
4,365,037 - PP_3841 0.72 +0.0
4,365,081 + PP_3841 0.84 -2.0
4,365,081 + PP_3841 0.84 +0.6
4,365,082 - PP_3841 0.84 -1.0
4,365,095 - PP_3841 0.88 -2.6
4,365,095 - PP_3841 0.88 -2.2
4,365,095 - PP_3841 0.88 -1.0
4,365,095 - PP_3841 0.88 +0.5
4,365,143 - -0.5
4,365,171 - -3.1
4,365,171 - -0.3
4,365,171 - -1.3
4,365,349 - PP_3842 0.12 -1.3
4,365,374 + PP_3842 0.15 +1.1
4,365,374 + PP_3842 0.15 -1.3
4,365,374 + PP_3842 0.15 -1.7
4,365,374 + +1.3
4,365,374 + PP_3842 0.15 +0.4
4,365,374 + PP_3842 0.15 -0.7
4,365,374 + PP_3842 0.15 -1.9
4,365,375 - PP_3842 0.15 -0.9
4,365,375 - PP_3842 0.15 -0.0
4,365,375 - PP_3842 0.15 +0.3
4,365,375 - PP_3842 0.15 +0.3
4,365,375 - PP_3842 0.15 -3.4
4,365,375 - PP_3842 0.15 +0.4
4,365,375 - PP_3842 0.15 +1.1
4,365,376 + -0.9
4,365,376 + PP_3842 0.15 -1.1
4,365,376 + -0.0
4,365,376 + PP_3842 0.15 +0.9
4,365,377 - PP_3842 0.15 +0.5
4,365,377 - PP_3842 0.15 -0.6
4,365,377 - PP_3842 0.15 -4.0
4,365,377 - PP_3842 0.15 +0.1
4,365,377 - PP_3842 0.15 +0.0
4,365,398 - PP_3842 0.17 -2.6
4,365,585 + PP_3842 0.34 -1.5
4,365,637 + PP_3842 0.39 +3.0
4,365,638 - PP_3842 0.39 -2.8
4,365,638 - PP_3842 0.39 +0.0
4,365,674 + PP_3842 0.42 +1.2
4,365,685 - -0.0
4,365,734 + PP_3842 0.48 +0.3
4,365,736 + PP_3842 0.48 -0.6
4,365,736 + PP_3842 0.48 +0.7
4,365,736 + PP_3842 0.48 +0.3
4,365,736 + PP_3842 0.48 -0.6
4,365,737 - PP_3842 0.48 -0.6
4,365,737 - PP_3842 0.48 -1.0
4,365,737 - PP_3842 0.48 +0.4
4,365,737 - PP_3842 0.48 -2.7
4,365,737 - PP_3842 0.48 +1.4
4,365,758 + PP_3842 0.50 +0.9
4,365,759 - PP_3842 0.50 -0.4
4,365,778 + PP_3842 0.52 -3.0
4,365,778 + PP_3842 0.52 -2.7
4,365,779 - PP_3842 0.52 -1.3
4,365,779 - PP_3842 0.52 -3.9
4,365,779 - PP_3842 0.52 -0.7
4,365,808 + PP_3842 0.54 -3.5
4,365,809 - PP_3842 0.54 +0.3
4,365,917 + PP_3842 0.64 +0.3
4,365,917 + PP_3842 0.64 +2.0
4,365,918 - PP_3842 0.64 -2.9
4,365,918 - PP_3842 0.64 -2.0
4,365,984 + PP_3842 0.70 -2.7
4,365,984 + PP_3842 0.70 +1.5
4,365,985 - PP_3842 0.70 -2.6
4,365,986 + PP_3842 0.70 +1.3
4,365,986 + PP_3842 0.70 -1.3
4,365,987 - PP_3842 0.71 +0.8
4,366,038 + PP_3842 0.75 -0.6
4,366,038 + PP_3842 0.75 -3.2
4,366,039 - PP_3842 0.75 +1.0
4,366,039 - PP_3842 0.75 -2.3
4,366,063 + PP_3842 0.78 -1.9
4,366,064 - PP_3842 0.78 -0.5
4,366,064 - PP_3842 0.78 +0.3
4,366,064 - PP_3842 0.78 -0.6
4,366,065 + PP_3842 0.78 +0.3
4,366,065 + PP_3842 0.78 -0.9
4,366,065 + PP_3842 0.78 -0.7
4,366,065 + PP_3842 0.78 -1.0
4,366,065 + PP_3842 0.78 -0.7
4,366,065 + PP_3842 0.78 -1.5
4,366,066 - PP_3842 0.78 -0.1
4,366,066 - PP_3842 0.78 +0.1
4,366,066 - PP_3842 0.78 -0.7
4,366,066 - PP_3842 0.78 +1.2
4,366,066 - PP_3842 0.78 +0.5
4,366,066 - PP_3842 0.78 +1.7
4,366,066 - PP_3842 0.78 +0.9
4,366,066 - PP_3842 0.78 -0.5
4,366,071 + PP_3842 0.78 +1.2

Or see this region's nucleotide sequence