Strain Fitness in Pseudomonas putida KT2440 around PP_0609

Experiment: TSB 0.5x with Dimethyl Sulfoxide 0.5 vol%; timepoint 1

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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_0606 and PP_0607 are separated by 76 nucleotidesPP_0607 and PP_0608 overlap by 77 nucleotidesPP_0608 and PP_0609 overlap by 4 nucleotidesPP_0609 and PP_0610 overlap by 4 nucleotidesPP_0610 and PP_0611 are separated by 1 nucleotidesPP_0611 and PP_0612 are separated by 54 nucleotides PP_0606: PP_0606 - 4-hydroxy-3-methylbut-2-enyl diphosphate reductase, at 713,987 to 714,934 _0606 PP_0607: PP_0607 - putative Type IV pili biogenesis protein FimT, at 715,011 to 715,493 _0607 PP_0608: PP_0608 - putative type 4 fimbrial biogenesis protein, at 715,417 to 715,785 _0608 PP_0609: PP_0609 - conserved exported protein of unknown function, at 715,782 to 716,426 _0609 PP_0610: PP_0610 - conserved exported protein of unknown function, at 716,423 to 716,887 _0610 PP_0611: PP_0611 - Type IV pili biogenesis protein PilE, at 716,889 to 717,278 _0611 PP_0612: PP_0612 - FAD-dependent glycine/D-amino acid oxidase, at 717,333 to 718,430 _0612 Position (kb) 715 716 717Strain fitness (log2 ratio) -1 0 1 2 3at 715.200 kb on + strand, within PP_0607at 715.283 kb on + strand, within PP_0607at 715.408 kb on + strand, within PP_0607at 715.467 kb on + strandat 715.468 kb on - strandat 715.468 kb on - strandat 715.476 kb on + strandat 715.476 kb on + strandat 715.477 kb on - strandat 715.523 kb on - strand, within PP_0608at 715.524 kb on + strand, within PP_0608at 715.524 kb on + strand, within PP_0608at 715.525 kb on - strand, within PP_0608at 715.525 kb on - strand, within PP_0608at 715.525 kb on - strand, within PP_0608at 715.525 kb on - strand, within PP_0608at 715.671 kb on + strand, within PP_0608at 715.671 kb on + strand, within PP_0608at 715.672 kb on - strand, within PP_0608at 715.672 kb on - strand, within PP_0608at 715.835 kb on + strandat 716.029 kb on + strand, within PP_0609at 716.185 kb on + strand, within PP_0609at 716.185 kb on + strandat 716.185 kb on + strand, within PP_0609at 716.186 kb on - strand, within PP_0609at 716.186 kb on - strandat 716.186 kb on - strand, within PP_0609at 716.186 kb on - strand, within PP_0609at 716.186 kb on - strand, within PP_0609at 716.208 kb on + strand, within PP_0609at 716.208 kb on + strand, within PP_0609at 716.208 kb on + strand, within PP_0609at 716.208 kb on + strand, within PP_0609at 716.208 kb on + strand, within PP_0609at 716.208 kb on + strand, within PP_0609at 716.209 kb on - strand, within PP_0609at 716.209 kb on - strand, within PP_0609at 716.214 kb on + strand, within PP_0609at 716.214 kb on + strand, within PP_0609at 716.214 kb on + strand, within PP_0609at 716.214 kb on + strand, within PP_0609at 716.215 kb on - strandat 716.215 kb on - strand, within PP_0609at 716.215 kb on - strand, within PP_0609at 716.231 kb on + strand, within PP_0609at 716.232 kb on - strand, within PP_0609at 716.232 kb on - strand, within PP_0609at 716.232 kb on - strand, within PP_0609at 716.280 kb on - strand, within PP_0609at 716.337 kb on - strand, within PP_0609at 716.352 kb on + strand, within PP_0609at 716.353 kb on - strand, within PP_0609at 716.452 kb on - strandat 716.629 kb on + strand, within PP_0610at 716.683 kb on + strand, within PP_0610at 716.684 kb on - strand, within PP_0610at 716.826 kb on - strand, within PP_0610at 716.826 kb on - strand, within PP_0610at 716.970 kb on + strand, within PP_0611at 716.971 kb on - strand, within PP_0611at 717.070 kb on - strand, within PP_0611at 717.101 kb on + strand, within PP_0611at 717.108 kb on + strand, within PP_0611at 717.109 kb on - strand, within PP_0611at 717.109 kb on - strand, within PP_0611at 717.109 kb on - strand, within PP_0611at 717.111 kb on + strand, within PP_0611at 717.112 kb on - strand, within PP_0611at 717.112 kb on - strand, within PP_0611at 717.112 kb on - strand, within PP_0611at 717.112 kb on - strand, within PP_0611at 717.167 kb on - strand, within PP_0611at 717.311 kb on - strandat 717.346 kb on + strandat 717.347 kb on - strandat 717.347 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction TSB 0.5x with Dimethyl Sulfoxide 0.5 vol%; timepoint 1
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715,200 + PP_0607 0.39 +0.1
715,283 + PP_0607 0.56 -0.6
715,408 + PP_0607 0.82 +0.1
715,467 + +0.2
715,468 - -0.2
715,468 - -0.6
715,476 + -0.3
715,476 + -1.0
715,477 - +0.2
715,523 - PP_0608 0.29 +0.5
715,524 + PP_0608 0.29 -0.0
715,524 + PP_0608 0.29 -0.5
715,525 - PP_0608 0.29 -0.5
715,525 - PP_0608 0.29 -0.5
715,525 - PP_0608 0.29 -0.4
715,525 - PP_0608 0.29 -0.6
715,671 + PP_0608 0.69 -0.2
715,671 + PP_0608 0.69 -0.4
715,672 - PP_0608 0.69 -0.2
715,672 - PP_0608 0.69 +1.4
715,835 + +1.6
716,029 + PP_0609 0.38 -0.4
716,185 + PP_0609 0.62 -1.0
716,185 + +0.1
716,185 + PP_0609 0.62 +0.3
716,186 - PP_0609 0.63 +0.0
716,186 - +2.9
716,186 - PP_0609 0.63 -0.1
716,186 - PP_0609 0.63 +0.3
716,186 - PP_0609 0.63 +0.3
716,208 + PP_0609 0.66 -0.1
716,208 + PP_0609 0.66 +0.6
716,208 + PP_0609 0.66 +0.2
716,208 + PP_0609 0.66 -0.4
716,208 + PP_0609 0.66 -0.3
716,208 + PP_0609 0.66 +0.3
716,209 - PP_0609 0.66 -0.1
716,209 - PP_0609 0.66 -0.5
716,214 + PP_0609 0.67 -0.8
716,214 + PP_0609 0.67 +0.1
716,214 + PP_0609 0.67 -0.1
716,214 + PP_0609 0.67 -0.1
716,215 - +1.5
716,215 - PP_0609 0.67 +0.5
716,215 - PP_0609 0.67 -0.3
716,231 + PP_0609 0.70 +0.5
716,232 - PP_0609 0.70 -0.5
716,232 - PP_0609 0.70 -0.5
716,232 - PP_0609 0.70 -1.3
716,280 - PP_0609 0.77 +0.9
716,337 - PP_0609 0.86 -0.3
716,352 + PP_0609 0.88 +0.0
716,353 - PP_0609 0.89 +0.1
716,452 - +0.4
716,629 + PP_0610 0.44 -0.4
716,683 + PP_0610 0.56 +0.0
716,684 - PP_0610 0.56 +0.4
716,826 - PP_0610 0.87 -0.1
716,826 - PP_0610 0.87 +0.4
716,970 + PP_0611 0.21 +0.7
716,971 - PP_0611 0.21 -0.7
717,070 - PP_0611 0.46 -0.5
717,101 + PP_0611 0.54 -0.3
717,108 + PP_0611 0.56 +1.1
717,109 - PP_0611 0.56 -0.1
717,109 - PP_0611 0.56 -1.2
717,109 - PP_0611 0.56 -0.2
717,111 + PP_0611 0.57 +0.6
717,112 - PP_0611 0.57 +0.3
717,112 - PP_0611 0.57 -0.6
717,112 - PP_0611 0.57 -0.0
717,112 - PP_0611 0.57 +0.2
717,167 - PP_0611 0.71 -0.2
717,311 - +0.1
717,346 + +0.4
717,347 - +0.9
717,347 - +0.7

Or see this region's nucleotide sequence