Strain Fitness in Pseudomonas putida KT2440 around PP_0612

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_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 nucleotidesPP_0612 and PP_0613 are separated by 76 nucleotides 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 PP_0613: PP_0613 - Amidase family protein, at 718,507 to 719,916 _0613 Position (kb) 717 718 719Strain fitness (log2 ratio) -1 0 1at 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 - strandat 717.487 kb on - strand, within PP_0612at 717.487 kb on - strand, within PP_0612at 717.543 kb on + strand, within PP_0612at 717.612 kb on + strand, within PP_0612at 717.702 kb on + strand, within PP_0612at 717.702 kb on + strand, within PP_0612at 717.747 kb on + strand, within PP_0612at 717.747 kb on + strand, within PP_0612at 717.747 kb on + strand, within PP_0612at 717.747 kb on + strand, within PP_0612at 717.747 kb on + strand, within PP_0612at 717.747 kb on + strand, within PP_0612at 717.748 kb on - strand, within PP_0612at 717.748 kb on - strand, within PP_0612at 717.748 kb on - strand, within PP_0612at 717.748 kb on - strand, within PP_0612at 717.748 kb on - strand, within PP_0612at 717.748 kb on - strand, within PP_0612at 717.748 kb on - strand, within PP_0612at 717.889 kb on + strand, within PP_0612at 717.889 kb on + strand, within PP_0612at 717.889 kb on + strand, within PP_0612at 717.890 kb on - strand, within PP_0612at 717.965 kb on + strand, within PP_0612at 718.263 kb on + strand, within PP_0612at 718.263 kb on + strand, within PP_0612at 718.263 kb on + strand, within PP_0612at 718.263 kb on + strand, within PP_0612at 718.263 kb on + strand, within PP_0612at 718.263 kb on + strand, within PP_0612at 718.264 kb on - strand, within PP_0612at 718.314 kb on + strand, within PP_0612at 718.404 kb on + strandat 718.404 kb on + strandat 718.458 kb on + strandat 718.459 kb on - strandat 718.459 kb on - strandat 718.459 kb on - strandat 718.515 kb on + strandat 718.516 kb on - strandat 718.556 kb on + strandat 718.557 kb on - strandat 718.557 kb on - strandat 718.688 kb on + strand, within PP_0613at 718.796 kb on + strand, within PP_0613at 718.859 kb on + strand, within PP_0613at 718.859 kb on + strand, within PP_0613at 718.859 kb on + strand, within PP_0613at 718.860 kb on - strand, within PP_0613at 719.026 kb on + strand, within PP_0613at 719.026 kb on + strand, within PP_0613at 719.103 kb on - strand, within PP_0613at 719.131 kb on + strand, within PP_0613at 719.131 kb on + strand, within PP_0613at 719.132 kb on - strand, within PP_0613at 719.132 kb on - strand, within PP_0613at 719.132 kb on - strand, within PP_0613at 719.132 kb on - strand, within PP_0613at 719.132 kb on - strand, within PP_0613at 719.312 kb on + strand, within PP_0613at 719.313 kb on - strand, within PP_0613at 719.313 kb on - strand, within PP_0613

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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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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
717,487 - PP_0612 0.14 -0.2
717,487 - PP_0612 0.14 +0.2
717,543 + PP_0612 0.19 -0.0
717,612 + PP_0612 0.25 -0.1
717,702 + PP_0612 0.34 -0.2
717,702 + PP_0612 0.34 -0.2
717,747 + PP_0612 0.38 +0.1
717,747 + PP_0612 0.38 +0.7
717,747 + PP_0612 0.38 -0.2
717,747 + PP_0612 0.38 -0.7
717,747 + PP_0612 0.38 +0.5
717,747 + PP_0612 0.38 -0.5
717,748 - PP_0612 0.38 +0.0
717,748 - PP_0612 0.38 +0.2
717,748 - PP_0612 0.38 -0.2
717,748 - PP_0612 0.38 -0.1
717,748 - PP_0612 0.38 +0.0
717,748 - PP_0612 0.38 -0.1
717,748 - PP_0612 0.38 +0.0
717,889 + PP_0612 0.51 +0.4
717,889 + PP_0612 0.51 +0.1
717,889 + PP_0612 0.51 -0.2
717,890 - PP_0612 0.51 +0.2
717,965 + PP_0612 0.58 -0.4
718,263 + PP_0612 0.85 +0.2
718,263 + PP_0612 0.85 -0.2
718,263 + PP_0612 0.85 -0.1
718,263 + PP_0612 0.85 +0.4
718,263 + PP_0612 0.85 -0.4
718,263 + PP_0612 0.85 +0.2
718,264 - PP_0612 0.85 -0.5
718,314 + PP_0612 0.89 +0.0
718,404 + -0.4
718,404 + -0.1
718,458 + -0.2
718,459 - -0.0
718,459 - +0.2
718,459 - +0.4
718,515 + -0.0
718,516 - -0.2
718,556 + -0.2
718,557 - -0.3
718,557 - -0.9
718,688 + PP_0613 0.13 +0.4
718,796 + PP_0613 0.20 -0.1
718,859 + PP_0613 0.25 +0.1
718,859 + PP_0613 0.25 -0.3
718,859 + PP_0613 0.25 -0.1
718,860 - PP_0613 0.25 +0.1
719,026 + PP_0613 0.37 -0.3
719,026 + PP_0613 0.37 +0.0
719,103 - PP_0613 0.42 +0.1
719,131 + PP_0613 0.44 +0.5
719,131 + PP_0613 0.44 -0.1
719,132 - PP_0613 0.44 +0.1
719,132 - PP_0613 0.44 -0.3
719,132 - PP_0613 0.44 +0.4
719,132 - PP_0613 0.44 -0.5
719,132 - PP_0613 0.44 +0.1
719,312 + PP_0613 0.57 +0.3
719,313 - PP_0613 0.57 -0.5
719,313 - PP_0613 0.57 -0.3

Or see this region's nucleotide sequence