Strain Fitness in Pseudomonas putida KT2440 around PP_0052

Experiment: Acanthamoeba sp., muxed culture-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_0051 and PP_0052 are separated by 222 nucleotidesPP_0052 and PP_0053 are separated by 40 nucleotides PP_0051: PP_0051 - putative sigma-54 dependent transcriptional regulator, at 59,316 to 60,608 _0051 PP_0052: PP_0052 - beta-lactamase domain protein, putative hydrolase, at 60,831 to 61,715 _0052 PP_0053: PP_0053 - putative sulfide:quinone oxidoreductase, at 61,756 to 63,024 _0053 Position (kb) 60 61 62Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 59.856 kb on + strand, within PP_0051at 59.857 kb on - strand, within PP_0051at 59.857 kb on - strand, within PP_0051at 60.270 kb on + strand, within PP_0051at 60.270 kb on + strand, within PP_0051at 60.270 kb on + strand, within PP_0051at 60.270 kb on + strand, within PP_0051at 60.427 kb on + strand, within PP_0051at 60.428 kb on - strand, within PP_0051at 60.496 kb on + strandat 60.496 kb on + strandat 60.523 kb on + strandat 60.523 kb on + strandat 60.523 kb on + strandat 60.524 kb on - strandat 60.524 kb on - strandat 60.568 kb on + strandat 60.568 kb on + strandat 60.569 kb on - strandat 60.583 kb on - strandat 60.583 kb on - strandat 60.583 kb on - strandat 60.619 kb on + strandat 60.619 kb on + strandat 60.620 kb on - strandat 60.620 kb on - strandat 60.620 kb on - strandat 60.772 kb on + strandat 60.773 kb on - strandat 60.791 kb on + strandat 60.791 kb on + strandat 60.791 kb on + strandat 60.792 kb on - strandat 60.799 kb on + strandat 60.799 kb on + strandat 60.799 kb on + strandat 60.800 kb on - strandat 60.800 kb on - strandat 60.894 kb on + strandat 60.895 kb on - strandat 60.952 kb on - strandat 61.051 kb on - strand, within PP_0052at 61.054 kb on + strand, within PP_0052at 61.054 kb on + strand, within PP_0052at 61.054 kb on + strand, within PP_0052at 61.130 kb on + strand, within PP_0052at 61.130 kb on + strand, within PP_0052at 61.359 kb on + strand, within PP_0052at 61.360 kb on - strand, within PP_0052at 61.360 kb on - strand, within PP_0052at 61.407 kb on + strand, within PP_0052at 61.470 kb on + strand, within PP_0052at 61.471 kb on - strand, within PP_0052at 61.497 kb on + strand, within PP_0052at 61.497 kb on + strand, within PP_0052at 61.498 kb on - strand, within PP_0052at 61.498 kb on - strand, within PP_0052at 61.498 kb on - strand, within PP_0052at 61.498 kb on - strand, within PP_0052at 61.498 kb on - strand, within PP_0052at 61.498 kb on - strandat 61.498 kb on - strand, within PP_0052at 61.498 kb on - strand, within PP_0052at 61.686 kb on + strandat 61.714 kb on - strandat 61.730 kb on + strandat 61.750 kb on - strandat 61.783 kb on - strandat 61.903 kb on + strand, within PP_0053at 61.903 kb on + strand, within PP_0053at 61.904 kb on - strand, within PP_0053at 61.904 kb on - strand, within PP_0053at 61.906 kb on + strand, within PP_0053at 61.906 kb on + strand, within PP_0053at 61.907 kb on - strand, within PP_0053at 61.907 kb on - strand, within PP_0053at 61.907 kb on - strand, within PP_0053at 61.907 kb on - strand, within PP_0053at 62.074 kb on + strand, within PP_0053at 62.074 kb on + strand, within PP_0053at 62.074 kb on + strand, within PP_0053at 62.074 kb on + strand, within PP_0053at 62.075 kb on - strand, within PP_0053at 62.075 kb on - strand, within PP_0053at 62.170 kb on + strand, within PP_0053at 62.170 kb on + strand, within PP_0053at 62.171 kb on - strand, within PP_0053at 62.171 kb on - strand, within PP_0053at 62.176 kb on + strand, within PP_0053at 62.176 kb on + strand, within PP_0053at 62.191 kb on + strand, within PP_0053at 62.191 kb on + strand, within PP_0053at 62.191 kb on + strand, within PP_0053at 62.191 kb on + strand, within PP_0053at 62.191 kb on + strand, within PP_0053at 62.191 kb on + strand, within PP_0053at 62.192 kb on - strand, within PP_0053at 62.192 kb on - strand, within PP_0053at 62.192 kb on - strand, within PP_0053at 62.192 kb on - strand, within PP_0053at 62.193 kb on + strand, within PP_0053at 62.194 kb on - strand, within PP_0053at 62.194 kb on - strand, within PP_0053at 62.194 kb on - strand, within PP_0053at 62.194 kb on - strand, within PP_0053at 62.194 kb on - strand, within PP_0053at 62.290 kb on + strand, within PP_0053at 62.290 kb on + strand, within PP_0053at 62.291 kb on - strand, within PP_0053at 62.291 kb on - strand, within PP_0053at 62.386 kb on + strand, within PP_0053at 62.386 kb on + strand, within PP_0053at 62.387 kb on - strand, within PP_0053at 62.387 kb on - strand, within PP_0053at 62.387 kb on - strandat 62.408 kb on - strand, within PP_0053at 62.408 kb on - strand, within PP_0053at 62.408 kb on - strand, within PP_0053at 62.408 kb on - strand, within PP_0053at 62.419 kb on + strand, within PP_0053at 62.453 kb on + strand, within PP_0053at 62.454 kb on - strand, within PP_0053at 62.459 kb on + strand, within PP_0053at 62.459 kb on + strand, within PP_0053at 62.459 kb on + strand, within PP_0053at 62.460 kb on - strand, within PP_0053at 62.481 kb on + strand, within PP_0053at 62.482 kb on - strand, within PP_0053at 62.482 kb on - strand, within PP_0053at 62.494 kb on - strand, within PP_0053at 62.631 kb on + strand, within PP_0053at 62.651 kb on - strand, within PP_0053at 62.651 kb on - strand, within PP_0053at 62.651 kb on - strand, within PP_0053at 62.651 kb on - strand, within PP_0053at 62.651 kb on - strand, within PP_0053at 62.669 kb on + strand, within PP_0053at 62.670 kb on - strand, within PP_0053at 62.670 kb on - strand, within PP_0053at 62.670 kb on - strand, within PP_0053at 62.683 kb on - strand, within PP_0053

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Per-strain Table

Position Strand Gene LocusTag Fraction Acanthamoeba sp., muxed culture-1
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59,856 + PP_0051 0.42 -0.0
59,857 - PP_0051 0.42 +0.2
59,857 - PP_0051 0.42 -0.2
60,270 + PP_0051 0.74 -0.2
60,270 + PP_0051 0.74 +0.8
60,270 + PP_0051 0.74 -0.4
60,270 + PP_0051 0.74 -0.1
60,427 + PP_0051 0.86 +0.4
60,428 - PP_0051 0.86 +0.3
60,496 + +0.6
60,496 + +0.4
60,523 + -0.3
60,523 + +0.3
60,523 + +0.4
60,524 - -2.8
60,524 - +0.5
60,568 + +0.4
60,568 + -0.1
60,569 - -0.5
60,583 - -0.8
60,583 - -0.5
60,583 - +1.3
60,619 + -0.4
60,619 + +0.8
60,620 - -0.2
60,620 - +0.4
60,620 - +0.4
60,772 + +1.2
60,773 - -0.2
60,791 + +0.7
60,791 + -1.5
60,791 + +0.9
60,792 - +0.2
60,799 + +0.8
60,799 + -1.4
60,799 + +0.5
60,800 - -0.8
60,800 - -0.9
60,894 + -0.9
60,895 - +0.9
60,952 - -1.0
61,051 - PP_0052 0.25 +0.7
61,054 + PP_0052 0.25 -3.1
61,054 + PP_0052 0.25 +0.4
61,054 + PP_0052 0.25 -0.6
61,130 + PP_0052 0.34 -3.4
61,130 + PP_0052 0.34 -1.6
61,359 + PP_0052 0.60 -0.9
61,360 - PP_0052 0.60 -0.7
61,360 - PP_0052 0.60 -0.9
61,407 + PP_0052 0.65 -0.6
61,470 + PP_0052 0.72 -2.3
61,471 - PP_0052 0.72 -0.8
61,497 + PP_0052 0.75 -1.8
61,497 + PP_0052 0.75 -1.4
61,498 - PP_0052 0.75 +0.8
61,498 - PP_0052 0.75 -0.4
61,498 - PP_0052 0.75 -0.7
61,498 - PP_0052 0.75 -0.1
61,498 - PP_0052 0.75 -1.1
61,498 - -0.2
61,498 - PP_0052 0.75 -1.2
61,498 - PP_0052 0.75 -2.2
61,686 + -1.6
61,714 - -0.4
61,730 + -1.1
61,750 - -1.0
61,783 - -1.1
61,903 + PP_0053 0.12 -0.8
61,903 + PP_0053 0.12 -0.1
61,904 - PP_0053 0.12 +0.0
61,904 - PP_0053 0.12 +0.1
61,906 + PP_0053 0.12 -0.1
61,906 + PP_0053 0.12 +1.8
61,907 - PP_0053 0.12 +0.5
61,907 - PP_0053 0.12 -0.6
61,907 - PP_0053 0.12 -0.5
61,907 - PP_0053 0.12 +0.8
62,074 + PP_0053 0.25 +0.6
62,074 + PP_0053 0.25 +0.8
62,074 + PP_0053 0.25 +0.2
62,074 + PP_0053 0.25 +0.2
62,075 - PP_0053 0.25 +0.3
62,075 - PP_0053 0.25 -0.6
62,170 + PP_0053 0.33 -0.6
62,170 + PP_0053 0.33 -1.0
62,171 - PP_0053 0.33 -0.1
62,171 - PP_0053 0.33 +0.3
62,176 + PP_0053 0.33 -0.0
62,176 + PP_0053 0.33 -1.0
62,191 + PP_0053 0.34 -0.2
62,191 + PP_0053 0.34 -0.7
62,191 + PP_0053 0.34 -0.6
62,191 + PP_0053 0.34 -0.8
62,191 + PP_0053 0.34 +0.9
62,191 + PP_0053 0.34 +1.0
62,192 - PP_0053 0.34 -1.3
62,192 - PP_0053 0.34 -0.6
62,192 - PP_0053 0.34 -0.7
62,192 - PP_0053 0.34 +0.1
62,193 + PP_0053 0.34 -1.2
62,194 - PP_0053 0.35 +0.5
62,194 - PP_0053 0.35 -0.0
62,194 - PP_0053 0.35 -0.1
62,194 - PP_0053 0.35 +0.0
62,194 - PP_0053 0.35 +0.2
62,290 + PP_0053 0.42 -1.1
62,290 + PP_0053 0.42 -1.2
62,291 - PP_0053 0.42 +0.1
62,291 - PP_0053 0.42 -0.5
62,386 + PP_0053 0.50 -0.2
62,386 + PP_0053 0.50 -0.7
62,387 - PP_0053 0.50 -0.2
62,387 - PP_0053 0.50 -0.9
62,387 - -0.8
62,408 - PP_0053 0.51 -1.5
62,408 - PP_0053 0.51 -0.9
62,408 - PP_0053 0.51 +0.3
62,408 - PP_0053 0.51 -1.4
62,419 + PP_0053 0.52 +0.3
62,453 + PP_0053 0.55 -0.2
62,454 - PP_0053 0.55 -1.7
62,459 + PP_0053 0.55 +0.0
62,459 + PP_0053 0.55 -0.0
62,459 + PP_0053 0.55 -0.5
62,460 - PP_0053 0.55 -0.3
62,481 + PP_0053 0.57 +0.8
62,482 - PP_0053 0.57 +0.4
62,482 - PP_0053 0.57 -1.0
62,494 - PP_0053 0.58 -0.3
62,631 + PP_0053 0.69 -1.7
62,651 - PP_0053 0.71 -0.5
62,651 - PP_0053 0.71 -1.2
62,651 - PP_0053 0.71 -0.8
62,651 - PP_0053 0.71 +1.3
62,651 - PP_0053 0.71 -0.3
62,669 + PP_0053 0.72 +0.2
62,670 - PP_0053 0.72 -0.2
62,670 - PP_0053 0.72 -1.5
62,670 - PP_0053 0.72 -2.3
62,683 - PP_0053 0.73 -0.9

Or see this region's nucleotide sequence