Strain Fitness in Pseudomonas putida KT2440 around PP_0053

Experiment: R2A with Fusaric 240 ug/mL

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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_0052 and PP_0053 are separated by 40 nucleotidesPP_0053 and PP_0054 overlap by 43 nucleotidesPP_0054 and PP_0055 overlap by 12 nucleotides 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 PP_0054: PP_0054 - conserved membrane protein of unknown function, at 62,982 to 63,839 _0054 PP_0055: PP_0055 - transcriptional regulator, at 63,828 to 64,715 _0055 Position (kb) 61 62 63 64Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 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_0053at 62.851 kb on + strand, within PP_0053at 62.851 kb on + strand, within PP_0053at 62.851 kb on + strand, within PP_0053at 62.852 kb on - strand, within PP_0053at 62.852 kb on - strand, within PP_0053at 62.852 kb on - strand, within PP_0053at 63.112 kb on + strand, within PP_0054at 63.113 kb on - strand, within PP_0054at 63.178 kb on + strand, within PP_0054at 63.178 kb on + strandat 63.179 kb on - strand, within PP_0054at 63.179 kb on - strand, within PP_0054at 63.179 kb on - strand, within PP_0054at 63.179 kb on - strand, within PP_0054at 63.179 kb on - strand, within PP_0054at 63.332 kb on - strand, within PP_0054at 63.351 kb on + strand, within PP_0054at 63.351 kb on + strand, within PP_0054at 63.352 kb on - strand, within PP_0054at 63.576 kb on + strand, within PP_0054at 63.576 kb on + strand, within PP_0054at 63.829 kb on + strandat 63.877 kb on + strandat 63.878 kb on - strandat 63.878 kb on - strandat 63.937 kb on + strand, within PP_0055at 64.000 kb on + strand, within PP_0055at 64.000 kb on + strand, within PP_0055at 64.001 kb on - strand, within PP_0055at 64.001 kb on - strand, within PP_0055at 64.001 kb on - strand, within PP_0055

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Per-strain Table

Position Strand Gene LocusTag Fraction R2A with Fusaric 240 ug/mL
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60,772 + -0.3
60,773 - +1.1
60,791 + -4.1
60,791 + +0.2
60,791 + +0.9
60,792 - -0.5
60,799 + +0.6
60,799 + -1.8
60,799 + +0.6
60,800 - +0.5
60,800 - +0.8
60,894 + +0.7
60,895 - -0.6
60,952 - -1.0
61,051 - PP_0052 0.25 -0.6
61,054 + PP_0052 0.25 -1.4
61,054 + PP_0052 0.25 -3.7
61,054 + PP_0052 0.25 -1.7
61,130 + PP_0052 0.34 -0.8
61,130 + PP_0052 0.34 +0.4
61,359 + PP_0052 0.60 -1.9
61,360 - PP_0052 0.60 -0.8
61,360 - PP_0052 0.60 -3.5
61,407 + PP_0052 0.65 -0.6
61,470 + PP_0052 0.72 +0.2
61,471 - PP_0052 0.72 -0.8
61,497 + PP_0052 0.75 +1.2
61,497 + PP_0052 0.75 -0.5
61,498 - PP_0052 0.75 +1.5
61,498 - PP_0052 0.75 +0.3
61,498 - PP_0052 0.75 +0.5
61,498 - PP_0052 0.75 -0.0
61,498 - PP_0052 0.75 -0.7
61,498 - +1.1
61,498 - PP_0052 0.75 -0.8
61,498 - PP_0052 0.75 -3.7
61,686 + +0.5
61,714 - -0.8
61,730 + -2.3
61,750 - -1.3
61,783 - -0.8
61,903 + PP_0053 0.12 -1.0
61,903 + PP_0053 0.12 -0.9
61,904 - PP_0053 0.12 +0.4
61,904 - PP_0053 0.12 -0.1
61,906 + PP_0053 0.12 -0.3
61,906 + PP_0053 0.12 +2.5
61,907 - PP_0053 0.12 +0.5
61,907 - PP_0053 0.12 +0.4
61,907 - PP_0053 0.12 -0.1
61,907 - PP_0053 0.12 -0.3
62,074 + PP_0053 0.25 -2.2
62,074 + PP_0053 0.25 -3.3
62,074 + PP_0053 0.25 +0.3
62,074 + PP_0053 0.25 +2.1
62,075 - PP_0053 0.25 -0.9
62,075 - PP_0053 0.25 +1.2
62,170 + PP_0053 0.33 +1.2
62,170 + PP_0053 0.33 -1.2
62,171 - PP_0053 0.33 -1.1
62,171 - PP_0053 0.33 -1.7
62,176 + PP_0053 0.33 -1.1
62,176 + PP_0053 0.33 +1.6
62,191 + PP_0053 0.34 -0.3
62,191 + PP_0053 0.34 -1.8
62,191 + PP_0053 0.34 -3.7
62,191 + PP_0053 0.34 -0.2
62,191 + PP_0053 0.34 -1.9
62,191 + PP_0053 0.34 +1.6
62,192 - PP_0053 0.34 -0.4
62,192 - PP_0053 0.34 -1.2
62,192 - PP_0053 0.34 +0.9
62,192 - PP_0053 0.34 -1.1
62,193 + PP_0053 0.34 +1.1
62,194 - PP_0053 0.35 -0.4
62,194 - PP_0053 0.35 +0.5
62,194 - PP_0053 0.35 -0.6
62,194 - PP_0053 0.35 +1.1
62,194 - PP_0053 0.35 -0.4
62,290 + PP_0053 0.42 -2.4
62,290 + PP_0053 0.42 -0.3
62,291 - PP_0053 0.42 -2.0
62,291 - PP_0053 0.42 +0.5
62,386 + PP_0053 0.50 -0.0
62,386 + PP_0053 0.50 -0.4
62,387 - PP_0053 0.50 +0.5
62,387 - PP_0053 0.50 -2.9
62,387 - -0.4
62,408 - PP_0053 0.51 -3.8
62,408 - PP_0053 0.51 +0.9
62,408 - PP_0053 0.51 -1.8
62,408 - PP_0053 0.51 -1.9
62,419 + PP_0053 0.52 +0.9
62,453 + PP_0053 0.55 -0.0
62,454 - PP_0053 0.55 -0.8
62,459 + PP_0053 0.55 -1.6
62,459 + PP_0053 0.55 -1.0
62,459 + PP_0053 0.55 +0.5
62,460 - PP_0053 0.55 -2.1
62,481 + PP_0053 0.57 -0.6
62,482 - PP_0053 0.57 +0.1
62,482 - PP_0053 0.57 -0.2
62,494 - PP_0053 0.58 -1.5
62,631 + PP_0053 0.69 -1.3
62,651 - PP_0053 0.71 +0.5
62,651 - PP_0053 0.71 -2.4
62,651 - PP_0053 0.71 -0.2
62,651 - PP_0053 0.71 -3.9
62,651 - PP_0053 0.71 +0.8
62,669 + PP_0053 0.72 -1.8
62,670 - PP_0053 0.72 +1.0
62,670 - PP_0053 0.72 -0.2
62,670 - PP_0053 0.72 +0.2
62,683 - PP_0053 0.73 -1.1
62,851 + PP_0053 0.86 -0.9
62,851 + PP_0053 0.86 -1.3
62,851 + PP_0053 0.86 -3.3
62,852 - PP_0053 0.86 -0.1
62,852 - PP_0053 0.86 +0.2
62,852 - PP_0053 0.86 +0.8
63,112 + PP_0054 0.15 +0.1
63,113 - PP_0054 0.15 -2.0
63,178 + PP_0054 0.23 -2.9
63,178 + +1.8
63,179 - PP_0054 0.23 +1.0
63,179 - PP_0054 0.23 -2.2
63,179 - PP_0054 0.23 +0.0
63,179 - PP_0054 0.23 -3.4
63,179 - PP_0054 0.23 +1.3
63,332 - PP_0054 0.41 +0.4
63,351 + PP_0054 0.43 -0.5
63,351 + PP_0054 0.43 +0.3
63,352 - PP_0054 0.43 -0.6
63,576 + PP_0054 0.69 -0.3
63,576 + PP_0054 0.69 -0.1
63,829 + -0.2
63,877 + -1.6
63,878 - -0.5
63,878 - +0.1
63,937 + PP_0055 0.12 -0.8
64,000 + PP_0055 0.19 +0.6
64,000 + PP_0055 0.19 +0.3
64,001 - PP_0055 0.19 -1.8
64,001 - PP_0055 0.19 -0.2
64,001 - PP_0055 0.19 +1.0

Or see this region's nucleotide sequence