Strain Fitness in Pseudomonas putida KT2440 around PP_0054

Experiment: 48hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% DO.

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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_0053 and PP_0054 overlap by 43 nucleotidesPP_0054 and PP_0055 overlap by 12 nucleotides 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) 62 63 64Strain fitness (log2 ratio) -2 -1 0 1 2 3at 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_0055at 64.087 kb on - strand, within PP_0055at 64.144 kb on + strandat 64.207 kb on + strand, within PP_0055at 64.207 kb on + strand, within PP_0055at 64.207 kb on + strand, within PP_0055at 64.222 kb on + strand, within PP_0055at 64.222 kb on + strand, within PP_0055at 64.222 kb on + strandat 64.223 kb on - strand, within PP_0055at 64.223 kb on - strand, within PP_0055at 64.223 kb on - strand, within PP_0055at 64.223 kb on - strand, within PP_0055at 64.224 kb on + strand, within PP_0055at 64.237 kb on + strand, within PP_0055at 64.366 kb on + strand, within PP_0055at 64.608 kb on - strand, within PP_0055at 64.631 kb on + strandat 64.632 kb on - strandat 64.726 kb on + strandat 64.726 kb on + strandat 64.750 kb on - strandat 64.788 kb on + strandat 64.831 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction 48hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% DO.
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62,074 + PP_0053 0.25 +0.5
62,074 + PP_0053 0.25 -1.2
62,074 + PP_0053 0.25 +0.1
62,074 + PP_0053 0.25 +2.1
62,075 - PP_0053 0.25 +0.5
62,075 - PP_0053 0.25 +0.2
62,170 + PP_0053 0.33 -2.1
62,170 + PP_0053 0.33 -0.0
62,171 - PP_0053 0.33 -0.9
62,171 - PP_0053 0.33 -0.4
62,176 + PP_0053 0.33 -0.8
62,176 + PP_0053 0.33 -0.3
62,191 + PP_0053 0.34 -0.8
62,191 + PP_0053 0.34 -0.2
62,191 + PP_0053 0.34 +0.1
62,191 + PP_0053 0.34 -0.6
62,191 + PP_0053 0.34 +2.7
62,191 + PP_0053 0.34 +2.4
62,192 - PP_0053 0.34 +0.7
62,192 - PP_0053 0.34 -0.8
62,192 - PP_0053 0.34 -0.2
62,192 - PP_0053 0.34 +0.6
62,193 + PP_0053 0.34 +2.7
62,194 - PP_0053 0.35 -0.5
62,194 - PP_0053 0.35 -0.1
62,194 - PP_0053 0.35 +0.2
62,194 - PP_0053 0.35 +0.9
62,194 - PP_0053 0.35 -0.1
62,290 + PP_0053 0.42 -0.3
62,290 + PP_0053 0.42 -0.8
62,291 - PP_0053 0.42 -0.5
62,291 - PP_0053 0.42 -0.1
62,386 + PP_0053 0.50 -0.6
62,386 + PP_0053 0.50 -0.9
62,387 - PP_0053 0.50 -0.7
62,387 - PP_0053 0.50 +0.9
62,387 - +3.7
62,408 - PP_0053 0.51 -1.8
62,408 - PP_0053 0.51 +2.7
62,408 - PP_0053 0.51 -0.7
62,408 - PP_0053 0.51 -0.0
62,419 + PP_0053 0.52 +0.3
62,453 + PP_0053 0.55 +0.6
62,454 - PP_0053 0.55 +1.1
62,459 + PP_0053 0.55 +0.1
62,459 + PP_0053 0.55 -0.4
62,459 + PP_0053 0.55 +1.5
62,460 - PP_0053 0.55 +0.8
62,481 + PP_0053 0.57 -0.2
62,482 - PP_0053 0.57 -2.0
62,482 - PP_0053 0.57 -0.7
62,494 - PP_0053 0.58 +0.6
62,631 + PP_0053 0.69 +1.6
62,651 - PP_0053 0.71 -0.1
62,651 - PP_0053 0.71 -0.6
62,651 - PP_0053 0.71 +2.7
62,651 - PP_0053 0.71 -0.1
62,651 - PP_0053 0.71 -0.1
62,669 + PP_0053 0.72 +0.6
62,670 - PP_0053 0.72 -0.1
62,670 - PP_0053 0.72 +2.7
62,670 - PP_0053 0.72 +0.2
62,683 - PP_0053 0.73 -1.0
62,851 + PP_0053 0.86 -1.5
62,851 + PP_0053 0.86 -1.7
62,851 + PP_0053 0.86 -1.7
62,852 - PP_0053 0.86 +0.7
62,852 - PP_0053 0.86 +0.7
62,852 - PP_0053 0.86 -0.6
63,112 + PP_0054 0.15 -1.0
63,113 - PP_0054 0.15 -2.4
63,178 + PP_0054 0.23 +0.9
63,178 + +3.7
63,179 - PP_0054 0.23 -1.8
63,179 - PP_0054 0.23 -1.1
63,179 - PP_0054 0.23 -0.8
63,179 - PP_0054 0.23 -0.4
63,179 - PP_0054 0.23 -0.5
63,332 - PP_0054 0.41 -0.3
63,351 + PP_0054 0.43 -0.7
63,351 + PP_0054 0.43 -0.7
63,352 - PP_0054 0.43 -0.8
63,576 + PP_0054 0.69 -0.7
63,576 + PP_0054 0.69 +0.5
63,829 + -0.8
63,877 + -0.9
63,878 - +0.7
63,878 - -0.7
63,937 + PP_0055 0.12 +0.3
64,000 + PP_0055 0.19 -0.2
64,000 + PP_0055 0.19 -0.3
64,001 - PP_0055 0.19 +0.6
64,001 - PP_0055 0.19 -0.2
64,001 - PP_0055 0.19 +0.7
64,087 - PP_0055 0.29 +0.9
64,144 + -0.1
64,207 + PP_0055 0.43 -0.9
64,207 + PP_0055 0.43 -0.0
64,207 + PP_0055 0.43 -0.7
64,222 + PP_0055 0.44 +0.3
64,222 + PP_0055 0.44 -2.7
64,222 + +2.1
64,223 - PP_0055 0.44 -0.1
64,223 - PP_0055 0.44 +0.2
64,223 - PP_0055 0.44 -0.0
64,223 - PP_0055 0.44 +0.4
64,224 + PP_0055 0.45 -0.9
64,237 + PP_0055 0.46 +0.3
64,366 + PP_0055 0.61 -1.5
64,608 - PP_0055 0.88 +0.4
64,631 + -0.3
64,632 - -0.6
64,726 + -0.2
64,726 + -0.6
64,750 - +1.4
64,788 + +1.0
64,831 + -1.2

Or see this region's nucleotide sequence