Strain Fitness in Pseudomonas putida KT2440 around PP_5464

Experiment: 24hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 30% 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_5463 and PP_5464 are separated by 341 nucleotidesPP_5464 and PP_1116 are separated by 204 nucleotides PP_5463: PP_5463 - conserved protein of unknown function, at 1,275,115 to 1,275,675 _5463 PP_5464: PP_5464 - protein of unknown function, at 1,276,017 to 1,276,454 _5464 PP_1116: PP_1116 - Site-specific recombinase, resolvase family, at 1,276,659 to 1,277,369 _1116 Position (kb) 1276 1277Strain fitness (log2 ratio) -2 -1 0 1 2at 1275.031 kb on + strandat 1275.052 kb on + strandat 1275.052 kb on + strandat 1275.052 kb on + strandat 1275.052 kb on + strandat 1275.053 kb on - strandat 1275.116 kb on + strandat 1275.117 kb on - strandat 1275.121 kb on + strandat 1275.122 kb on - strandat 1275.124 kb on + strandat 1275.124 kb on + strandat 1275.218 kb on + strand, within PP_5463at 1275.242 kb on + strand, within PP_5463at 1275.243 kb on - strand, within PP_5463at 1275.250 kb on + strand, within PP_5463at 1275.251 kb on - strand, within PP_5463at 1275.265 kb on + strand, within PP_5463at 1275.265 kb on + strand, within PP_5463at 1275.266 kb on - strand, within PP_5463at 1275.266 kb on - strand, within PP_5463at 1275.266 kb on - strand, within PP_5463at 1275.267 kb on + strand, within PP_5463at 1275.268 kb on - strand, within PP_5463at 1275.268 kb on - strand, within PP_5463at 1275.305 kb on - strand, within PP_5463at 1275.310 kb on + strand, within PP_5463at 1275.310 kb on + strand, within PP_5463at 1275.311 kb on - strand, within PP_5463at 1275.358 kb on + strand, within PP_5463at 1275.358 kb on + strand, within PP_5463at 1275.359 kb on - strand, within PP_5463at 1275.359 kb on - strandat 1275.423 kb on - strand, within PP_5463at 1275.427 kb on - strand, within PP_5463at 1275.427 kb on - strand, within PP_5463at 1275.462 kb on + strand, within PP_5463at 1275.463 kb on - strand, within PP_5463at 1275.471 kb on - strand, within PP_5463at 1275.474 kb on + strand, within PP_5463at 1275.474 kb on + strand, within PP_5463at 1275.498 kb on - strand, within PP_5463at 1275.498 kb on - strand, within PP_5463at 1275.501 kb on + strand, within PP_5463at 1275.502 kb on - strand, within PP_5463at 1275.516 kb on + strand, within PP_5463at 1275.560 kb on - strand, within PP_5463at 1275.597 kb on + strand, within PP_5463at 1275.597 kb on + strand, within PP_5463at 1275.598 kb on - strand, within PP_5463at 1275.598 kb on - strand, within PP_5463at 1275.626 kb on + strandat 1275.703 kb on + strandat 1275.703 kb on + strandat 1275.813 kb on + strandat 1275.814 kb on - strandat 1275.814 kb on - strandat 1275.814 kb on - strandat 1275.903 kb on - strandat 1275.927 kb on - strandat 1275.947 kb on + strandat 1275.966 kb on + strandat 1275.994 kb on + strandat 1275.994 kb on + strandat 1275.994 kb on + strandat 1275.994 kb on + strandat 1275.995 kb on - strandat 1276.079 kb on + strand, within PP_5464at 1276.079 kb on + strand, within PP_5464at 1276.079 kb on + strand, within PP_5464at 1276.080 kb on - strand, within PP_5464at 1276.080 kb on - strandat 1276.099 kb on + strand, within PP_5464at 1276.099 kb on + strand, within PP_5464at 1276.099 kb on + strand, within PP_5464at 1276.100 kb on - strand, within PP_5464at 1276.100 kb on - strand, within PP_5464at 1276.100 kb on - strand, within PP_5464at 1276.148 kb on + strand, within PP_5464at 1276.148 kb on + strand, within PP_5464at 1276.148 kb on + strand, within PP_5464at 1276.155 kb on + strand, within PP_5464at 1276.197 kb on + strand, within PP_5464at 1276.197 kb on + strand, within PP_5464at 1276.197 kb on + strand, within PP_5464at 1276.198 kb on - strand, within PP_5464at 1276.198 kb on - strand, within PP_5464at 1276.198 kb on - strand, within PP_5464at 1276.198 kb on - strand, within PP_5464at 1276.198 kb on - strand, within PP_5464at 1276.198 kb on - strand, within PP_5464at 1276.212 kb on + strand, within PP_5464at 1276.213 kb on - strand, within PP_5464at 1276.270 kb on - strand, within PP_5464at 1276.308 kb on + strand, within PP_5464at 1276.308 kb on + strand, within PP_5464at 1276.309 kb on - strand, within PP_5464at 1276.345 kb on - strand, within PP_5464at 1276.366 kb on + strand, within PP_5464at 1276.377 kb on + strand, within PP_5464at 1276.377 kb on + strand, within PP_5464at 1276.378 kb on - strand, within PP_5464at 1276.408 kb on + strand, within PP_5464at 1276.409 kb on - strand, within PP_5464at 1276.428 kb on + strandat 1276.429 kb on - strandat 1276.518 kb on - strandat 1276.518 kb on - strandat 1276.544 kb on - strandat 1276.585 kb on + strandat 1276.586 kb on - strandat 1276.586 kb on - strandat 1276.598 kb on - strandat 1276.638 kb on + strandat 1276.639 kb on - strandat 1276.648 kb on - strandat 1276.651 kb on - strandat 1276.651 kb on - strandat 1276.660 kb on + strandat 1276.660 kb on + strandat 1276.660 kb on + strandat 1276.660 kb on + strandat 1276.661 kb on - strandat 1276.661 kb on - strandat 1276.661 kb on - strandat 1276.695 kb on + strandat 1276.695 kb on + strandat 1276.730 kb on + strand, within PP_1116at 1276.761 kb on + strand, within PP_1116at 1276.762 kb on - strand, within PP_1116at 1276.829 kb on - strand, within PP_1116at 1276.847 kb on + strand, within PP_1116at 1276.847 kb on + strand, within PP_1116at 1276.847 kb on + strand, within PP_1116at 1276.869 kb on - strand, within PP_1116at 1276.869 kb on - strand, within PP_1116at 1276.869 kb on - strand, within PP_1116at 1276.933 kb on - strand, within PP_1116at 1277.094 kb on + strand, within PP_1116at 1277.095 kb on - strand, within PP_1116at 1277.288 kb on - strand, within PP_1116at 1277.288 kb on - strand, within PP_1116at 1277.310 kb on + strandat 1277.310 kb on + strandat 1277.336 kb on + strandat 1277.340 kb on + strandat 1277.341 kb on - strandat 1277.350 kb on + strandat 1277.351 kb on - strandat 1277.389 kb on - strandat 1277.444 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction 24hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 30% DO.
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1,275,031 + -0.9
1,275,052 + -0.6
1,275,052 + -2.6
1,275,052 + +0.9
1,275,052 + +0.0
1,275,053 - +0.8
1,275,116 + +0.1
1,275,117 - +0.2
1,275,121 + +0.2
1,275,122 - -0.2
1,275,124 + +0.2
1,275,124 + +0.4
1,275,218 + PP_5463 0.18 -0.6
1,275,242 + PP_5463 0.23 +0.2
1,275,243 - PP_5463 0.23 +0.4
1,275,250 + PP_5463 0.24 -0.1
1,275,251 - PP_5463 0.24 -0.6
1,275,265 + PP_5463 0.27 +0.2
1,275,265 + PP_5463 0.27 +0.1
1,275,266 - PP_5463 0.27 -0.6
1,275,266 - PP_5463 0.27 +0.3
1,275,266 - PP_5463 0.27 +0.0
1,275,267 + PP_5463 0.27 +0.3
1,275,268 - PP_5463 0.27 -0.3
1,275,268 - PP_5463 0.27 -0.8
1,275,305 - PP_5463 0.34 -0.6
1,275,310 + PP_5463 0.35 +0.1
1,275,310 + PP_5463 0.35 -0.8
1,275,311 - PP_5463 0.35 +0.9
1,275,358 + PP_5463 0.43 -0.8
1,275,358 + PP_5463 0.43 -1.6
1,275,359 - PP_5463 0.43 +1.4
1,275,359 - +1.0
1,275,423 - PP_5463 0.55 -0.3
1,275,427 - PP_5463 0.56 +0.9
1,275,427 - PP_5463 0.56 +1.6
1,275,462 + PP_5463 0.62 +0.7
1,275,463 - PP_5463 0.62 +1.7
1,275,471 - PP_5463 0.63 -0.8
1,275,474 + PP_5463 0.64 +1.4
1,275,474 + PP_5463 0.64 -1.0
1,275,498 - PP_5463 0.68 +0.4
1,275,498 - PP_5463 0.68 +0.8
1,275,501 + PP_5463 0.69 +0.3
1,275,502 - PP_5463 0.69 +1.2
1,275,516 + PP_5463 0.71 -1.1
1,275,560 - PP_5463 0.79 +1.6
1,275,597 + PP_5463 0.86 +0.3
1,275,597 + PP_5463 0.86 +0.7
1,275,598 - PP_5463 0.86 +0.7
1,275,598 - PP_5463 0.86 -0.2
1,275,626 + -0.4
1,275,703 + -0.2
1,275,703 + -0.6
1,275,813 + +0.1
1,275,814 - +0.0
1,275,814 - +0.9
1,275,814 - +0.7
1,275,903 - -1.0
1,275,927 - +1.2
1,275,947 + +0.5
1,275,966 + +0.8
1,275,994 + -0.6
1,275,994 + -0.1
1,275,994 + -0.7
1,275,994 + +0.0
1,275,995 - -1.1
1,276,079 + PP_5464 0.14 -0.0
1,276,079 + PP_5464 0.14 +0.6
1,276,079 + PP_5464 0.14 +0.8
1,276,080 - PP_5464 0.14 +0.1
1,276,080 - +2.1
1,276,099 + PP_5464 0.19 +1.8
1,276,099 + PP_5464 0.19 -0.0
1,276,099 + PP_5464 0.19 +0.7
1,276,100 - PP_5464 0.19 +0.6
1,276,100 - PP_5464 0.19 +0.2
1,276,100 - PP_5464 0.19 -2.0
1,276,148 + PP_5464 0.30 +0.1
1,276,148 + PP_5464 0.30 +0.8
1,276,148 + PP_5464 0.30 +1.2
1,276,155 + PP_5464 0.32 +0.6
1,276,197 + PP_5464 0.41 +0.1
1,276,197 + PP_5464 0.41 +0.4
1,276,197 + PP_5464 0.41 -1.6
1,276,198 - PP_5464 0.41 +1.5
1,276,198 - PP_5464 0.41 +1.0
1,276,198 - PP_5464 0.41 -1.1
1,276,198 - PP_5464 0.41 +0.9
1,276,198 - PP_5464 0.41 -0.2
1,276,198 - PP_5464 0.41 -0.2
1,276,212 + PP_5464 0.45 +1.6
1,276,213 - PP_5464 0.45 +0.2
1,276,270 - PP_5464 0.58 -0.6
1,276,308 + PP_5464 0.66 +0.3
1,276,308 + PP_5464 0.66 -0.2
1,276,309 - PP_5464 0.67 -0.8
1,276,345 - PP_5464 0.75 +0.0
1,276,366 + PP_5464 0.80 +0.1
1,276,377 + PP_5464 0.82 -0.6
1,276,377 + PP_5464 0.82 +0.2
1,276,378 - PP_5464 0.82 +0.7
1,276,408 + PP_5464 0.89 +0.7
1,276,409 - PP_5464 0.89 +0.6
1,276,428 + +0.4
1,276,429 - -1.6
1,276,518 - +1.1
1,276,518 - +0.4
1,276,544 - +0.2
1,276,585 + +0.0
1,276,586 - +0.9
1,276,586 - +2.6
1,276,598 - -1.7
1,276,638 + -0.6
1,276,639 - -2.2
1,276,648 - -0.3
1,276,651 - -0.4
1,276,651 - +0.1
1,276,660 + +1.4
1,276,660 + +0.6
1,276,660 + +0.1
1,276,660 + +0.1
1,276,661 - -0.1
1,276,661 - +0.2
1,276,661 - +0.1
1,276,695 + +0.2
1,276,695 + +1.7
1,276,730 + PP_1116 0.10 -0.9
1,276,761 + PP_1116 0.14 -1.3
1,276,762 - PP_1116 0.14 -1.2
1,276,829 - PP_1116 0.24 -0.2
1,276,847 + PP_1116 0.26 -1.2
1,276,847 + PP_1116 0.26 +0.1
1,276,847 + PP_1116 0.26 -0.1
1,276,869 - PP_1116 0.30 +0.4
1,276,869 - PP_1116 0.30 +0.1
1,276,869 - PP_1116 0.30 +0.4
1,276,933 - PP_1116 0.39 +1.2
1,277,094 + PP_1116 0.61 +0.6
1,277,095 - PP_1116 0.61 +0.8
1,277,288 - PP_1116 0.88 -0.3
1,277,288 - PP_1116 0.88 -0.5
1,277,310 + +0.8
1,277,310 + +0.5
1,277,336 + -1.3
1,277,340 + +0.6
1,277,341 - +0.3
1,277,350 + +1.2
1,277,351 - +1.0
1,277,389 - +1.0
1,277,444 - +0.3

Or see this region's nucleotide sequence