Strain Fitness in Pseudomonas putida KT2440 around PP_0353

Experiment: Adaptation in M9 media timecourse 3; day 3

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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_0351 and PP_0352 overlap by 4 nucleotidesPP_0352 and PP_0353 are separated by 147 nucleotidesPP_0353 and PP_0354 overlap by 4 nucleotides PP_0351: PP_0351 - putative Transmembrane sensor protein, at 428,050 to 429,006 _0351 PP_0352: PP_0352 - RNA polymerase sigma-70 factor, ECF subfamily, at 429,003 to 429,521 _0352 PP_0353: PP_0353 - Exonuclease, at 429,669 to 430,379 _0353 PP_0354: PP_0354 - CBS domain protein, at 430,376 to 432,313 _0354 Position (kb) 429 430 431Strain fitness (log2 ratio) -2 -1 0 1 2 3at 428.682 kb on - strand, within PP_0351at 428.682 kb on - strand, within PP_0351at 429.031 kb on + strandat 429.031 kb on + strandat 429.031 kb on + strandat 429.032 kb on - strandat 429.032 kb on - strandat 429.032 kb on - strandat 429.058 kb on + strand, within PP_0352at 429.059 kb on - strand, within PP_0352at 429.268 kb on + strand, within PP_0352at 429.268 kb on + strand, within PP_0352at 429.268 kb on + strand, within PP_0352at 429.476 kb on - strandat 429.641 kb on + strandat 429.642 kb on - strandat 429.664 kb on + strandat 429.665 kb on - strandat 429.670 kb on + strandat 429.670 kb on + strandat 429.671 kb on - strandat 430.104 kb on + strand, within PP_0353at 430.104 kb on + strand, within PP_0353at 430.105 kb on - strand, within PP_0353at 430.105 kb on - strand, within PP_0353at 430.105 kb on - strand, within PP_0353at 430.206 kb on + strand, within PP_0353at 430.207 kb on - strand, within PP_0353at 430.207 kb on - strand, within PP_0353at 430.277 kb on + strand, within PP_0353at 430.277 kb on + strand, within PP_0353at 430.277 kb on + strand, within PP_0353at 430.277 kb on + strand, within PP_0353at 430.277 kb on + strand, within PP_0353at 430.278 kb on - strand, within PP_0353at 430.278 kb on - strand, within PP_0353at 430.281 kb on + strand, within PP_0353at 430.282 kb on - strand, within PP_0353at 430.282 kb on - strand, within PP_0353at 430.379 kb on + strandat 430.379 kb on + strandat 430.379 kb on + strandat 430.380 kb on - strandat 430.380 kb on - strandat 430.380 kb on - strandat 430.380 kb on - strandat 430.491 kb on + strandat 430.491 kb on + strandat 430.508 kb on + strandat 430.509 kb on - strandat 430.554 kb on + strandat 430.554 kb on + strandat 430.554 kb on + strandat 430.555 kb on - strandat 430.555 kb on - strandat 430.566 kb on + strandat 430.567 kb on - strandat 430.630 kb on + strand, within PP_0354at 430.631 kb on - strand, within PP_0354at 430.643 kb on + strand, within PP_0354at 430.643 kb on + strand, within PP_0354at 430.643 kb on + strand, within PP_0354at 430.643 kb on + strand, within PP_0354at 430.643 kb on + strand, within PP_0354at 430.643 kb on + strand, within PP_0354at 430.643 kb on + strand, within PP_0354at 430.643 kb on + strand, within PP_0354at 430.644 kb on - strand, within PP_0354at 430.906 kb on - strand, within PP_0354at 431.064 kb on + strand, within PP_0354at 431.064 kb on + strand, within PP_0354at 431.201 kb on - strand, within PP_0354at 431.260 kb on + strand, within PP_0354at 431.261 kb on - strand, within PP_0354at 431.261 kb on - strand, within PP_0354at 431.261 kb on - strand, within PP_0354at 431.278 kb on + strand, within PP_0354at 431.278 kb on + strand, within PP_0354at 431.279 kb on - strand, within PP_0354at 431.279 kb on - strand, within PP_0354at 431.279 kb on - strand, within PP_0354at 431.279 kb on - strand, within PP_0354at 431.330 kb on + strand, within PP_0354at 431.330 kb on + strand, within PP_0354at 431.330 kb on + strand, within PP_0354at 431.331 kb on - strand, within PP_0354at 431.331 kb on - strand, within PP_0354at 431.331 kb on - strand, within PP_0354

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Per-strain Table

Position Strand Gene LocusTag Fraction Adaptation in M9 media timecourse 3; day 3
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428,682 - PP_0351 0.66 -0.9
428,682 - PP_0351 0.66 -0.2
429,031 + +0.2
429,031 + +0.6
429,031 + -0.1
429,032 - -1.2
429,032 - +0.6
429,032 - -1.1
429,058 + PP_0352 0.11 -0.0
429,059 - PP_0352 0.11 +0.8
429,268 + PP_0352 0.51 +0.6
429,268 + PP_0352 0.51 -0.1
429,268 + PP_0352 0.51 -0.7
429,476 - -0.4
429,641 + +0.7
429,642 - -1.7
429,664 + +0.2
429,665 - +2.2
429,670 + +0.6
429,670 + +0.1
429,671 - -1.2
430,104 + PP_0353 0.61 +1.1
430,104 + PP_0353 0.61 +0.2
430,105 - PP_0353 0.61 +0.8
430,105 - PP_0353 0.61 +0.0
430,105 - PP_0353 0.61 +0.4
430,206 + PP_0353 0.76 -0.2
430,207 - PP_0353 0.76 -1.4
430,207 - PP_0353 0.76 -0.0
430,277 + PP_0353 0.86 +1.6
430,277 + PP_0353 0.86 +0.4
430,277 + PP_0353 0.86 -1.6
430,277 + PP_0353 0.86 +0.7
430,277 + PP_0353 0.86 +1.6
430,278 - PP_0353 0.86 +0.7
430,278 - PP_0353 0.86 +0.6
430,281 + PP_0353 0.86 +1.0
430,282 - PP_0353 0.86 +0.9
430,282 - PP_0353 0.86 +0.5
430,379 + +0.3
430,379 + +1.0
430,379 + +0.1
430,380 - -0.8
430,380 - +0.1
430,380 - -0.0
430,380 - -0.2
430,491 + -2.0
430,491 + +0.1
430,508 + +0.6
430,509 - -0.1
430,554 + +0.7
430,554 + +1.2
430,554 + -0.9
430,555 - +0.3
430,555 - -0.5
430,566 + -0.3
430,567 - +1.6
430,630 + PP_0354 0.13 -1.0
430,631 - PP_0354 0.13 -0.9
430,643 + PP_0354 0.14 +0.3
430,643 + PP_0354 0.14 +0.1
430,643 + PP_0354 0.14 +0.1
430,643 + PP_0354 0.14 +0.6
430,643 + PP_0354 0.14 +0.3
430,643 + PP_0354 0.14 +0.0
430,643 + PP_0354 0.14 +0.8
430,643 + PP_0354 0.14 +0.4
430,644 - PP_0354 0.14 -1.2
430,906 - PP_0354 0.27 +0.3
431,064 + PP_0354 0.36 -0.1
431,064 + PP_0354 0.36 -0.2
431,201 - PP_0354 0.43 -1.4
431,260 + PP_0354 0.46 -0.8
431,261 - PP_0354 0.46 +0.3
431,261 - PP_0354 0.46 -0.4
431,261 - PP_0354 0.46 -0.4
431,278 + PP_0354 0.47 +0.7
431,278 + PP_0354 0.47 +0.1
431,279 - PP_0354 0.47 -0.1
431,279 - PP_0354 0.47 +1.0
431,279 - PP_0354 0.47 -0.1
431,279 - PP_0354 0.47 +0.2
431,330 + PP_0354 0.49 +0.6
431,330 + PP_0354 0.49 -0.7
431,330 + PP_0354 0.49 +3.6
431,331 - PP_0354 0.49 -0.2
431,331 - PP_0354 0.49 +0.8
431,331 - PP_0354 0.49 -0.8

Or see this region's nucleotide sequence