Strain Fitness in Pseudomonas putida KT2440 around PP_0003

Experiment: Adaptation in M9 media timecourse 3; day 2

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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_0001 and PP_0002 are separated by 9 nucleotidesPP_0002 and PP_0003 are separated by 18 nucleotidesPP_0003 and PP_0004 overlap by 4 nucleotides PP_0001: PP_0001 - probable chromosome-partitioning protein, at 147 to 1,019 _0001 PP_0002: PP_0002 - probable chromosome partition protein, at 1,029 to 1,820 _0002 PP_0003: PP_0003 - 16S RNA methyltransferase, at 1,839 to 2,489 _0003 PP_0004: PP_0004 - tRNA uridine 5-carboxymethylaminomethyl modification enzyme, at 2,486 to 4,381 _0004 Position (kb) 1 2 3Strain fitness (log2 ratio) -2 -1 0 1 2 3at 0.874 kb on + strand, within PP_0001at 0.874 kb on + strand, within PP_0001at 0.875 kb on - strand, within PP_0001at 1.030 kb on + strandat 1.031 kb on - strandat 1.031 kb on - strandat 1.031 kb on - strandat 1.031 kb on - strandat 1.096 kb on + strandat 1.097 kb on - strandat 1.126 kb on + strand, within PP_0002at 1.264 kb on + strand, within PP_0002at 1.264 kb on + strand, within PP_0002at 1.264 kb on + strand, within PP_0002at 1.264 kb on + strand, within PP_0002at 1.264 kb on + strand, within PP_0002at 1.264 kb on + strand, within PP_0002at 1.264 kb on + strand, within PP_0002at 1.264 kb on + strand, within PP_0002at 1.264 kb on + strand, within PP_0002at 1.265 kb on - strand, within PP_0002at 1.265 kb on - strand, within PP_0002at 1.265 kb on - strand, within PP_0002at 1.265 kb on - strand, within PP_0002at 1.265 kb on - strand, within PP_0002at 1.265 kb on - strand, within PP_0002at 1.332 kb on - strand, within PP_0002at 1.363 kb on + strand, within PP_0002at 1.363 kb on + strand, within PP_0002at 1.364 kb on - strand, within PP_0002at 1.364 kb on - strand, within PP_0002at 1.364 kb on - strand, within PP_0002at 1.364 kb on - strand, within PP_0002at 1.364 kb on - strand, within PP_0002at 1.364 kb on - strand, within PP_0002at 1.364 kb on - strand, within PP_0002at 1.364 kb on - strand, within PP_0002at 1.364 kb on - strand, within PP_0002at 1.366 kb on + strand, within PP_0002at 1.366 kb on + strand, within PP_0002at 1.366 kb on + strand, within PP_0002at 1.366 kb on + strand, within PP_0002at 1.367 kb on - strand, within PP_0002at 1.459 kb on + strand, within PP_0002at 1.459 kb on + strand, within PP_0002at 1.459 kb on + strand, within PP_0002at 1.459 kb on + strand, within PP_0002at 1.459 kb on + strand, within PP_0002at 1.460 kb on - strand, within PP_0002at 1.460 kb on - strand, within PP_0002at 1.460 kb on - strand, within PP_0002at 1.460 kb on - strand, within PP_0002at 1.460 kb on - strand, within PP_0002at 1.466 kb on - strand, within PP_0002at 1.466 kb on - strand, within PP_0002at 1.594 kb on + strand, within PP_0002at 1.595 kb on - strand, within PP_0002at 1.602 kb on - strand, within PP_0002at 1.639 kb on + strand, within PP_0002at 1.639 kb on + strand, within PP_0002at 1.760 kb on + strandat 1.760 kb on + strandat 1.760 kb on + strandat 1.760 kb on + strandat 1.761 kb on - strandat 1.761 kb on - strandat 1.761 kb on - strandat 1.761 kb on - strandat 1.761 kb on - strandat 1.809 kb on + strandat 1.809 kb on + strandat 1.810 kb on - strandat 1.810 kb on - strandat 1.814 kb on + strandat 1.815 kb on - strandat 1.939 kb on - strand, within PP_0003at 2.258 kb on + strand, within PP_0003at 2.258 kb on + strand, within PP_0003at 2.259 kb on - strand, within PP_0003at 2.291 kb on + strand, within PP_0003at 2.291 kb on + strand, within PP_0003at 2.353 kb on + strand, within PP_0003at 2.353 kb on + strand, within PP_0003at 2.354 kb on - strand, within PP_0003

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Per-strain Table

Position Strand Gene LocusTag Fraction Adaptation in M9 media timecourse 3; day 2
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874 + PP_0001 0.83 -0.6
874 + PP_0001 0.83 +1.4
875 - PP_0001 0.83 -0.6
1,030 + +3.0
1,031 - +0.4
1,031 - -0.6
1,031 - -0.9
1,031 - +0.4
1,096 + +0.1
1,097 - -1.9
1,126 + PP_0002 0.12 -0.6
1,264 + PP_0002 0.30 +0.4
1,264 + PP_0002 0.30 -1.6
1,264 + PP_0002 0.30 +0.4
1,264 + PP_0002 0.30 +0.2
1,264 + PP_0002 0.30 +1.4
1,264 + PP_0002 0.30 -0.7
1,264 + PP_0002 0.30 -0.8
1,264 + PP_0002 0.30 +0.0
1,264 + PP_0002 0.30 +1.0
1,265 - PP_0002 0.30 +1.4
1,265 - PP_0002 0.30 -1.8
1,265 - PP_0002 0.30 -0.9
1,265 - PP_0002 0.30 +1.4
1,265 - PP_0002 0.30 -1.2
1,265 - PP_0002 0.30 -0.6
1,332 - PP_0002 0.38 -0.2
1,363 + PP_0002 0.42 -1.1
1,363 + PP_0002 0.42 -0.4
1,364 - PP_0002 0.42 +0.4
1,364 - PP_0002 0.42 -0.2
1,364 - PP_0002 0.42 -0.4
1,364 - PP_0002 0.42 +1.4
1,364 - PP_0002 0.42 +1.4
1,364 - PP_0002 0.42 -1.2
1,364 - PP_0002 0.42 -0.2
1,364 - PP_0002 0.42 +1.4
1,364 - PP_0002 0.42 +1.4
1,366 + PP_0002 0.43 -2.0
1,366 + PP_0002 0.43 -0.4
1,366 + PP_0002 0.43 +1.4
1,366 + PP_0002 0.43 -0.5
1,367 - PP_0002 0.43 +2.0
1,459 + PP_0002 0.54 +0.4
1,459 + PP_0002 0.54 -1.3
1,459 + PP_0002 0.54 +1.4
1,459 + PP_0002 0.54 +0.4
1,459 + PP_0002 0.54 +0.8
1,460 - PP_0002 0.54 +0.4
1,460 - PP_0002 0.54 +0.4
1,460 - PP_0002 0.54 -1.4
1,460 - PP_0002 0.54 +1.4
1,460 - PP_0002 0.54 +1.7
1,466 - PP_0002 0.55 -1.6
1,466 - PP_0002 0.55 -2.3
1,594 + PP_0002 0.71 -0.2
1,595 - PP_0002 0.71 +0.4
1,602 - PP_0002 0.72 -0.6
1,639 + PP_0002 0.77 +0.3
1,639 + PP_0002 0.77 -0.2
1,760 + +1.4
1,760 + -1.3
1,760 + +0.4
1,760 + +0.1
1,761 - +0.4
1,761 - -1.8
1,761 - +0.4
1,761 - -1.8
1,761 - +0.4
1,809 + -0.2
1,809 + -0.9
1,810 - -0.4
1,810 - -2.0
1,814 + +0.4
1,815 - +0.4
1,939 - PP_0003 0.15 -0.5
2,258 + PP_0003 0.64 -1.8
2,258 + PP_0003 0.64 -0.2
2,259 - PP_0003 0.65 -0.2
2,291 + PP_0003 0.69 +1.4
2,291 + PP_0003 0.69 -0.4
2,353 + PP_0003 0.79 -1.2
2,353 + PP_0003 0.79 -1.0
2,354 - PP_0003 0.79 -1.4

Or see this region's nucleotide sequence