Strain Fitness in Pseudomonas putida KT2440 around PP_1568

Experiment: Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=144_hrs

Add experiment(s):

Zoom: Pan:

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.

download SVG
500 ntPP_1567 and PP_1568 are separated by 41 nucleotidesPP_1568 and PP_1569 are separated by 3 nucleotidesPP_1569 and PP_1570 overlap by 1 nucleotidesPP_1570 and PP_1571 overlap by 8 nucleotides PP_1567: PP_1567 - Capsid protein, at 1,760,853 to 1,762,097 _1567 PP_1568: PP_1568 - conserved protein of unknown function, at 1,762,139 to 1,762,363 _1568 PP_1569: PP_1569 - conserved protein of unknown function, at 1,762,367 to 1,762,843 _1569 PP_1570: PP_1570 - Head-tail adaptor, at 1,762,843 to 1,763,184 _1570 PP_1571: PP_1571 - conserved protein of unknown function, at 1,763,177 to 1,763,662 _1571 Position (kb) 1762 1763Strain fitness (log2 ratio) -2 -1 0 1 2 3at 1761.242 kb on + strand, within PP_1567at 1761.251 kb on + strand, within PP_1567at 1761.277 kb on + strand, within PP_1567at 1761.479 kb on + strand, within PP_1567at 1761.479 kb on + strand, within PP_1567at 1761.555 kb on + strand, within PP_1567at 1761.555 kb on + strand, within PP_1567at 1761.555 kb on + strand, within PP_1567at 1761.576 kb on + strand, within PP_1567at 1761.588 kb on + strand, within PP_1567at 1761.588 kb on + strand, within PP_1567at 1761.588 kb on + strand, within PP_1567at 1761.588 kb on + strand, within PP_1567at 1761.707 kb on + strand, within PP_1567at 1761.707 kb on + strand, within PP_1567at 1761.747 kb on + strand, within PP_1567at 1761.822 kb on + strand, within PP_1567at 1761.822 kb on + strand, within PP_1567at 1761.822 kb on + strand, within PP_1567at 1761.823 kb on - strand, within PP_1567at 1761.823 kb on - strand, within PP_1567at 1761.854 kb on - strand, within PP_1567at 1762.139 kb on - strandat 1762.191 kb on - strand, within PP_1568at 1762.366 kb on + strandat 1762.366 kb on + strandat 1762.366 kb on + strandat 1762.366 kb on + strandat 1762.367 kb on - strandat 1762.367 kb on - strandat 1762.367 kb on - strandat 1762.367 kb on - strandat 1762.551 kb on + strand, within PP_1569at 1762.658 kb on + strand, within PP_1569at 1762.658 kb on + strand, within PP_1569at 1762.659 kb on - strand, within PP_1569at 1762.683 kb on - strand, within PP_1569at 1762.696 kb on + strand, within PP_1569at 1762.696 kb on + strand, within PP_1569at 1763.057 kb on + strand, within PP_1570at 1763.058 kb on - strand, within PP_1570at 1763.095 kb on + strand, within PP_1570at 1763.095 kb on + strand, within PP_1570at 1763.096 kb on - strand, within PP_1570at 1763.096 kb on - strand, within PP_1570at 1763.153 kb on + strandat 1763.153 kb on + strandat 1763.154 kb on - strandat 1763.154 kb on - strand

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=144_hrs
remove
1,761,242 + PP_1567 0.31 -0.0
1,761,251 + PP_1567 0.32 +0.9
1,761,277 + PP_1567 0.34 -1.0
1,761,479 + PP_1567 0.50 -0.7
1,761,479 + PP_1567 0.50 +0.8
1,761,555 + PP_1567 0.56 -0.3
1,761,555 + PP_1567 0.56 +0.2
1,761,555 + PP_1567 0.56 +0.3
1,761,576 + PP_1567 0.58 +0.5
1,761,588 + PP_1567 0.59 -1.3
1,761,588 + PP_1567 0.59 +0.4
1,761,588 + PP_1567 0.59 +0.1
1,761,588 + PP_1567 0.59 -0.2
1,761,707 + PP_1567 0.69 +0.4
1,761,707 + PP_1567 0.69 +0.0
1,761,747 + PP_1567 0.72 +0.5
1,761,822 + PP_1567 0.78 +1.2
1,761,822 + PP_1567 0.78 -0.4
1,761,822 + PP_1567 0.78 +0.1
1,761,823 - PP_1567 0.78 -0.2
1,761,823 - PP_1567 0.78 +0.5
1,761,854 - PP_1567 0.80 +0.4
1,762,139 - -0.8
1,762,191 - PP_1568 0.23 +0.6
1,762,366 + +0.3
1,762,366 + +0.1
1,762,366 + -0.9
1,762,366 + -0.2
1,762,367 - +0.5
1,762,367 - -2.7
1,762,367 - -0.2
1,762,367 - +2.1
1,762,551 + PP_1569 0.39 +0.5
1,762,658 + PP_1569 0.61 -1.5
1,762,658 + PP_1569 0.61 +0.0
1,762,659 - PP_1569 0.61 -0.1
1,762,683 - PP_1569 0.66 -0.1
1,762,696 + PP_1569 0.69 -1.2
1,762,696 + PP_1569 0.69 +0.6
1,763,057 + PP_1570 0.63 +3.0
1,763,058 - PP_1570 0.63 +0.4
1,763,095 + PP_1570 0.74 +0.8
1,763,095 + PP_1570 0.74 -0.1
1,763,096 - PP_1570 0.74 -1.1
1,763,096 - PP_1570 0.74 +0.8
1,763,153 + -0.1
1,763,153 + +0.7
1,763,154 - -0.5
1,763,154 - +0.6

Or see this region's nucleotide sequence