Strain Fitness in Pseudomonas putida KT2440 around PP_t61

Experiment: nitrogen source nitrite 1mM

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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_3920 and PP_t61 are separated by 101 nucleotidesPP_t61 and PP_3922 are separated by 154 nucleotides PP_3920: PP_3920 - putative Phage integrase, at 4,426,367 to 4,427,416 _3920 PP_t61: PP_t61 - tRNA-Cys, at 4,427,518 to 4,427,591 _t61 PP_3922: PP_3922 - putative inner membrane peptidase, at 4,427,746 to 4,428,765 _3922 Position (kb) 4427 4428Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 4426.592 kb on + strand, within PP_3920at 4426.592 kb on + strand, within PP_3920at 4426.593 kb on - strand, within PP_3920at 4426.647 kb on - strand, within PP_3920at 4426.721 kb on + strand, within PP_3920at 4426.760 kb on + strand, within PP_3920at 4426.783 kb on - strand, within PP_3920at 4426.783 kb on - strand, within PP_3920at 4426.783 kb on - strand, within PP_3920at 4426.783 kb on - strand, within PP_3920at 4426.810 kb on + strand, within PP_3920at 4426.810 kb on + strand, within PP_3920at 4426.811 kb on - strand, within PP_3920at 4426.901 kb on + strand, within PP_3920at 4426.902 kb on - strand, within PP_3920at 4426.902 kb on - strand, within PP_3920at 4426.946 kb on + strand, within PP_3920at 4426.946 kb on + strand, within PP_3920at 4426.946 kb on + strand, within PP_3920at 4426.975 kb on - strand, within PP_3920at 4426.975 kb on - strand, within PP_3920at 4426.975 kb on - strand, within PP_3920at 4427.009 kb on + strand, within PP_3920at 4427.010 kb on - strand, within PP_3920at 4427.058 kb on + strand, within PP_3920at 4427.059 kb on - strand, within PP_3920at 4427.073 kb on + strand, within PP_3920at 4427.073 kb on + strand, within PP_3920at 4427.130 kb on + strand, within PP_3920at 4427.131 kb on - strand, within PP_3920at 4427.131 kb on - strand, within PP_3920at 4427.441 kb on + strandat 4427.625 kb on - strandat 4427.800 kb on - strandat 4427.820 kb on + strandat 4427.820 kb on + strandat 4427.821 kb on - strandat 4427.849 kb on + strand, within PP_3922at 4427.849 kb on + strand, within PP_3922at 4427.894 kb on + strand, within PP_3922at 4427.895 kb on - strand, within PP_3922at 4428.053 kb on + strand, within PP_3922at 4428.053 kb on + strand, within PP_3922at 4428.054 kb on - strand, within PP_3922at 4428.107 kb on + strand, within PP_3922at 4428.192 kb on + strand, within PP_3922at 4428.192 kb on + strand, within PP_3922at 4428.192 kb on + strand, within PP_3922at 4428.192 kb on + strand, within PP_3922at 4428.192 kb on + strand, within PP_3922at 4428.192 kb on + strand, within PP_3922at 4428.192 kb on + strand, within PP_3922at 4428.193 kb on - strand, within PP_3922at 4428.193 kb on - strand, within PP_3922at 4428.193 kb on - strand, within PP_3922at 4428.193 kb on - strand, within PP_3922at 4428.251 kb on + strand, within PP_3922at 4428.251 kb on + strand, within PP_3922at 4428.252 kb on - strand, within PP_3922at 4428.341 kb on + strand, within PP_3922at 4428.341 kb on + strand, within PP_3922at 4428.478 kb on + strand, within PP_3922

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Per-strain Table

Position Strand Gene LocusTag Fraction nitrogen source nitrite 1mM
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4,426,592 + PP_3920 0.21 -3.6
4,426,592 + PP_3920 0.21 +0.3
4,426,593 - PP_3920 0.22 +0.7
4,426,647 - PP_3920 0.27 +1.0
4,426,721 + PP_3920 0.34 -2.0
4,426,760 + PP_3920 0.37 +0.6
4,426,783 - PP_3920 0.40 +0.3
4,426,783 - PP_3920 0.40 -0.2
4,426,783 - PP_3920 0.40 +1.7
4,426,783 - PP_3920 0.40 -0.6
4,426,810 + PP_3920 0.42 -0.7
4,426,810 + PP_3920 0.42 -0.2
4,426,811 - PP_3920 0.42 -3.4
4,426,901 + PP_3920 0.51 +1.5
4,426,902 - PP_3920 0.51 +1.6
4,426,902 - PP_3920 0.51 +0.8
4,426,946 + PP_3920 0.55 +1.1
4,426,946 + PP_3920 0.55 +0.6
4,426,946 + PP_3920 0.55 +0.8
4,426,975 - PP_3920 0.58 -1.7
4,426,975 - PP_3920 0.58 -0.3
4,426,975 - PP_3920 0.58 -0.7
4,427,009 + PP_3920 0.61 +0.3
4,427,010 - PP_3920 0.61 -3.0
4,427,058 + PP_3920 0.66 +2.6
4,427,059 - PP_3920 0.66 -2.1
4,427,073 + PP_3920 0.67 +0.1
4,427,073 + PP_3920 0.67 -0.1
4,427,130 + PP_3920 0.73 +0.1
4,427,131 - PP_3920 0.73 +0.9
4,427,131 - PP_3920 0.73 +1.3
4,427,441 + -0.9
4,427,625 - -1.0
4,427,800 - +0.5
4,427,820 + +2.0
4,427,820 + +0.4
4,427,821 - +0.2
4,427,849 + PP_3922 0.10 -3.0
4,427,849 + PP_3922 0.10 -1.2
4,427,894 + PP_3922 0.15 -3.4
4,427,895 - PP_3922 0.15 +2.2
4,428,053 + PP_3922 0.30 +0.3
4,428,053 + PP_3922 0.30 -0.4
4,428,054 - PP_3922 0.30 +0.6
4,428,107 + PP_3922 0.35 -0.3
4,428,192 + PP_3922 0.44 +0.2
4,428,192 + PP_3922 0.44 -0.5
4,428,192 + PP_3922 0.44 -1.9
4,428,192 + PP_3922 0.44 -0.9
4,428,192 + PP_3922 0.44 -3.5
4,428,192 + PP_3922 0.44 -1.2
4,428,192 + PP_3922 0.44 -1.2
4,428,193 - PP_3922 0.44 -0.9
4,428,193 - PP_3922 0.44 -0.1
4,428,193 - PP_3922 0.44 +0.6
4,428,193 - PP_3922 0.44 -3.1
4,428,251 + PP_3922 0.50 +0.7
4,428,251 + PP_3922 0.50 +0.6
4,428,252 - PP_3922 0.50 -0.0
4,428,341 + PP_3922 0.58 -0.3
4,428,341 + PP_3922 0.58 -1.6
4,428,478 + PP_3922 0.72 -3.8

Or see this region's nucleotide sequence