Strain Fitness in Pseudomonas syringae pv. syringae B728a around Psyr_1198

Experiment: KB with Rifampicin 0.1 mg/ml

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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 ntPsyr_1196 and Psyr_1197 are separated by 34 nucleotidesPsyr_1197 and Psyr_1198 are separated by 83 nucleotidesPsyr_1198 and Psyr_1199 overlap by 23 nucleotidesPsyr_1199 and Psyr_1200 are separated by 1 nucleotides Psyr_1196: Psyr_1196 - type III secretion protein HrpD, at 1,355,915 to 1,356,442 _1196 Psyr_1197: Psyr_1197 - type III secretion protein HrpE, at 1,356,477 to 1,357,058 _1197 Psyr_1198: Psyr_1198 - type III secretion protein HrpF, at 1,357,142 to 1,357,366 _1198 Psyr_1199: Psyr_1199 - type III secretion protein HrpG, at 1,357,344 to 1,357,784 _1199 Psyr_1200: Psyr_1200 - outer-membrane type III secretion protein HrcC, at 1,357,786 to 1,359,888 _1200 Position (kb) 1357 1358Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 1356.320 kb on + strand, within Psyr_1196at 1356.321 kb on - strand, within Psyr_1196at 1356.321 kb on - strand, within Psyr_1196at 1356.420 kb on + strandat 1356.420 kb on + strandat 1356.420 kb on + strandat 1356.420 kb on + strandat 1356.421 kb on - strandat 1356.494 kb on + strandat 1356.494 kb on + strandat 1356.495 kb on - strandat 1356.495 kb on - strandat 1356.495 kb on - strandat 1356.497 kb on + strandat 1356.497 kb on + strandat 1356.546 kb on + strand, within Psyr_1197at 1356.546 kb on + strand, within Psyr_1197at 1356.546 kb on + strand, within Psyr_1197at 1356.547 kb on - strand, within Psyr_1197at 1356.547 kb on - strand, within Psyr_1197at 1356.547 kb on - strand, within Psyr_1197at 1356.547 kb on - strand, within Psyr_1197at 1356.616 kb on + strand, within Psyr_1197at 1356.616 kb on + strand, within Psyr_1197at 1356.616 kb on + strand, within Psyr_1197at 1356.745 kb on + strand, within Psyr_1197at 1356.746 kb on - strand, within Psyr_1197at 1356.746 kb on - strand, within Psyr_1197at 1356.746 kb on - strand, within Psyr_1197at 1357.133 kb on + strandat 1357.134 kb on - strandat 1357.146 kb on + strandat 1357.146 kb on + strandat 1357.147 kb on - strandat 1357.147 kb on - strandat 1357.147 kb on - strandat 1357.169 kb on - strand, within Psyr_1198at 1357.330 kb on + strand, within Psyr_1198at 1357.331 kb on - strand, within Psyr_1198at 1357.331 kb on - strand, within Psyr_1198at 1357.331 kb on - strand, within Psyr_1198at 1357.523 kb on + strand, within Psyr_1199at 1357.872 kb on + strandat 1357.879 kb on + strandat 1357.879 kb on + strandat 1357.879 kb on + strandat 1357.880 kb on - strandat 1357.885 kb on + strandat 1357.957 kb on - strandat 1357.992 kb on - strandat 1358.038 kb on + strand, within Psyr_1200at 1358.038 kb on + strand, within Psyr_1200at 1358.059 kb on + strand, within Psyr_1200at 1358.059 kb on + strand, within Psyr_1200at 1358.059 kb on + strand, within Psyr_1200at 1358.060 kb on - strand, within Psyr_1200at 1358.060 kb on - strand, within Psyr_1200at 1358.060 kb on - strand, within Psyr_1200at 1358.060 kb on - strand, within Psyr_1200at 1358.074 kb on + strand, within Psyr_1200at 1358.074 kb on + strand, within Psyr_1200at 1358.074 kb on + strand, within Psyr_1200at 1358.074 kb on + strand, within Psyr_1200at 1358.075 kb on - strand, within Psyr_1200at 1358.075 kb on - strand, within Psyr_1200at 1358.075 kb on - strand, within Psyr_1200at 1358.075 kb on - strand, within Psyr_1200at 1358.075 kb on - strand, within Psyr_1200at 1358.075 kb on - strand, within Psyr_1200at 1358.075 kb on - strand, within Psyr_1200at 1358.075 kb on - strand, within Psyr_1200at 1358.075 kb on - strand, within Psyr_1200at 1358.132 kb on + strand, within Psyr_1200at 1358.132 kb on + strand, within Psyr_1200at 1358.132 kb on + strand, within Psyr_1200at 1358.132 kb on + strand, within Psyr_1200at 1358.132 kb on + strand, within Psyr_1200at 1358.162 kb on + strand, within Psyr_1200at 1358.162 kb on + strand, within Psyr_1200at 1358.162 kb on + strand, within Psyr_1200at 1358.162 kb on + strand, within Psyr_1200at 1358.163 kb on - strand, within Psyr_1200at 1358.163 kb on - strand, within Psyr_1200at 1358.163 kb on - strand, within Psyr_1200at 1358.239 kb on + strand, within Psyr_1200at 1358.239 kb on + strand, within Psyr_1200at 1358.240 kb on - strand, within Psyr_1200at 1358.240 kb on - strand, within Psyr_1200at 1358.240 kb on - strand, within Psyr_1200at 1358.240 kb on - strand, within Psyr_1200at 1358.240 kb on - strand, within Psyr_1200at 1358.312 kb on + strand, within Psyr_1200at 1358.312 kb on + strand, within Psyr_1200at 1358.313 kb on - strand, within Psyr_1200at 1358.326 kb on + strand, within Psyr_1200at 1358.327 kb on - strand, within Psyr_1200at 1358.327 kb on - strand, within Psyr_1200

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Per-strain Table

Position Strand Gene LocusTag Fraction KB with Rifampicin 0.1 mg/ml
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1,356,320 + Psyr_1196 0.77 -1.0
1,356,321 - Psyr_1196 0.77 -1.2
1,356,321 - Psyr_1196 0.77 +0.9
1,356,420 + +0.1
1,356,420 + +0.2
1,356,420 + -0.3
1,356,420 + -0.6
1,356,421 - -0.7
1,356,494 + -0.7
1,356,494 + -0.4
1,356,495 - -0.4
1,356,495 - +1.2
1,356,495 - -0.3
1,356,497 + -0.2
1,356,497 + +0.1
1,356,546 + Psyr_1197 0.12 -0.3
1,356,546 + Psyr_1197 0.12 +0.0
1,356,546 + Psyr_1197 0.12 +1.2
1,356,547 - Psyr_1197 0.12 -0.7
1,356,547 - Psyr_1197 0.12 -1.9
1,356,547 - Psyr_1197 0.12 +0.4
1,356,547 - Psyr_1197 0.12 +0.1
1,356,616 + Psyr_1197 0.24 +2.9
1,356,616 + Psyr_1197 0.24 -0.1
1,356,616 + Psyr_1197 0.24 -0.1
1,356,745 + Psyr_1197 0.46 -2.1
1,356,746 - Psyr_1197 0.46 -0.2
1,356,746 - Psyr_1197 0.46 -0.6
1,356,746 - Psyr_1197 0.46 +1.2
1,357,133 + -0.4
1,357,134 - -0.2
1,357,146 + +0.0
1,357,146 + -0.9
1,357,147 - +0.4
1,357,147 - -1.0
1,357,147 - -0.3
1,357,169 - Psyr_1198 0.12 -3.5
1,357,330 + Psyr_1198 0.84 -1.2
1,357,331 - Psyr_1198 0.84 -0.3
1,357,331 - Psyr_1198 0.84 -0.2
1,357,331 - Psyr_1198 0.84 -0.5
1,357,523 + Psyr_1199 0.41 -0.3
1,357,872 + -0.3
1,357,879 + +0.6
1,357,879 + -0.1
1,357,879 + +0.1
1,357,880 - -0.6
1,357,885 + -0.4
1,357,957 - +0.1
1,357,992 - -0.4
1,358,038 + Psyr_1200 0.12 +2.1
1,358,038 + Psyr_1200 0.12 -0.7
1,358,059 + Psyr_1200 0.13 -1.2
1,358,059 + Psyr_1200 0.13 +0.2
1,358,059 + Psyr_1200 0.13 +0.4
1,358,060 - Psyr_1200 0.13 +0.3
1,358,060 - Psyr_1200 0.13 -0.0
1,358,060 - Psyr_1200 0.13 +0.8
1,358,060 - Psyr_1200 0.13 -0.4
1,358,074 + Psyr_1200 0.14 -0.9
1,358,074 + Psyr_1200 0.14 -0.1
1,358,074 + Psyr_1200 0.14 -0.6
1,358,074 + Psyr_1200 0.14 +0.8
1,358,075 - Psyr_1200 0.14 -0.9
1,358,075 - Psyr_1200 0.14 -2.4
1,358,075 - Psyr_1200 0.14 -0.8
1,358,075 - Psyr_1200 0.14 +0.4
1,358,075 - Psyr_1200 0.14 -0.6
1,358,075 - Psyr_1200 0.14 +0.8
1,358,075 - Psyr_1200 0.14 +1.4
1,358,075 - Psyr_1200 0.14 +1.0
1,358,075 - Psyr_1200 0.14 +1.1
1,358,132 + Psyr_1200 0.16 -0.6
1,358,132 + Psyr_1200 0.16 +1.0
1,358,132 + Psyr_1200 0.16 -0.6
1,358,132 + Psyr_1200 0.16 -0.3
1,358,132 + Psyr_1200 0.16 -0.9
1,358,162 + Psyr_1200 0.18 -0.1
1,358,162 + Psyr_1200 0.18 +0.3
1,358,162 + Psyr_1200 0.18 -0.0
1,358,162 + Psyr_1200 0.18 -1.9
1,358,163 - Psyr_1200 0.18 +0.6
1,358,163 - Psyr_1200 0.18 -0.6
1,358,163 - Psyr_1200 0.18 -1.0
1,358,239 + Psyr_1200 0.22 +0.8
1,358,239 + Psyr_1200 0.22 +0.5
1,358,240 - Psyr_1200 0.22 -2.8
1,358,240 - Psyr_1200 0.22 +0.2
1,358,240 - Psyr_1200 0.22 +1.5
1,358,240 - Psyr_1200 0.22 +1.3
1,358,240 - Psyr_1200 0.22 -2.0
1,358,312 + Psyr_1200 0.25 +0.4
1,358,312 + Psyr_1200 0.25 +2.7
1,358,313 - Psyr_1200 0.25 +0.3
1,358,326 + Psyr_1200 0.26 +0.2
1,358,327 - Psyr_1200 0.26 +1.0
1,358,327 - Psyr_1200 0.26 +1.3

Or see this region's nucleotide sequence