Strain Fitness in Pseudomonas fluorescens FW300-N2E2 around Pf6N2E2_4541

Experiment: D-Glucosamine Hydrochloride (C)

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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 ntPf6N2E2_4539 and Pf6N2E2_4540 are separated by 419 nucleotidesPf6N2E2_4540 and Pf6N2E2_4541 are separated by 124 nucleotidesPf6N2E2_4541 and Pf6N2E2_4542 are separated by 206 nucleotidesPf6N2E2_4542 and Pf6N2E2_4543 are separated by 6 nucleotidesPf6N2E2_4543 and Pf6N2E2_4544 overlap by 4 nucleotides Pf6N2E2_4539 - Type III secretion inner membrane protein (YscU,SpaS,EscU,HrcU,SsaU, homologous to flagellar export components), at 5,272,146 to 5,273,246 _4539 Pf6N2E2_4540 - hypothetical protein, at 5,273,666 to 5,273,881 _4540 Pf6N2E2_4541 - hypothetical protein, at 5,274,006 to 5,274,455 _4541 Pf6N2E2_4542 - negative regulator of hrp expression HrpV, at 5,274,662 to 5,275,039 _4542 Pf6N2E2_4543 - hypothetical protein, at 5,275,046 to 5,275,255 _4543 Pf6N2E2_4544 - Type III secretion outermembrane pore forming protein (YscC,MxiD,HrcC, InvG), at 5,275,252 to 5,277,369 _4544 Position (kb) 5274 5275Strain fitness (log2 ratio) -2 -1 0 1at 5273.113 kb on - strand, within Pf6N2E2_4539at 5273.133 kb on + strand, within Pf6N2E2_4539at 5273.173 kb on - strandat 5273.266 kb on + strandat 5273.394 kb on + strandat 5273.761 kb on + strand, within Pf6N2E2_4540at 5273.761 kb on + strand, within Pf6N2E2_4540at 5273.761 kb on + strand, within Pf6N2E2_4540at 5273.762 kb on - strand, within Pf6N2E2_4540at 5273.897 kb on + strandat 5273.897 kb on + strandat 5273.897 kb on + strandat 5273.898 kb on - strandat 5273.999 kb on + strandat 5273.999 kb on + strandat 5274.000 kb on - strandat 5274.362 kb on - strand, within Pf6N2E2_4541at 5274.471 kb on + strandat 5274.471 kb on + strandat 5274.471 kb on + strandat 5274.472 kb on - strandat 5274.666 kb on + strandat 5274.666 kb on + strandat 5274.667 kb on - strandat 5274.678 kb on + strandat 5274.678 kb on + strandat 5274.679 kb on - strandat 5274.806 kb on + strand, within Pf6N2E2_4542at 5274.806 kb on + strand, within Pf6N2E2_4542at 5274.807 kb on - strand, within Pf6N2E2_4542at 5274.807 kb on - strand, within Pf6N2E2_4542at 5274.822 kb on + strand, within Pf6N2E2_4542at 5274.893 kb on + strand, within Pf6N2E2_4542at 5274.893 kb on + strand, within Pf6N2E2_4542at 5274.893 kb on + strand, within Pf6N2E2_4542at 5274.894 kb on - strand, within Pf6N2E2_4542at 5274.894 kb on - strand, within Pf6N2E2_4542at 5274.899 kb on + strand, within Pf6N2E2_4542at 5274.957 kb on - strand, within Pf6N2E2_4542at 5274.957 kb on - strand, within Pf6N2E2_4542at 5274.957 kb on - strand, within Pf6N2E2_4542at 5274.967 kb on - strand, within Pf6N2E2_4542at 5274.967 kb on - strand, within Pf6N2E2_4542at 5274.967 kb on - strand, within Pf6N2E2_4542at 5275.017 kb on - strandat 5275.017 kb on - strandat 5275.017 kb on - strandat 5275.017 kb on - strandat 5275.017 kb on - strandat 5275.039 kb on + strandat 5275.039 kb on + strandat 5275.039 kb on + strandat 5275.040 kb on - strandat 5275.040 kb on - strandat 5275.069 kb on + strand, within Pf6N2E2_4543at 5275.070 kb on - strand, within Pf6N2E2_4543at 5275.226 kb on + strand, within Pf6N2E2_4543at 5275.226 kb on + strand, within Pf6N2E2_4543

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Per-strain Table

Position Strand Gene LocusTag Fraction D-Glucosamine Hydrochloride (C)
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5,273,113 - Pf6N2E2_4539 0.88 +0.3
5,273,133 + Pf6N2E2_4539 0.90 -1.0
5,273,173 - -1.8
5,273,266 + +0.4
5,273,394 + -0.3
5,273,761 + Pf6N2E2_4540 0.44 +1.2
5,273,761 + Pf6N2E2_4540 0.44 -0.2
5,273,761 + Pf6N2E2_4540 0.44 +0.2
5,273,762 - Pf6N2E2_4540 0.44 +0.8
5,273,897 + -1.9
5,273,897 + +0.5
5,273,897 + -1.2
5,273,898 - +0.6
5,273,999 + +0.4
5,273,999 + +1.1
5,274,000 - +0.4
5,274,362 - Pf6N2E2_4541 0.79 -0.7
5,274,471 + -0.6
5,274,471 + -2.0
5,274,471 + +1.2
5,274,472 - -1.9
5,274,666 + +0.5
5,274,666 + +0.9
5,274,667 - -0.7
5,274,678 + +0.1
5,274,678 + +0.8
5,274,679 - -0.4
5,274,806 + Pf6N2E2_4542 0.38 +0.4
5,274,806 + Pf6N2E2_4542 0.38 +1.0
5,274,807 - Pf6N2E2_4542 0.38 -0.5
5,274,807 - Pf6N2E2_4542 0.38 -0.3
5,274,822 + Pf6N2E2_4542 0.42 +0.8
5,274,893 + Pf6N2E2_4542 0.61 +0.0
5,274,893 + Pf6N2E2_4542 0.61 -0.4
5,274,893 + Pf6N2E2_4542 0.61 +0.5
5,274,894 - Pf6N2E2_4542 0.61 -1.3
5,274,894 - Pf6N2E2_4542 0.61 -2.3
5,274,899 + Pf6N2E2_4542 0.63 +0.1
5,274,957 - Pf6N2E2_4542 0.78 +0.6
5,274,957 - Pf6N2E2_4542 0.78 +0.4
5,274,957 - Pf6N2E2_4542 0.78 +0.3
5,274,967 - Pf6N2E2_4542 0.81 -0.3
5,274,967 - Pf6N2E2_4542 0.81 -1.1
5,274,967 - Pf6N2E2_4542 0.81 -0.4
5,275,017 - -2.6
5,275,017 - +0.1
5,275,017 - -0.4
5,275,017 - +1.1
5,275,017 - +1.1
5,275,039 + -0.4
5,275,039 + +0.2
5,275,039 + -0.7
5,275,040 - -2.3
5,275,040 - -0.4
5,275,069 + Pf6N2E2_4543 0.11 +0.6
5,275,070 - Pf6N2E2_4543 0.11 -0.4
5,275,226 + Pf6N2E2_4543 0.86 +0.9
5,275,226 + Pf6N2E2_4543 0.86 -1.4

Or see this region's nucleotide sequence