Strain Fitness in Pseudomonas fluorescens FW300-N1B4 around Pf1N1B4_5583

Experiment: Gentamicin 0.001 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 ntPf1N1B4_5582 and Pf1N1B4_5583 are separated by 104 nucleotidesPf1N1B4_5583 and Pf1N1B4_5584 are separated by 11 nucleotidesPf1N1B4_5584 and Pf1N1B4_5585 are separated by 103 nucleotides Pf1N1B4_5582 - Quinate/shikimate dehydrogenase [Pyrroloquinoline-quinone] (EC 1.1.99.25), at 2,599 to 5,022 _5582 Pf1N1B4_5583 - Protocatechuate 3,4-dioxygenase alpha chain (EC 1.13.11.3), at 5,127 to 5,732 _5583 Pf1N1B4_5584 - Protocatechuate 3,4-dioxygenase beta chain (EC 1.13.11.3), at 5,744 to 6,463 _5584 Pf1N1B4_5585 - LysR family transcriptional regulator YdcI, at 6,567 to 7,496 _5585 Position (kb) 5 6Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 4.351 kb on + strand, within Pf1N1B4_5582at 4.351 kb on + strand, within Pf1N1B4_5582at 4.351 kb on + strand, within Pf1N1B4_5582at 4.419 kb on + strand, within Pf1N1B4_5582at 4.447 kb on - strand, within Pf1N1B4_5582at 4.710 kb on + strand, within Pf1N1B4_5582at 4.822 kb on + strandat 4.822 kb on + strandat 4.822 kb on + strandat 4.823 kb on - strandat 4.825 kb on + strandat 4.825 kb on + strandat 4.825 kb on + strandat 4.909 kb on + strandat 4.909 kb on + strandat 4.909 kb on + strandat 4.910 kb on - strandat 4.910 kb on - strandat 4.910 kb on - strandat 4.910 kb on - strandat 4.910 kb on - strandat 4.910 kb on - strandat 4.910 kb on - strandat 4.910 kb on - strandat 4.936 kb on + strandat 4.937 kb on - strandat 4.937 kb on - strandat 4.937 kb on - strandat 4.987 kb on + strandat 4.987 kb on + strandat 4.988 kb on - strandat 5.166 kb on - strandat 5.166 kb on - strandat 5.166 kb on - strandat 5.166 kb on - strandat 5.170 kb on - strandat 5.170 kb on - strandat 5.170 kb on - strandat 5.563 kb on + strandat 5.564 kb on - strand, within Pf1N1B4_5583at 5.564 kb on - strand, within Pf1N1B4_5583at 5.564 kb on - strand, within Pf1N1B4_5583at 5.679 kb on + strandat 5.679 kb on + strandat 5.679 kb on + strandat 5.679 kb on + strandat 5.679 kb on + strandat 5.679 kb on + strandat 5.679 kb on + strandat 5.679 kb on + strandat 5.680 kb on - strandat 5.680 kb on - strandat 5.680 kb on - strandat 5.680 kb on - strandat 5.680 kb on - strandat 5.680 kb on - strandat 5.680 kb on - strandat 5.680 kb on - strandat 5.680 kb on - strandat 5.680 kb on - strandat 5.680 kb on - strandat 5.680 kb on - strandat 5.683 kb on + strandat 5.684 kb on - strandat 5.684 kb on - strandat 5.925 kb on + strand, within Pf1N1B4_5584at 6.051 kb on + strand, within Pf1N1B4_5584at 6.054 kb on + strand, within Pf1N1B4_5584at 6.054 kb on + strand, within Pf1N1B4_5584at 6.054 kb on + strand, within Pf1N1B4_5584at 6.179 kb on - strand, within Pf1N1B4_5584at 6.390 kb on + strand, within Pf1N1B4_5584at 6.421 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Gentamicin 0.001 mg/ml
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4,351 + Pf1N1B4_5582 0.72 -1.4
4,351 + Pf1N1B4_5582 0.72 +0.6
4,351 + Pf1N1B4_5582 0.72 -2.4
4,419 + Pf1N1B4_5582 0.75 +0.5
4,447 - Pf1N1B4_5582 0.76 -2.0
4,710 + Pf1N1B4_5582 0.87 +0.2
4,822 + -1.1
4,822 + +1.2
4,822 + -0.4
4,823 - +1.4
4,825 + -0.4
4,825 + -0.2
4,825 + +1.2
4,909 + -1.4
4,909 + -1.5
4,909 + -0.7
4,910 - +0.8
4,910 - +0.4
4,910 - -0.1
4,910 - +1.2
4,910 - +0.2
4,910 - +0.7
4,910 - +0.2
4,910 - +0.4
4,936 + -0.0
4,937 - -0.3
4,937 - -0.7
4,937 - -0.2
4,987 + -1.4
4,987 + +0.8
4,988 - -0.8
5,166 - +0.2
5,166 - -1.4
5,166 - +0.1
5,166 - +1.3
5,170 - +0.2
5,170 - +0.9
5,170 - -2.8
5,563 + -2.4
5,564 - Pf1N1B4_5583 0.72 -0.5
5,564 - Pf1N1B4_5583 0.72 -1.1
5,564 - Pf1N1B4_5583 0.72 -0.8
5,679 + +1.8
5,679 + +0.4
5,679 + -1.8
5,679 + +0.5
5,679 + -1.4
5,679 + -0.7
5,679 + +0.9
5,679 + +0.8
5,680 - +0.2
5,680 - +1.8
5,680 - +1.3
5,680 - +0.6
5,680 - +0.9
5,680 - -0.4
5,680 - +0.6
5,680 - -0.1
5,680 - +0.8
5,680 - -0.3
5,680 - -0.1
5,680 - +0.7
5,683 + -1.2
5,684 - -0.1
5,684 - -1.4
5,925 + Pf1N1B4_5584 0.25 -1.4
6,051 + Pf1N1B4_5584 0.43 -0.4
6,054 + Pf1N1B4_5584 0.43 -1.4
6,054 + Pf1N1B4_5584 0.43 +0.2
6,054 + Pf1N1B4_5584 0.43 +0.2
6,179 - Pf1N1B4_5584 0.60 -0.8
6,390 + Pf1N1B4_5584 0.90 +0.2
6,421 + +1.1

Or see this region's nucleotide sequence