Strain Fitness in Pseudomonas fluorescens FW300-N1B4 around Pf1N1B4_5802

Experiment: N2E2wt with N1B4m denitrifying repA

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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_5800 and Pf1N1B4_5801 overlap by 27 nucleotidesPf1N1B4_5801 and Pf1N1B4_5802 are separated by 146 nucleotidesPf1N1B4_5802 and Pf1N1B4_5803 are separated by 226 nucleotides Pf1N1B4_5800 - Benzoate 1,2-dioxygenase alpha subunit (EC 1.14.12.10), at 235,274 to 236,638 _5800 Pf1N1B4_5801 - hypothetical protein, at 236,612 to 236,746 _5801 Pf1N1B4_5802 - benABC operon transcriptional activator BenR, at 236,893 to 237,744 _5802 Pf1N1B4_5803 - Catechol 1,2-dioxygenase (EC 1.13.11.1), at 237,971 to 238,900 _5803 Position (kb) 236 237 238Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 236.037 kb on + strand, within Pf1N1B4_5800at 236.037 kb on + strand, within Pf1N1B4_5800at 236.037 kb on + strand, within Pf1N1B4_5800at 236.038 kb on - strand, within Pf1N1B4_5800at 236.043 kb on + strand, within Pf1N1B4_5800at 236.043 kb on + strand, within Pf1N1B4_5800at 236.043 kb on + strand, within Pf1N1B4_5800at 236.043 kb on + strand, within Pf1N1B4_5800at 236.043 kb on + strand, within Pf1N1B4_5800at 236.043 kb on + strand, within Pf1N1B4_5800at 236.043 kb on + strand, within Pf1N1B4_5800at 236.044 kb on - strand, within Pf1N1B4_5800at 236.044 kb on - strand, within Pf1N1B4_5800at 236.322 kb on + strand, within Pf1N1B4_5800at 236.322 kb on + strand, within Pf1N1B4_5800at 236.323 kb on - strand, within Pf1N1B4_5800at 236.323 kb on - strand, within Pf1N1B4_5800at 236.323 kb on - strand, within Pf1N1B4_5800at 236.323 kb on - strand, within Pf1N1B4_5800at 236.323 kb on - strand, within Pf1N1B4_5800at 236.323 kb on - strandat 236.386 kb on + strand, within Pf1N1B4_5800at 236.454 kb on + strand, within Pf1N1B4_5800at 236.497 kb on - strand, within Pf1N1B4_5800at 236.577 kb on + strandat 236.577 kb on + strandat 236.619 kb on + strandat 236.723 kb on + strand, within Pf1N1B4_5801at 237.046 kb on - strand, within Pf1N1B4_5802at 237.046 kb on - strand, within Pf1N1B4_5802at 237.046 kb on - strand, within Pf1N1B4_5802at 237.072 kb on - strand, within Pf1N1B4_5802at 237.113 kb on + strand, within Pf1N1B4_5802at 237.192 kb on - strand, within Pf1N1B4_5802at 237.192 kb on - strand, within Pf1N1B4_5802at 237.294 kb on - strandat 237.507 kb on - strand, within Pf1N1B4_5802at 237.507 kb on - strand, within Pf1N1B4_5802at 237.507 kb on - strand, within Pf1N1B4_5802at 237.507 kb on - strand, within Pf1N1B4_5802at 237.564 kb on - strand, within Pf1N1B4_5802at 237.564 kb on - strand, within Pf1N1B4_5802at 237.564 kb on - strand, within Pf1N1B4_5802at 237.564 kb on - strand, within Pf1N1B4_5802at 237.623 kb on + strand, within Pf1N1B4_5802at 237.624 kb on - strand, within Pf1N1B4_5802at 237.648 kb on + strandat 237.779 kb on + strandat 237.893 kb on + strandat 237.894 kb on - strandat 237.927 kb on + strandat 238.146 kb on + strand, within Pf1N1B4_5803at 238.147 kb on - strandat 238.167 kb on + strandat 238.167 kb on + strand, within Pf1N1B4_5803at 238.167 kb on + strand, within Pf1N1B4_5803at 238.168 kb on - strand, within Pf1N1B4_5803at 238.168 kb on - strand, within Pf1N1B4_5803at 238.413 kb on + strand, within Pf1N1B4_5803at 238.572 kb on + strand, within Pf1N1B4_5803at 238.572 kb on + strand, within Pf1N1B4_5803at 238.654 kb on - strand, within Pf1N1B4_5803at 238.654 kb on - strand, within Pf1N1B4_5803at 238.719 kb on + strand, within Pf1N1B4_5803at 238.720 kb on - strand, within Pf1N1B4_5803

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Per-strain Table

Position Strand Gene LocusTag Fraction N2E2wt with N1B4m denitrifying repA
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236,037 + Pf1N1B4_5800 0.56 -0.3
236,037 + Pf1N1B4_5800 0.56 -0.4
236,037 + Pf1N1B4_5800 0.56 -0.1
236,038 - Pf1N1B4_5800 0.56 -0.8
236,043 + Pf1N1B4_5800 0.56 -0.0
236,043 + Pf1N1B4_5800 0.56 +0.7
236,043 + Pf1N1B4_5800 0.56 -0.0
236,043 + Pf1N1B4_5800 0.56 -2.1
236,043 + Pf1N1B4_5800 0.56 -0.7
236,043 + Pf1N1B4_5800 0.56 +0.6
236,043 + Pf1N1B4_5800 0.56 -2.8
236,044 - Pf1N1B4_5800 0.56 -0.4
236,044 - Pf1N1B4_5800 0.56 -2.3
236,322 + Pf1N1B4_5800 0.77 -3.0
236,322 + Pf1N1B4_5800 0.77 -1.6
236,323 - Pf1N1B4_5800 0.77 -0.9
236,323 - Pf1N1B4_5800 0.77 +0.1
236,323 - Pf1N1B4_5800 0.77 +0.7
236,323 - Pf1N1B4_5800 0.77 -1.5
236,323 - Pf1N1B4_5800 0.77 -1.7
236,323 - +0.9
236,386 + Pf1N1B4_5800 0.81 +0.2
236,454 + Pf1N1B4_5800 0.86 -0.0
236,497 - Pf1N1B4_5800 0.90 -0.8
236,577 + -2.3
236,577 + +0.7
236,619 + -0.2
236,723 + Pf1N1B4_5801 0.82 -0.2
237,046 - Pf1N1B4_5802 0.18 -0.4
237,046 - Pf1N1B4_5802 0.18 -2.1
237,046 - Pf1N1B4_5802 0.18 +0.3
237,072 - Pf1N1B4_5802 0.21 -0.3
237,113 + Pf1N1B4_5802 0.26 +1.8
237,192 - Pf1N1B4_5802 0.35 -0.8
237,192 - Pf1N1B4_5802 0.35 +0.6
237,294 - +0.7
237,507 - Pf1N1B4_5802 0.72 +1.3
237,507 - Pf1N1B4_5802 0.72 -1.2
237,507 - Pf1N1B4_5802 0.72 +0.7
237,507 - Pf1N1B4_5802 0.72 +0.7
237,564 - Pf1N1B4_5802 0.79 +0.5
237,564 - Pf1N1B4_5802 0.79 +2.2
237,564 - Pf1N1B4_5802 0.79 +1.7
237,564 - Pf1N1B4_5802 0.79 -0.1
237,623 + Pf1N1B4_5802 0.86 +0.7
237,624 - Pf1N1B4_5802 0.86 -3.0
237,648 + +0.7
237,779 + -0.6
237,893 + -1.2
237,894 - -1.8
237,927 + +1.0
238,146 + Pf1N1B4_5803 0.19 +0.4
238,147 - -0.8
238,167 + +0.7
238,167 + Pf1N1B4_5803 0.21 +0.4
238,167 + Pf1N1B4_5803 0.21 -2.9
238,168 - Pf1N1B4_5803 0.21 -3.2
238,168 - Pf1N1B4_5803 0.21 +0.7
238,413 + Pf1N1B4_5803 0.48 +0.7
238,572 + Pf1N1B4_5803 0.65 -2.7
238,572 + Pf1N1B4_5803 0.65 +0.5
238,654 - Pf1N1B4_5803 0.73 +1.1
238,654 - Pf1N1B4_5803 0.73 -1.8
238,719 + Pf1N1B4_5803 0.80 +0.7
238,720 - Pf1N1B4_5803 0.81 -0.3

Or see this region's nucleotide sequence