Experiment: Denitrifying in presence of WT Pseudomonas N2-E3; replicate C; timepoint 1
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.
500 nt Pf1N1B4_5003 and Pf1N1B4_5004 are separated by 246 nucleotides Pf1N1B4_5004 and Pf1N1B4_5005 are separated by 285 nucleotides
Pf1N1B4_5003 - 4-hydroxyphenylpyruvate dioxygenase (EC 1.13.11.27), at 5,553,379 to 5,554,455
_5003
Pf1N1B4_5004 - Permease of the drug/metabolite transporter (DMT) superfamily, at 5,554,702 to 5,555,649
_5004
Pf1N1B4_5005 - LysR family transcriptional regulator STM2281, at 5,555,935 to 5,556,807
_5005
Position (kb) 5554
5555
5556 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3 at 5553.867 kb on - strand, within Pf1N1B4_5003 at 5553.921 kb on - strand, within Pf1N1B4_5003 at 5553.936 kb on - strand, within Pf1N1B4_5003 at 5554.043 kb on + strand, within Pf1N1B4_5003 at 5554.043 kb on + strand, within Pf1N1B4_5003 at 5554.043 kb on + strand, within Pf1N1B4_5003 at 5554.043 kb on + strand, within Pf1N1B4_5003 at 5554.079 kb on + strand, within Pf1N1B4_5003 at 5554.079 kb on + strand, within Pf1N1B4_5003 at 5554.080 kb on - strand, within Pf1N1B4_5003 at 5554.181 kb on + strand, within Pf1N1B4_5003 at 5554.570 kb on - strand at 5554.570 kb on - strand at 5554.654 kb on - strand at 5554.654 kb on - strand at 5554.654 kb on - strand at 5554.656 kb on - strand at 5554.901 kb on + strand, within Pf1N1B4_5004 at 5554.913 kb on + strand, within Pf1N1B4_5004 at 5554.913 kb on + strand, within Pf1N1B4_5004 at 5554.913 kb on + strand at 5554.914 kb on - strand, within Pf1N1B4_5004 at 5554.914 kb on - strand, within Pf1N1B4_5004 at 5554.914 kb on - strand, within Pf1N1B4_5004 at 5554.914 kb on - strand at 5555.112 kb on - strand, within Pf1N1B4_5004 at 5555.348 kb on + strand at 5555.348 kb on + strand, within Pf1N1B4_5004 at 5555.348 kb on + strand at 5555.349 kb on - strand, within Pf1N1B4_5004 at 5555.349 kb on - strand, within Pf1N1B4_5004 at 5555.349 kb on - strand at 5555.360 kb on + strand, within Pf1N1B4_5004 at 5555.378 kb on + strand, within Pf1N1B4_5004 at 5555.379 kb on - strand, within Pf1N1B4_5004 at 5555.379 kb on - strand, within Pf1N1B4_5004 at 5555.639 kb on + strand at 5555.640 kb on - strand at 5555.643 kb on + strand at 5555.643 kb on + strand at 5555.643 kb on + strand at 5555.644 kb on - strand at 5556.068 kb on + strand at 5556.068 kb on + strand, within Pf1N1B4_5005 at 5556.129 kb on - strand, within Pf1N1B4_5005 at 5556.358 kb on - strand, within Pf1N1B4_5005 at 5556.488 kb on + strand at 5556.507 kb on - strand at 5556.549 kb on + strand, within Pf1N1B4_5005 at 5556.549 kb on + strand, within Pf1N1B4_5005
Per-strain Table
Position Strand Gene LocusTag Fraction Denitrifying in presence of WT Pseudomonas N2-E3; replicate C; timepoint 1 remove 5,553,867 - Pf1N1B4_5003 0.45 -0.7 5,553,921 - Pf1N1B4_5003 0.50 -0.0 5,553,936 - Pf1N1B4_5003 0.52 +0.1 5,554,043 + Pf1N1B4_5003 0.62 -1.3 5,554,043 + Pf1N1B4_5003 0.62 +0.9 5,554,043 + Pf1N1B4_5003 0.62 +0.7 5,554,043 + Pf1N1B4_5003 0.62 -0.6 5,554,079 + Pf1N1B4_5003 0.65 +1.9 5,554,079 + Pf1N1B4_5003 0.65 +0.9 5,554,080 - Pf1N1B4_5003 0.65 -0.9 5,554,181 + Pf1N1B4_5003 0.74 -0.1 5,554,570 - +0.5 5,554,570 - +0.3 5,554,654 - -1.3 5,554,654 - -1.1 5,554,654 - -1.9 5,554,656 - +1.6 5,554,901 + Pf1N1B4_5004 0.21 +0.9 5,554,913 + Pf1N1B4_5004 0.22 +0.6 5,554,913 + Pf1N1B4_5004 0.22 +0.9 5,554,913 + -1.6 5,554,914 - Pf1N1B4_5004 0.22 +2.9 5,554,914 - Pf1N1B4_5004 0.22 -0.1 5,554,914 - Pf1N1B4_5004 0.22 -0.5 5,554,914 - -1.1 5,555,112 - Pf1N1B4_5004 0.43 -0.5 5,555,348 + -1.7 5,555,348 + Pf1N1B4_5004 0.68 -0.1 5,555,348 + -1.3 5,555,349 - Pf1N1B4_5004 0.68 -0.5 5,555,349 - Pf1N1B4_5004 0.68 +1.5 5,555,349 - -1.5 5,555,360 + Pf1N1B4_5004 0.69 -0.9 5,555,378 + Pf1N1B4_5004 0.71 +3.1 5,555,379 - Pf1N1B4_5004 0.71 +0.1 5,555,379 - Pf1N1B4_5004 0.71 -1.1 5,555,639 + -2.9 5,555,640 - +0.3 5,555,643 + -0.6 5,555,643 + -0.1 5,555,643 + -0.5 5,555,644 - -0.0 5,556,068 + -0.1 5,556,068 + Pf1N1B4_5005 0.15 +1.7 5,556,129 - Pf1N1B4_5005 0.22 +0.7 5,556,358 - Pf1N1B4_5005 0.48 -0.1 5,556,488 + +0.3 5,556,507 - +2.1 5,556,549 + Pf1N1B4_5005 0.70 -0.1 5,556,549 + Pf1N1B4_5005 0.70 -1.7
Or see this region's nucleotide sequence