Experiment: N2E2wt with N1B4m denitrifying repA
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_5582 and Pf1N1B4_5583 are separated by 104 nucleotides Pf1N1B4_5583 and Pf1N1B4_5584 are separated by 11 nucleotides Pf1N1B4_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
6
7 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3 at 4.822 kb on + strand at 4.822 kb on + strand at 4.822 kb on + strand at 4.823 kb on - strand at 4.825 kb on + strand at 4.825 kb on + strand at 4.825 kb on + strand at 4.909 kb on + strand at 4.909 kb on + strand at 4.909 kb on + strand at 4.910 kb on - strand at 4.910 kb on - strand at 4.910 kb on - strand at 4.910 kb on - strand at 4.910 kb on - strand at 4.910 kb on - strand at 4.910 kb on - strand at 4.910 kb on - strand at 4.936 kb on + strand at 4.937 kb on - strand at 4.937 kb on - strand at 4.937 kb on - strand at 4.987 kb on + strand at 4.987 kb on + strand at 4.988 kb on - strand at 5.166 kb on - strand at 5.166 kb on - strand at 5.166 kb on - strand at 5.166 kb on - strand at 5.170 kb on - strand at 5.170 kb on - strand at 5.170 kb on - strand at 5.563 kb on + strand at 5.564 kb on - strand, within Pf1N1B4_5583 at 5.564 kb on - strand, within Pf1N1B4_5583 at 5.564 kb on - strand, within Pf1N1B4_5583 at 5.679 kb on + strand at 5.679 kb on + strand at 5.679 kb on + strand at 5.679 kb on + strand at 5.679 kb on + strand at 5.679 kb on + strand at 5.679 kb on + strand at 5.679 kb on + strand at 5.680 kb on - strand at 5.680 kb on - strand at 5.680 kb on - strand at 5.680 kb on - strand at 5.680 kb on - strand at 5.680 kb on - strand at 5.680 kb on - strand at 5.680 kb on - strand at 5.680 kb on - strand at 5.680 kb on - strand at 5.680 kb on - strand at 5.680 kb on - strand at 5.683 kb on + strand at 5.684 kb on - strand at 5.684 kb on - strand at 5.925 kb on + strand, within Pf1N1B4_5584 at 6.051 kb on + strand, within Pf1N1B4_5584 at 6.054 kb on + strand, within Pf1N1B4_5584 at 6.054 kb on + strand, within Pf1N1B4_5584 at 6.054 kb on + strand, within Pf1N1B4_5584 at 6.179 kb on - strand, within Pf1N1B4_5584 at 6.390 kb on + strand, within Pf1N1B4_5584 at 6.421 kb on + strand at 6.788 kb on - strand, within Pf1N1B4_5585 at 6.995 kb on - strand, within Pf1N1B4_5585 at 6.995 kb on - strand, within Pf1N1B4_5585 at 6.995 kb on - strand, within Pf1N1B4_5585 at 7.153 kb on - strand, within Pf1N1B4_5585 at 7.153 kb on - strand, within Pf1N1B4_5585 at 7.332 kb on + strand, within Pf1N1B4_5585 at 7.333 kb on - strand, within Pf1N1B4_5585 at 7.334 kb on + strand, within Pf1N1B4_5585 at 7.370 kb on + strand, within Pf1N1B4_5585
Per-strain Table
Position Strand Gene LocusTag Fraction N2E2wt with N1B4m denitrifying repA remove 4,822 + -2.0 4,822 + -4.2 4,822 + -0.7 4,823 - -2.0 4,825 + +0.6 4,825 + -0.3 4,825 + -1.4 4,909 + +0.6 4,909 + -1.0 4,909 + -0.4 4,910 - +0.6 4,910 - +0.6 4,910 - -1.3 4,910 - +0.6 4,910 - -0.3 4,910 - -0.3 4,910 - +0.6 4,910 - -0.4 4,936 + -1.5 4,937 - +0.4 4,937 - -1.5 4,937 - -0.4 4,987 + +0.1 4,987 + +0.6 4,988 - +0.0 5,166 - -0.4 5,166 - +0.6 5,166 - -1.1 5,166 - -0.9 5,170 - +0.6 5,170 - -2.8 5,170 - +0.5 5,563 + +0.9 5,564 - Pf1N1B4_5583 0.72 -0.4 5,564 - Pf1N1B4_5583 0.72 +0.6 5,564 - Pf1N1B4_5583 0.72 +0.6 5,679 + +0.6 5,679 + -3.1 5,679 + -2.2 5,679 + +0.2 5,679 + -1.7 5,679 + -1.7 5,679 + +3.4 5,679 + -0.4 5,680 - +1.9 5,680 - +0.3 5,680 - +0.6 5,680 - +0.6 5,680 - +0.4 5,680 - -1.2 5,680 - -2.7 5,680 - -2.6 5,680 - -0.8 5,680 - -1.2 5,680 - -1.4 5,680 - -1.1 5,683 + -2.4 5,684 - -0.3 5,684 - -3.0 5,925 + Pf1N1B4_5584 0.25 +1.0 6,051 + Pf1N1B4_5584 0.43 -3.1 6,054 + Pf1N1B4_5584 0.43 +0.6 6,054 + Pf1N1B4_5584 0.43 -0.6 6,054 + Pf1N1B4_5584 0.43 +0.1 6,179 - Pf1N1B4_5584 0.60 +0.8 6,390 + Pf1N1B4_5584 0.90 -1.7 6,421 + -0.6 6,788 - Pf1N1B4_5585 0.24 +0.6 6,995 - Pf1N1B4_5585 0.46 -4.1 6,995 - Pf1N1B4_5585 0.46 -0.6 6,995 - Pf1N1B4_5585 0.46 -0.9 7,153 - Pf1N1B4_5585 0.63 -1.1 7,153 - Pf1N1B4_5585 0.63 -2.7 7,332 + Pf1N1B4_5585 0.82 -2.2 7,333 - Pf1N1B4_5585 0.82 -1.8 7,334 + Pf1N1B4_5585 0.82 -1.0 7,370 + Pf1N1B4_5585 0.86 -0.4
Or see this region's nucleotide sequence