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_4868 and Pf1N1B4_4869 are separated by 83 nucleotides Pf1N1B4_4869 and Pf1N1B4_4870 are separated by 12 nucleotides Pf1N1B4_4870 and Pf1N1B4_4871 are separated by 109 nucleotides Pf1N1B4_4871 and Pf1N1B4_4872 are separated by 80 nucleotides
Pf1N1B4_4868 - diguanylate cyclase/phosphodiesterase (GGDEF & EAL domains) with PAS/PAC sensor(s), at 5,385,716 to 5,388,721
_4868
Pf1N1B4_4869 - Isoquinoline 1-oxidoreductase beta subunit (EC 1.3.99.16), at 5,388,805 to 5,391,045
_4869
Pf1N1B4_4870 - Isoquinoline 1-oxidoreductase alpha subunit (EC 1.3.99.16), at 5,391,058 to 5,391,531
_4870
Pf1N1B4_4871 - Aldo-keto reductase, at 5,391,641 to 5,391,895
_4871
Pf1N1B4_4872 - Short-chain dehydrogenase/reductase SDR, at 5,391,976 to 5,392,818
_4872
Position (kb) 5388
5389
5390
5391
5392 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1 at 5387.834 kb on + strand, within Pf1N1B4_4868 at 5387.851 kb on + strand, within Pf1N1B4_4868 at 5387.854 kb on + strand, within Pf1N1B4_4868 at 5387.854 kb on + strand, within Pf1N1B4_4868 at 5387.855 kb on - strand at 5387.855 kb on - strand at 5388.139 kb on + strand at 5388.139 kb on + strand at 5388.233 kb on + strand at 5388.233 kb on + strand, within Pf1N1B4_4868 at 5388.234 kb on - strand, within Pf1N1B4_4868 at 5388.234 kb on - strand, within Pf1N1B4_4868 at 5388.615 kb on + strand at 5388.688 kb on - strand at 5388.993 kb on + strand at 5389.076 kb on - strand, within Pf1N1B4_4869 at 5389.181 kb on + strand, within Pf1N1B4_4869 at 5389.182 kb on - strand, within Pf1N1B4_4869 at 5389.332 kb on - strand, within Pf1N1B4_4869 at 5389.810 kb on - strand, within Pf1N1B4_4869 at 5389.810 kb on - strand, within Pf1N1B4_4869 at 5389.810 kb on - strand, within Pf1N1B4_4869 at 5389.810 kb on - strand, within Pf1N1B4_4869 at 5389.891 kb on + strand, within Pf1N1B4_4869 at 5389.958 kb on + strand, within Pf1N1B4_4869 at 5389.959 kb on - strand, within Pf1N1B4_4869 at 5390.609 kb on + strand, within Pf1N1B4_4869 at 5390.609 kb on + strand, within Pf1N1B4_4869 at 5390.610 kb on - strand at 5390.610 kb on - strand at 5390.610 kb on - strand, within Pf1N1B4_4869 at 5390.686 kb on - strand, within Pf1N1B4_4869 at 5390.927 kb on - strand at 5390.995 kb on + strand at 5390.995 kb on + strand at 5390.995 kb on + strand at 5390.996 kb on - strand at 5390.996 kb on - strand at 5391.271 kb on + strand, within Pf1N1B4_4870 at 5391.271 kb on + strand at 5391.393 kb on + strand, within Pf1N1B4_4870 at 5391.394 kb on - strand, within Pf1N1B4_4870 at 5391.394 kb on - strand, within Pf1N1B4_4870 at 5391.487 kb on + strand at 5391.500 kb on + strand at 5391.501 kb on - strand at 5391.596 kb on + strand at 5391.597 kb on - strand at 5391.727 kb on + strand, within Pf1N1B4_4871 at 5391.947 kb on + strand at 5391.947 kb on + strand at 5391.947 kb on + strand at 5391.947 kb on + strand at 5391.947 kb on + strand at 5391.948 kb on - strand at 5391.951 kb on + strand at 5392.028 kb on + strand at 5392.028 kb on + strand
Per-strain Table
Position Strand Gene LocusTag Fraction N2E2wt with N1B4m denitrifying repA remove 5,387,834 + Pf1N1B4_4868 0.70 -0.2 5,387,851 + Pf1N1B4_4868 0.71 -0.3 5,387,854 + Pf1N1B4_4868 0.71 -4.4 5,387,854 + Pf1N1B4_4868 0.71 -0.5 5,387,855 - -2.2 5,387,855 - -0.6 5,388,139 + +0.4 5,388,139 + -0.8 5,388,233 + +0.4 5,388,233 + Pf1N1B4_4868 0.84 -2.1 5,388,234 - Pf1N1B4_4868 0.84 +0.2 5,388,234 - Pf1N1B4_4868 0.84 -0.7 5,388,615 + -1.1 5,388,688 - +0.3 5,388,993 + -1.2 5,389,076 - Pf1N1B4_4869 0.12 -2.3 5,389,181 + Pf1N1B4_4869 0.17 +0.7 5,389,182 - Pf1N1B4_4869 0.17 -2.0 5,389,332 - Pf1N1B4_4869 0.24 +0.4 5,389,810 - Pf1N1B4_4869 0.45 -2.2 5,389,810 - Pf1N1B4_4869 0.45 +1.7 5,389,810 - Pf1N1B4_4869 0.45 +1.1 5,389,810 - Pf1N1B4_4869 0.45 -0.1 5,389,891 + Pf1N1B4_4869 0.48 +0.9 5,389,958 + Pf1N1B4_4869 0.51 -0.6 5,389,959 - Pf1N1B4_4869 0.51 +0.4 5,390,609 + Pf1N1B4_4869 0.80 -2.8 5,390,609 + Pf1N1B4_4869 0.80 +1.5 5,390,610 - -2.4 5,390,610 - +0.4 5,390,610 - Pf1N1B4_4869 0.81 -3.1 5,390,686 - Pf1N1B4_4869 0.84 -2.4 5,390,927 - +0.4 5,390,995 + +0.4 5,390,995 + -0.6 5,390,995 + -2.4 5,390,996 - -0.8 5,390,996 - +0.4 5,391,271 + Pf1N1B4_4870 0.45 +0.4 5,391,271 + +0.4 5,391,393 + Pf1N1B4_4870 0.71 -2.0 5,391,394 - Pf1N1B4_4870 0.71 -0.2 5,391,394 - Pf1N1B4_4870 0.71 +0.4 5,391,487 + +0.9 5,391,500 + -0.5 5,391,501 - -0.6 5,391,596 + -2.6 5,391,597 - -0.6 5,391,727 + Pf1N1B4_4871 0.34 +1.1 5,391,947 + -3.8 5,391,947 + +0.7 5,391,947 + -3.4 5,391,947 + -1.4 5,391,947 + -1.3 5,391,948 - -1.4 5,391,951 + +0.7 5,392,028 + -0.6 5,392,028 + +0.4
Or see this region's nucleotide sequence