Experiment: PDB
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 DDA3937_RS22485 and DDA3937_RS22490 are separated by 81 nucleotides DDA3937_RS22490 and DDA3937_RS23355 are separated by 318 nucleotides DDA3937_RS23355 and DDA3937_RS18870 overlap by 4 nucleotides DDA3937_RS18870 and DDA3937_RS18875 overlap by 14 nucleotides
DDA3937_RS22485: DDA3937_RS22485 - hypothetical protein, at 4,309,385 to 4,309,789
_RS22485
DDA3937_RS22490: DDA3937_RS22490 - Hcp family type VI secretion system effector, at 4,309,871 to 4,310,350
_RS22490
DDA3937_RS23355: DDA3937_RS23355 - hypothetical protein, at 4,310,669 to 4,311,031
_RS23355
DDA3937_RS18870: DDA3937_RS18870 - nitrogen fixation protein NifX, at 4,311,028 to 4,311,495
_RS18870
DDA3937_RS18875: DDA3937_RS18875 - nitrogenase iron-molybdenum cofactor biosynthesis protein NifN, at 4,311,482 to 4,312,867
_RS18875
Position (kb) 4310
4311
4312 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3 at 4309.697 kb on + strand, within DDA3937_RS22485 at 4309.893 kb on - strand at 4309.895 kb on - strand at 4309.895 kb on - strand at 4309.897 kb on + strand at 4309.897 kb on + strand at 4309.897 kb on + strand at 4309.898 kb on - strand at 4309.898 kb on - strand at 4309.899 kb on + strand at 4309.899 kb on + strand at 4309.900 kb on - strand at 4309.900 kb on - strand at 4309.934 kb on + strand, within DDA3937_RS22490 at 4309.934 kb on + strand, within DDA3937_RS22490 at 4309.934 kb on + strand, within DDA3937_RS22490 at 4309.934 kb on + strand, within DDA3937_RS22490 at 4309.935 kb on - strand, within DDA3937_RS22490 at 4309.935 kb on - strand, within DDA3937_RS22490 at 4309.936 kb on + strand, within DDA3937_RS22490 at 4309.936 kb on + strand, within DDA3937_RS22490 at 4309.936 kb on + strand, within DDA3937_RS22490 at 4309.937 kb on - strand, within DDA3937_RS22490 at 4309.937 kb on - strand, within DDA3937_RS22490 at 4309.942 kb on + strand, within DDA3937_RS22490 at 4309.943 kb on - strand, within DDA3937_RS22490 at 4309.944 kb on + strand, within DDA3937_RS22490 at 4309.944 kb on + strand, within DDA3937_RS22490 at 4309.958 kb on - strand at 4309.958 kb on - strand, within DDA3937_RS22490 at 4309.958 kb on - strand, within DDA3937_RS22490 at 4309.958 kb on - strand, within DDA3937_RS22490 at 4309.965 kb on + strand, within DDA3937_RS22490 at 4309.982 kb on - strand, within DDA3937_RS22490 at 4310.061 kb on - strand, within DDA3937_RS22490 at 4310.189 kb on + strand, within DDA3937_RS22490 at 4310.213 kb on - strand, within DDA3937_RS22490 at 4310.213 kb on - strand, within DDA3937_RS22490 at 4310.213 kb on - strand, within DDA3937_RS22490 at 4310.228 kb on + strand, within DDA3937_RS22490 at 4310.389 kb on - strand at 4310.411 kb on - strand at 4310.458 kb on + strand at 4310.498 kb on + strand at 4310.498 kb on + strand at 4310.503 kb on - strand at 4310.521 kb on - strand at 4310.535 kb on + strand at 4310.555 kb on + strand at 4310.734 kb on + strand, within DDA3937_RS23355 at 4310.734 kb on + strand, within DDA3937_RS23355 at 4310.734 kb on + strand, within DDA3937_RS23355 at 4310.734 kb on + strand, within DDA3937_RS23355 at 4310.734 kb on + strand, within DDA3937_RS23355 at 4310.734 kb on + strand, within DDA3937_RS23355 at 4310.734 kb on + strand, within DDA3937_RS23355 at 4310.734 kb on + strand, within DDA3937_RS23355 at 4310.734 kb on + strand, within DDA3937_RS23355 at 4310.734 kb on + strand, within DDA3937_RS23355 at 4310.734 kb on + strand, within DDA3937_RS23355 at 4310.734 kb on + strand, within DDA3937_RS23355 at 4310.735 kb on - strand, within DDA3937_RS23355 at 4310.735 kb on - strand, within DDA3937_RS23355 at 4310.735 kb on - strand, within DDA3937_RS23355 at 4310.735 kb on - strand, within DDA3937_RS23355 at 4310.735 kb on - strand, within DDA3937_RS23355 at 4310.735 kb on - strand, within DDA3937_RS23355 at 4310.735 kb on - strand, within DDA3937_RS23355 at 4310.735 kb on - strand, within DDA3937_RS23355 at 4310.735 kb on - strand, within DDA3937_RS23355 at 4310.735 kb on - strand, within DDA3937_RS23355 at 4310.735 kb on - strand, within DDA3937_RS23355 at 4310.738 kb on + strand, within DDA3937_RS23355 at 4310.739 kb on - strand, within DDA3937_RS23355 at 4310.739 kb on - strand, within DDA3937_RS23355 at 4310.800 kb on + strand, within DDA3937_RS23355 at 4310.848 kb on + strand, within DDA3937_RS23355 at 4310.848 kb on + strand, within DDA3937_RS23355 at 4310.849 kb on - strand, within DDA3937_RS23355 at 4311.014 kb on + strand at 4311.014 kb on + strand at 4311.014 kb on + strand at 4311.014 kb on + strand at 4311.014 kb on + strand at 4311.014 kb on + strand at 4311.014 kb on + strand at 4311.015 kb on - strand at 4311.015 kb on - strand at 4311.015 kb on - strand at 4311.015 kb on - strand at 4311.015 kb on - strand at 4311.015 kb on - strand at 4311.015 kb on - strand at 4311.015 kb on - strand at 4311.015 kb on - strand at 4311.015 kb on - strand at 4311.018 kb on + strand at 4311.018 kb on + strand at 4311.018 kb on + strand at 4311.018 kb on + strand at 4311.151 kb on + strand, within DDA3937_RS18870 at 4311.151 kb on + strand, within DDA3937_RS18870 at 4311.151 kb on + strand, within DDA3937_RS18870 at 4311.151 kb on + strand, within DDA3937_RS18870 at 4311.151 kb on + strand, within DDA3937_RS18870 at 4311.151 kb on + strand, within DDA3937_RS18870 at 4311.152 kb on - strand, within DDA3937_RS18870 at 4311.152 kb on - strand, within DDA3937_RS18870 at 4311.248 kb on + strand, within DDA3937_RS18870 at 4311.249 kb on - strand, within DDA3937_RS18870 at 4311.249 kb on - strand, within DDA3937_RS18870 at 4311.249 kb on - strand, within DDA3937_RS18870 at 4311.483 kb on + strand at 4311.483 kb on + strand at 4311.484 kb on - strand at 4311.486 kb on + strand at 4311.486 kb on + strand at 4311.486 kb on + strand at 4311.486 kb on + strand at 4311.486 kb on + strand at 4311.486 kb on + strand at 4311.486 kb on + strand at 4311.487 kb on - strand at 4311.487 kb on - strand at 4311.487 kb on - strand at 4311.487 kb on - strand at 4311.621 kb on + strand, within DDA3937_RS18875 at 4311.622 kb on - strand, within DDA3937_RS18875 at 4311.622 kb on - strand, within DDA3937_RS18875 at 4311.622 kb on - strand, within DDA3937_RS18875
Per-strain Table
Position Strand Gene LocusTag Fraction PDB remove 4,309,697 + DDA3937_RS22485 0.77 -2.0 4,309,893 - +2.2 4,309,895 - +0.0 4,309,895 - -1.7 4,309,897 + +2.0 4,309,897 + -1.7 4,309,897 + +1.3 4,309,898 - -2.5 4,309,898 - -2.6 4,309,899 + -0.4 4,309,899 + -2.3 4,309,900 - -0.8 4,309,900 - +0.6 4,309,934 + DDA3937_RS22490 0.13 -3.2 4,309,934 + DDA3937_RS22490 0.13 +2.0 4,309,934 + DDA3937_RS22490 0.13 +2.4 4,309,934 + DDA3937_RS22490 0.13 -1.7 4,309,935 - DDA3937_RS22490 0.13 +1.5 4,309,935 - DDA3937_RS22490 0.13 -1.0 4,309,936 + DDA3937_RS22490 0.14 -1.4 4,309,936 + DDA3937_RS22490 0.14 -0.7 4,309,936 + DDA3937_RS22490 0.14 +0.1 4,309,937 - DDA3937_RS22490 0.14 -3.0 4,309,937 - DDA3937_RS22490 0.14 +2.3 4,309,942 + DDA3937_RS22490 0.15 -2.8 4,309,943 - DDA3937_RS22490 0.15 -3.5 4,309,944 + DDA3937_RS22490 0.15 -2.1 4,309,944 + DDA3937_RS22490 0.15 +0.1 4,309,958 - -0.7 4,309,958 - DDA3937_RS22490 0.18 -0.9 4,309,958 - DDA3937_RS22490 0.18 -0.7 4,309,958 - DDA3937_RS22490 0.18 -1.4 4,309,965 + DDA3937_RS22490 0.20 -1.0 4,309,982 - DDA3937_RS22490 0.23 -1.8 4,310,061 - DDA3937_RS22490 0.40 +0.6 4,310,189 + DDA3937_RS22490 0.66 -0.8 4,310,213 - DDA3937_RS22490 0.71 -1.4 4,310,213 - DDA3937_RS22490 0.71 +1.3 4,310,213 - DDA3937_RS22490 0.71 -1.7 4,310,228 + DDA3937_RS22490 0.74 +1.8 4,310,389 - -1.6 4,310,411 - -0.2 4,310,458 + -2.0 4,310,498 + -2.4 4,310,498 + -1.3 4,310,503 - -2.9 4,310,521 - -0.7 4,310,535 + +0.6 4,310,555 + -2.9 4,310,734 + DDA3937_RS23355 0.18 -2.6 4,310,734 + DDA3937_RS23355 0.18 -3.3 4,310,734 + DDA3937_RS23355 0.18 -1.0 4,310,734 + DDA3937_RS23355 0.18 +0.0 4,310,734 + DDA3937_RS23355 0.18 -2.0 4,310,734 + DDA3937_RS23355 0.18 -3.0 4,310,734 + DDA3937_RS23355 0.18 -1.4 4,310,734 + DDA3937_RS23355 0.18 -3.2 4,310,734 + DDA3937_RS23355 0.18 -1.0 4,310,734 + DDA3937_RS23355 0.18 -1.0 4,310,734 + DDA3937_RS23355 0.18 -0.5 4,310,734 + DDA3937_RS23355 0.18 -1.6 4,310,735 - DDA3937_RS23355 0.18 -3.0 4,310,735 - DDA3937_RS23355 0.18 +0.7 4,310,735 - DDA3937_RS23355 0.18 -0.8 4,310,735 - DDA3937_RS23355 0.18 -0.5 4,310,735 - DDA3937_RS23355 0.18 -1.6 4,310,735 - DDA3937_RS23355 0.18 -1.0 4,310,735 - DDA3937_RS23355 0.18 +0.4 4,310,735 - DDA3937_RS23355 0.18 +0.3 4,310,735 - DDA3937_RS23355 0.18 -1.7 4,310,735 - DDA3937_RS23355 0.18 -2.0 4,310,735 - DDA3937_RS23355 0.18 -2.3 4,310,738 + DDA3937_RS23355 0.19 -1.0 4,310,739 - DDA3937_RS23355 0.19 -0.2 4,310,739 - DDA3937_RS23355 0.19 -2.0 4,310,800 + DDA3937_RS23355 0.36 -1.6 4,310,848 + DDA3937_RS23355 0.49 -1.2 4,310,848 + DDA3937_RS23355 0.49 -1.0 4,310,849 - DDA3937_RS23355 0.50 -2.9 4,311,014 + -1.2 4,311,014 + -2.5 4,311,014 + -1.6 4,311,014 + -0.3 4,311,014 + -1.4 4,311,014 + -1.4 4,311,014 + -1.1 4,311,015 - -1.9 4,311,015 - +0.6 4,311,015 - -2.3 4,311,015 - +1.5 4,311,015 - +1.1 4,311,015 - -0.8 4,311,015 - -0.6 4,311,015 - -2.7 4,311,015 - -0.3 4,311,015 - +0.0 4,311,018 + -0.4 4,311,018 + +0.8 4,311,018 + +2.6 4,311,018 + +2.8 4,311,151 + DDA3937_RS18870 0.26 +0.7 4,311,151 + DDA3937_RS18870 0.26 +1.9 4,311,151 + DDA3937_RS18870 0.26 -0.5 4,311,151 + DDA3937_RS18870 0.26 +0.3 4,311,151 + DDA3937_RS18870 0.26 -1.1 4,311,151 + DDA3937_RS18870 0.26 -3.1 4,311,152 - DDA3937_RS18870 0.26 +2.8 4,311,152 - DDA3937_RS18870 0.26 +0.9 4,311,248 + DDA3937_RS18870 0.47 -0.6 4,311,249 - DDA3937_RS18870 0.47 +1.3 4,311,249 - DDA3937_RS18870 0.47 +2.4 4,311,249 - DDA3937_RS18870 0.47 +0.1 4,311,483 + +1.6 4,311,483 + +0.6 4,311,484 - +0.7 4,311,486 + -0.9 4,311,486 + -1.6 4,311,486 + +0.0 4,311,486 + +2.7 4,311,486 + +1.3 4,311,486 + -0.7 4,311,486 + -1.5 4,311,487 - +0.8 4,311,487 - +1.5 4,311,487 - -0.3 4,311,487 - +0.2 4,311,621 + DDA3937_RS18875 0.10 +0.3 4,311,622 - DDA3937_RS18875 0.10 +1.8 4,311,622 - DDA3937_RS18875 0.10 -0.3 4,311,622 - DDA3937_RS18875 0.10 -1.1
Or see this region's nucleotide sequence