Experiment: marine broth pH6.5
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 PGA1_c03880 and PGA1_c03890 are separated by 94 nucleotides PGA1_c03890 and PGA1_c03900 are separated by 108 nucleotides
PGA1_c03880: PGA1_c03880 - putative transcriptional activator protein RaiR, at 374,695 to 375,414
_c03880
PGA1_c03890: PGA1_c03890 - putative acyl-homoserine-lactone synthase RaiI, at 375,509 to 376,150
_c03890
PGA1_c03900: PGA1_c03900 - hypothetical protein, at 376,259 to 377,797
_c03900
Position (kb) 375
376
377 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3 at 374.514 kb on + strand at 374.531 kb on + strand at 374.531 kb on + strand at 374.539 kb on - strand at 374.539 kb on - strand at 374.539 kb on - strand at 374.585 kb on - strand at 374.595 kb on - strand at 374.595 kb on - strand at 374.609 kb on + strand at 374.617 kb on - strand at 374.643 kb on + strand at 374.664 kb on + strand at 374.691 kb on + strand at 374.719 kb on - strand at 374.731 kb on - strand at 374.746 kb on + strand at 374.747 kb on + strand at 374.752 kb on + strand at 374.759 kb on + strand at 374.759 kb on + strand at 374.759 kb on + strand at 374.789 kb on - strand, within PGA1_c03880 at 374.825 kb on - strand, within PGA1_c03880 at 374.868 kb on + strand, within PGA1_c03880 at 374.868 kb on + strand, within PGA1_c03880 at 374.868 kb on + strand, within PGA1_c03880 at 374.868 kb on + strand, within PGA1_c03880 at 374.868 kb on + strand, within PGA1_c03880 at 374.868 kb on + strand, within PGA1_c03880 at 374.868 kb on + strand, within PGA1_c03880 at 374.868 kb on + strand, within PGA1_c03880 at 374.868 kb on + strand, within PGA1_c03880 at 374.868 kb on + strand, within PGA1_c03880 at 374.868 kb on + strand, within PGA1_c03880 at 374.868 kb on + strand, within PGA1_c03880 at 374.868 kb on + strand, within PGA1_c03880 at 374.868 kb on + strand, within PGA1_c03880 at 374.868 kb on + strand, within PGA1_c03880 at 374.868 kb on + strand, within PGA1_c03880 at 374.868 kb on + strand, within PGA1_c03880 at 374.868 kb on + strand, within PGA1_c03880 at 374.868 kb on + strand, within PGA1_c03880 at 374.868 kb on + strand, within PGA1_c03880 at 374.868 kb on + strand, within PGA1_c03880 at 374.868 kb on + strand, within PGA1_c03880 at 374.868 kb on + strand, within PGA1_c03880 at 374.868 kb on + strand, within PGA1_c03880 at 374.868 kb on + strand, within PGA1_c03880 at 374.870 kb on + strand, within PGA1_c03880 at 374.870 kb on + strand, within PGA1_c03880 at 374.870 kb on + strand, within PGA1_c03880 at 374.873 kb on + strand, within PGA1_c03880 at 374.873 kb on + strand, within PGA1_c03880 at 374.873 kb on + strand, within PGA1_c03880 at 374.876 kb on - strand, within PGA1_c03880 at 374.876 kb on - strand, within PGA1_c03880 at 374.876 kb on - strand, within PGA1_c03880 at 374.876 kb on - strand, within PGA1_c03880 at 374.876 kb on - strand, within PGA1_c03880 at 374.876 kb on - strand, within PGA1_c03880 at 374.876 kb on - strand, within PGA1_c03880 at 374.876 kb on - strand, within PGA1_c03880 at 374.876 kb on - strand, within PGA1_c03880 at 374.876 kb on - strand, within PGA1_c03880 at 374.876 kb on - strand, within PGA1_c03880 at 374.876 kb on - strand, within PGA1_c03880 at 374.876 kb on - strand, within PGA1_c03880 at 374.878 kb on - strand, within PGA1_c03880 at 374.881 kb on - strand, within PGA1_c03880 at 374.881 kb on - strand, within PGA1_c03880 at 374.881 kb on - strand, within PGA1_c03880 at 374.883 kb on - strand, within PGA1_c03880 at 374.896 kb on + strand, within PGA1_c03880 at 374.984 kb on - strand, within PGA1_c03880 at 374.984 kb on - strand, within PGA1_c03880 at 375.038 kb on + strand, within PGA1_c03880 at 375.041 kb on - strand, within PGA1_c03880 at 375.041 kb on - strand, within PGA1_c03880 at 375.046 kb on - strand, within PGA1_c03880 at 375.046 kb on - strand, within PGA1_c03880 at 375.071 kb on - strand, within PGA1_c03880 at 375.078 kb on + strand, within PGA1_c03880 at 375.078 kb on + strand, within PGA1_c03880 at 375.078 kb on + strand, within PGA1_c03880 at 375.078 kb on + strand, within PGA1_c03880 at 375.078 kb on + strand, within PGA1_c03880 at 375.085 kb on + strand, within PGA1_c03880 at 375.086 kb on - strand, within PGA1_c03880 at 375.086 kb on - strand, within PGA1_c03880 at 375.086 kb on - strand, within PGA1_c03880 at 375.086 kb on - strand, within PGA1_c03880 at 375.086 kb on - strand, within PGA1_c03880 at 375.086 kb on - strand, within PGA1_c03880 at 375.088 kb on + strand, within PGA1_c03880 at 375.096 kb on - strand, within PGA1_c03880 at 375.137 kb on + strand, within PGA1_c03880 at 375.137 kb on + strand, within PGA1_c03880 at 375.137 kb on + strand, within PGA1_c03880 at 375.137 kb on + strand, within PGA1_c03880 at 375.137 kb on + strand, within PGA1_c03880 at 375.145 kb on - strand, within PGA1_c03880 at 375.178 kb on + strand, within PGA1_c03880 at 375.178 kb on + strand, within PGA1_c03880 at 375.178 kb on + strand, within PGA1_c03880 at 375.186 kb on - strand, within PGA1_c03880 at 375.186 kb on - strand, within PGA1_c03880 at 375.199 kb on - strand, within PGA1_c03880 at 375.203 kb on + strand, within PGA1_c03880 at 375.235 kb on - strand, within PGA1_c03880 at 375.257 kb on - strand, within PGA1_c03880 at 375.265 kb on + strand, within PGA1_c03880 at 375.265 kb on + strand, within PGA1_c03880 at 375.265 kb on + strand, within PGA1_c03880 at 375.265 kb on + strand, within PGA1_c03880 at 375.265 kb on + strand, within PGA1_c03880 at 375.273 kb on - strand, within PGA1_c03880 at 375.273 kb on - strand, within PGA1_c03880 at 375.273 kb on - strand, within PGA1_c03880 at 375.273 kb on - strand, within PGA1_c03880 at 375.273 kb on - strand, within PGA1_c03880 at 375.273 kb on - strand, within PGA1_c03880 at 375.327 kb on + strand, within PGA1_c03880 at 375.342 kb on + strand, within PGA1_c03880 at 375.355 kb on + strand at 375.362 kb on + strand at 375.365 kb on + strand at 375.365 kb on + strand at 375.365 kb on - strand at 375.367 kb on + strand at 375.370 kb on - strand at 375.370 kb on - strand at 375.373 kb on - strand at 375.375 kb on - strand at 375.375 kb on - strand at 375.375 kb on - strand at 375.392 kb on + strand at 375.392 kb on + strand at 375.392 kb on + strand at 375.392 kb on + strand at 375.392 kb on + strand at 375.392 kb on + strand at 375.392 kb on + strand at 375.392 kb on + strand at 375.392 kb on + strand at 375.392 kb on + strand at 375.400 kb on - strand at 375.400 kb on - strand at 375.400 kb on - strand at 375.402 kb on + strand at 375.442 kb on + strand at 375.449 kb on - strand at 375.498 kb on - strand at 375.499 kb on + strand at 375.499 kb on + strand at 375.512 kb on - strand at 375.534 kb on + strand at 375.534 kb on + strand at 375.534 kb on + strand at 375.542 kb on - strand at 375.542 kb on - strand at 375.542 kb on - strand at 375.542 kb on - strand at 375.542 kb on - strand at 375.547 kb on - strand at 375.587 kb on - strand, within PGA1_c03890 at 375.587 kb on - strand, within PGA1_c03890 at 375.587 kb on - strand, within PGA1_c03890 at 375.589 kb on + strand, within PGA1_c03890 at 375.606 kb on + strand, within PGA1_c03890 at 375.647 kb on - strand, within PGA1_c03890 at 375.648 kb on + strand, within PGA1_c03890 at 375.665 kb on - strand, within PGA1_c03890 at 375.737 kb on - strand, within PGA1_c03890 at 375.737 kb on - strand, within PGA1_c03890 at 375.767 kb on - strand, within PGA1_c03890 at 375.769 kb on + strand, within PGA1_c03890 at 375.777 kb on - strand, within PGA1_c03890 at 375.777 kb on - strand, within PGA1_c03890 at 375.828 kb on + strand, within PGA1_c03890 at 375.844 kb on - strand, within PGA1_c03890 at 375.862 kb on + strand, within PGA1_c03890 at 375.865 kb on - strand, within PGA1_c03890 at 375.865 kb on - strand, within PGA1_c03890 at 375.872 kb on + strand, within PGA1_c03890 at 375.874 kb on + strand, within PGA1_c03890 at 375.922 kb on - strand, within PGA1_c03890 at 375.957 kb on + strand, within PGA1_c03890 at 375.957 kb on + strand, within PGA1_c03890 at 375.993 kb on + strand, within PGA1_c03890 at 376.002 kb on + strand, within PGA1_c03890 at 376.026 kb on + strand, within PGA1_c03890 at 376.045 kb on - strand, within PGA1_c03890 at 376.057 kb on + strand, within PGA1_c03890 at 376.078 kb on + strand, within PGA1_c03890 at 376.086 kb on - strand at 376.123 kb on + strand at 376.123 kb on + strand at 376.174 kb on - strand at 376.180 kb on + strand at 376.183 kb on - strand at 376.188 kb on - strand at 376.188 kb on - strand at 376.188 kb on - strand at 376.368 kb on - strand at 376.441 kb on + strand, within PGA1_c03900 at 376.444 kb on + strand, within PGA1_c03900 at 376.452 kb on - strand, within PGA1_c03900 at 376.526 kb on - strand, within PGA1_c03900 at 376.532 kb on - strand, within PGA1_c03900 at 376.606 kb on + strand, within PGA1_c03900 at 376.618 kb on + strand, within PGA1_c03900 at 376.654 kb on + strand, within PGA1_c03900 at 376.654 kb on - strand, within PGA1_c03900 at 376.703 kb on + strand, within PGA1_c03900 at 376.703 kb on + strand, within PGA1_c03900 at 376.711 kb on - strand, within PGA1_c03900 at 376.711 kb on - strand, within PGA1_c03900 at 376.711 kb on - strand, within PGA1_c03900 at 376.711 kb on - strand, within PGA1_c03900 at 376.730 kb on - strand, within PGA1_c03900 at 377.040 kb on + strand, within PGA1_c03900 at 377.122 kb on + strand, within PGA1_c03900 at 377.123 kb on + strand, within PGA1_c03900
Per-strain Table
Position Strand Gene LocusTag Fraction marine broth pH6.5 remove 374,514 + +0.8 374,531 + -1.2 374,531 + +0.3 374,539 - -1.3 374,539 - +1.9 374,539 - -1.7 374,585 - -0.9 374,595 - +0.2 374,595 - +0.1 374,609 + -3.3 374,617 - -1.2 374,643 + +0.5 374,664 + +1.4 374,691 + +0.0 374,719 - -0.1 374,731 - -0.1 374,746 + +1.2 374,747 + +0.8 374,752 + +0.3 374,759 + +0.5 374,759 + +1.1 374,759 + -0.2 374,789 - PGA1_c03880 0.13 +1.2 374,825 - PGA1_c03880 0.18 +1.1 374,868 + PGA1_c03880 0.24 -0.0 374,868 + PGA1_c03880 0.24 +1.1 374,868 + PGA1_c03880 0.24 +0.2 374,868 + PGA1_c03880 0.24 +1.5 374,868 + PGA1_c03880 0.24 +1.2 374,868 + PGA1_c03880 0.24 -1.7 374,868 + PGA1_c03880 0.24 +1.1 374,868 + PGA1_c03880 0.24 +0.8 374,868 + PGA1_c03880 0.24 +0.8 374,868 + PGA1_c03880 0.24 +0.1 374,868 + PGA1_c03880 0.24 +0.2 374,868 + PGA1_c03880 0.24 +0.4 374,868 + PGA1_c03880 0.24 +1.1 374,868 + PGA1_c03880 0.24 -1.4 374,868 + PGA1_c03880 0.24 -0.6 374,868 + PGA1_c03880 0.24 +0.9 374,868 + PGA1_c03880 0.24 +1.5 374,868 + PGA1_c03880 0.24 -0.2 374,868 + PGA1_c03880 0.24 -0.6 374,868 + PGA1_c03880 0.24 -0.0 374,868 + PGA1_c03880 0.24 -1.8 374,868 + PGA1_c03880 0.24 +0.2 374,868 + PGA1_c03880 0.24 +0.5 374,868 + PGA1_c03880 0.24 +0.6 374,868 + PGA1_c03880 0.24 -0.5 374,870 + PGA1_c03880 0.24 +0.6 374,870 + PGA1_c03880 0.24 +1.2 374,870 + PGA1_c03880 0.24 +0.5 374,873 + PGA1_c03880 0.25 +1.3 374,873 + PGA1_c03880 0.25 -0.9 374,873 + PGA1_c03880 0.25 -0.8 374,876 - PGA1_c03880 0.25 +0.2 374,876 - PGA1_c03880 0.25 +0.3 374,876 - PGA1_c03880 0.25 +1.0 374,876 - PGA1_c03880 0.25 +0.2 374,876 - PGA1_c03880 0.25 +0.4 374,876 - PGA1_c03880 0.25 -1.5 374,876 - PGA1_c03880 0.25 -1.1 374,876 - PGA1_c03880 0.25 -0.2 374,876 - PGA1_c03880 0.25 -0.8 374,876 - PGA1_c03880 0.25 +0.2 374,876 - PGA1_c03880 0.25 +0.6 374,876 - PGA1_c03880 0.25 +0.4 374,876 - PGA1_c03880 0.25 -0.8 374,878 - PGA1_c03880 0.25 +0.1 374,881 - PGA1_c03880 0.26 +0.6 374,881 - PGA1_c03880 0.26 +0.7 374,881 - PGA1_c03880 0.26 -0.0 374,883 - PGA1_c03880 0.26 -0.7 374,896 + PGA1_c03880 0.28 +0.8 374,984 - PGA1_c03880 0.40 +0.4 374,984 - PGA1_c03880 0.40 +0.5 375,038 + PGA1_c03880 0.48 +1.7 375,041 - PGA1_c03880 0.48 +1.1 375,041 - PGA1_c03880 0.48 +0.5 375,046 - PGA1_c03880 0.49 -0.7 375,046 - PGA1_c03880 0.49 +1.2 375,071 - PGA1_c03880 0.52 +0.9 375,078 + PGA1_c03880 0.53 -0.1 375,078 + PGA1_c03880 0.53 +0.2 375,078 + PGA1_c03880 0.53 -0.4 375,078 + PGA1_c03880 0.53 +0.6 375,078 + PGA1_c03880 0.53 +0.4 375,085 + PGA1_c03880 0.54 -1.4 375,086 - PGA1_c03880 0.54 +0.1 375,086 - PGA1_c03880 0.54 +0.4 375,086 - PGA1_c03880 0.54 -0.3 375,086 - PGA1_c03880 0.54 -0.1 375,086 - PGA1_c03880 0.54 +0.9 375,086 - PGA1_c03880 0.54 +0.5 375,088 + PGA1_c03880 0.55 -0.3 375,096 - PGA1_c03880 0.56 -2.0 375,137 + PGA1_c03880 0.61 +1.0 375,137 + PGA1_c03880 0.61 +0.3 375,137 + PGA1_c03880 0.61 +0.9 375,137 + PGA1_c03880 0.61 +1.2 375,137 + PGA1_c03880 0.61 +0.3 375,145 - PGA1_c03880 0.62 +2.2 375,178 + PGA1_c03880 0.67 +0.9 375,178 + PGA1_c03880 0.67 +0.0 375,178 + PGA1_c03880 0.67 +1.7 375,186 - PGA1_c03880 0.68 +0.3 375,186 - PGA1_c03880 0.68 -0.1 375,199 - PGA1_c03880 0.70 +1.5 375,203 + PGA1_c03880 0.71 -0.3 375,235 - PGA1_c03880 0.75 +0.0 375,257 - PGA1_c03880 0.78 -0.7 375,265 + PGA1_c03880 0.79 +0.9 375,265 + PGA1_c03880 0.79 +0.6 375,265 + PGA1_c03880 0.79 +1.4 375,265 + PGA1_c03880 0.79 +0.7 375,265 + PGA1_c03880 0.79 -0.0 375,273 - PGA1_c03880 0.80 +0.5 375,273 - PGA1_c03880 0.80 +0.8 375,273 - PGA1_c03880 0.80 -0.7 375,273 - PGA1_c03880 0.80 +0.1 375,273 - PGA1_c03880 0.80 +0.6 375,273 - PGA1_c03880 0.80 +0.8 375,327 + PGA1_c03880 0.88 -1.2 375,342 + PGA1_c03880 0.90 -2.1 375,355 + +0.8 375,362 + -0.2 375,365 + +1.1 375,365 + -0.3 375,365 - -0.1 375,367 + +0.8 375,370 - +0.0 375,370 - +0.6 375,373 - +0.9 375,375 - +1.3 375,375 - +1.8 375,375 - +0.4 375,392 + -0.7 375,392 + -1.1 375,392 + +0.1 375,392 + +0.5 375,392 + -0.8 375,392 + -0.7 375,392 + -0.3 375,392 + +0.2 375,392 + +0.1 375,392 + -0.0 375,400 - -0.7 375,400 - +0.0 375,400 - +0.6 375,402 + +0.7 375,442 + -0.4 375,449 - -2.0 375,498 - -1.2 375,499 + +1.0 375,499 + -1.2 375,512 - +0.4 375,534 + -0.3 375,534 + +1.0 375,534 + +0.2 375,542 - -1.3 375,542 - +1.1 375,542 - +0.0 375,542 - +0.6 375,542 - +1.5 375,547 - -0.5 375,587 - PGA1_c03890 0.12 +2.5 375,587 - PGA1_c03890 0.12 -1.4 375,587 - PGA1_c03890 0.12 +1.8 375,589 + PGA1_c03890 0.12 -1.7 375,606 + PGA1_c03890 0.15 -1.2 375,647 - PGA1_c03890 0.21 +1.3 375,648 + PGA1_c03890 0.22 +0.1 375,665 - PGA1_c03890 0.24 -0.9 375,737 - PGA1_c03890 0.36 -0.0 375,737 - PGA1_c03890 0.36 +0.7 375,767 - PGA1_c03890 0.40 +1.0 375,769 + PGA1_c03890 0.40 -0.3 375,777 - PGA1_c03890 0.42 +0.1 375,777 - PGA1_c03890 0.42 -1.0 375,828 + PGA1_c03890 0.50 +0.4 375,844 - PGA1_c03890 0.52 +0.3 375,862 + PGA1_c03890 0.55 +3.3 375,865 - PGA1_c03890 0.55 -1.2 375,865 - PGA1_c03890 0.55 -0.4 375,872 + PGA1_c03890 0.57 -0.3 375,874 + PGA1_c03890 0.57 +0.8 375,922 - PGA1_c03890 0.64 +1.4 375,957 + PGA1_c03890 0.70 -0.8 375,957 + PGA1_c03890 0.70 +0.6 375,993 + PGA1_c03890 0.75 +0.6 376,002 + PGA1_c03890 0.77 -0.1 376,026 + PGA1_c03890 0.81 +0.3 376,045 - PGA1_c03890 0.83 -1.0 376,057 + PGA1_c03890 0.85 -1.2 376,078 + PGA1_c03890 0.89 +0.8 376,086 - +0.5 376,123 + -0.3 376,123 + -0.0 376,174 - +0.8 376,180 + +0.3 376,183 - -0.1 376,188 - +0.0 376,188 - -0.7 376,188 - +0.7 376,368 - +1.3 376,441 + PGA1_c03900 0.12 +0.6 376,444 + PGA1_c03900 0.12 -1.3 376,452 - PGA1_c03900 0.13 +0.4 376,526 - PGA1_c03900 0.17 -0.7 376,532 - PGA1_c03900 0.18 -0.3 376,606 + PGA1_c03900 0.23 -2.3 376,618 + PGA1_c03900 0.23 -0.0 376,654 + PGA1_c03900 0.26 +0.5 376,654 - PGA1_c03900 0.26 +0.5 376,703 + PGA1_c03900 0.29 -1.3 376,703 + PGA1_c03900 0.29 -0.5 376,711 - PGA1_c03900 0.29 +0.4 376,711 - PGA1_c03900 0.29 +1.4 376,711 - PGA1_c03900 0.29 -1.9 376,711 - PGA1_c03900 0.29 -1.3 376,730 - PGA1_c03900 0.31 -0.8 377,040 + PGA1_c03900 0.51 -1.9 377,122 + PGA1_c03900 0.56 -2.4 377,123 + PGA1_c03900 0.56 -1.2
Or see this region's nucleotide sequence