Experiment: marine broth pH 6
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_c02560 and PGA1_c02570 overlap by 14 nucleotides PGA1_c02570 and PGA1_c02580 are separated by 86 nucleotides PGA1_c02580 and PGA1_c02590 are separated by 237 nucleotides
PGA1_c02560: PGA1_c02560 - protocatechuate 3,4-dioxygenase beta chain, at 240,775 to 241,500
_c02560
PGA1_c02570: PGA1_c02570 - putative 4-carboxymuconolactone decarboxylase PcaC, at 241,487 to 241,912
_c02570
PGA1_c02580: PGA1_c02580 - putative HTH-type transcriptional regulator pcaQ, at 241,999 to 242,916
_c02580
PGA1_c02590: PGA1_c02590 - putative high-affinity branched-chain amino acid transport system permease protein LivH, at 243,154 to 244,029
_c02590
Position (kb) 241
242
243 Strain fitness (log2 ratio) -3
-2
-1
0
1
2 at 241.036 kb on - strand, within PGA1_c02560 at 241.042 kb on + strand, within PGA1_c02560 at 241.061 kb on + strand, within PGA1_c02560 at 241.061 kb on + strand, within PGA1_c02560 at 241.061 kb on + strand, within PGA1_c02560 at 241.067 kb on + strand, within PGA1_c02560 at 241.067 kb on + strand, within PGA1_c02560 at 241.069 kb on - strand, within PGA1_c02560 at 241.069 kb on - strand, within PGA1_c02560 at 241.069 kb on - strand, within PGA1_c02560 at 241.069 kb on - strand, within PGA1_c02560 at 241.069 kb on - strand, within PGA1_c02560 at 241.075 kb on - strand, within PGA1_c02560 at 241.082 kb on - strand, within PGA1_c02560 at 241.082 kb on - strand, within PGA1_c02560 at 241.112 kb on + strand, within PGA1_c02560 at 241.112 kb on + strand, within PGA1_c02560 at 241.119 kb on + strand, within PGA1_c02560 at 241.143 kb on + strand, within PGA1_c02560 at 241.227 kb on + strand, within PGA1_c02560 at 241.230 kb on - strand, within PGA1_c02560 at 241.240 kb on - strand, within PGA1_c02560 at 241.340 kb on + strand, within PGA1_c02560 at 241.348 kb on - strand, within PGA1_c02560 at 241.362 kb on + strand, within PGA1_c02560 at 241.365 kb on - strand, within PGA1_c02560 at 241.382 kb on + strand, within PGA1_c02560 at 241.386 kb on + strand, within PGA1_c02560 at 241.386 kb on + strand, within PGA1_c02560 at 241.399 kb on - strand, within PGA1_c02560 at 241.419 kb on + strand, within PGA1_c02560 at 241.503 kb on - strand at 241.518 kb on - strand at 241.597 kb on + strand, within PGA1_c02570 at 241.601 kb on + strand, within PGA1_c02570 at 241.605 kb on - strand, within PGA1_c02570 at 241.618 kb on + strand, within PGA1_c02570 at 241.645 kb on - strand, within PGA1_c02570 at 241.647 kb on - strand, within PGA1_c02570 at 241.658 kb on + strand, within PGA1_c02570 at 241.676 kb on - strand, within PGA1_c02570 at 241.746 kb on + strand, within PGA1_c02570 at 241.746 kb on + strand, within PGA1_c02570 at 241.824 kb on + strand, within PGA1_c02570 at 241.834 kb on + strand, within PGA1_c02570 at 241.865 kb on - strand, within PGA1_c02570 at 241.868 kb on - strand, within PGA1_c02570 at 241.880 kb on + strand at 241.880 kb on + strand at 241.880 kb on + strand at 241.880 kb on + strand at 241.880 kb on + strand at 241.880 kb on + strand at 241.880 kb on + strand at 241.880 kb on + strand at 241.888 kb on - strand at 241.888 kb on - strand at 241.888 kb on - strand at 241.890 kb on + strand at 241.890 kb on + strand at 241.898 kb on - strand at 241.898 kb on - strand at 241.898 kb on - strand at 241.898 kb on - strand at 241.898 kb on - strand at 241.898 kb on - strand at 241.898 kb on - strand at 241.898 kb on - strand at 241.898 kb on - strand at 241.958 kb on + strand at 241.966 kb on - strand at 241.966 kb on - strand at 241.966 kb on - strand at 242.030 kb on + strand at 242.099 kb on - strand, within PGA1_c02580 at 242.100 kb on - strand, within PGA1_c02580 at 242.177 kb on + strand, within PGA1_c02580 at 242.185 kb on - strand, within PGA1_c02580 at 242.205 kb on - strand, within PGA1_c02580 at 242.236 kb on - strand, within PGA1_c02580 at 242.285 kb on + strand, within PGA1_c02580 at 242.351 kb on + strand, within PGA1_c02580 at 242.351 kb on + strand, within PGA1_c02580 at 242.429 kb on + strand, within PGA1_c02580 at 242.434 kb on + strand, within PGA1_c02580 at 242.442 kb on - strand, within PGA1_c02580 at 242.513 kb on + strand, within PGA1_c02580 at 242.519 kb on + strand, within PGA1_c02580 at 242.651 kb on + strand, within PGA1_c02580 at 242.718 kb on + strand, within PGA1_c02580 at 242.761 kb on - strand, within PGA1_c02580 at 242.764 kb on + strand, within PGA1_c02580 at 242.830 kb on - strand at 242.852 kb on + strand at 242.854 kb on + strand at 242.865 kb on + strand at 242.924 kb on + strand at 242.924 kb on + strand at 242.953 kb on + strand at 243.024 kb on + strand at 243.040 kb on + strand at 243.055 kb on + strand at 243.062 kb on - strand at 243.064 kb on + strand at 243.067 kb on - strand at 243.067 kb on - strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.087 kb on + strand at 243.095 kb on - strand at 243.095 kb on - strand at 243.095 kb on - strand at 243.095 kb on - strand at 243.095 kb on - strand at 243.095 kb on - strand at 243.095 kb on - strand at 243.095 kb on - strand at 243.095 kb on - strand at 243.095 kb on - strand at 243.095 kb on - strand at 243.095 kb on - strand at 243.095 kb on - strand at 243.095 kb on - strand at 243.095 kb on - strand at 243.097 kb on + strand at 243.105 kb on - strand at 243.150 kb on - strand at 243.161 kb on + strand at 243.169 kb on - strand at 243.182 kb on - strand at 243.221 kb on + strand at 243.221 kb on + strand at 243.226 kb on + strand at 243.226 kb on + strand at 243.229 kb on - strand at 243.282 kb on + strand, within PGA1_c02590 at 243.298 kb on - strand, within PGA1_c02590 at 243.299 kb on + strand, within PGA1_c02590 at 243.307 kb on - strand, within PGA1_c02590 at 243.377 kb on + strand, within PGA1_c02590 at 243.397 kb on + strand, within PGA1_c02590 at 243.453 kb on - strand, within PGA1_c02590 at 243.453 kb on - strand, within PGA1_c02590 at 243.508 kb on - strand, within PGA1_c02590 at 243.604 kb on + strand, within PGA1_c02590 at 243.686 kb on - strand, within PGA1_c02590 at 243.715 kb on + strand, within PGA1_c02590 at 243.724 kb on + strand, within PGA1_c02590 at 243.724 kb on + strand, within PGA1_c02590 at 243.813 kb on + strand, within PGA1_c02590 at 243.819 kb on + strand, within PGA1_c02590 at 243.826 kb on + strand, within PGA1_c02590 at 243.849 kb on - strand, within PGA1_c02590 at 243.864 kb on + strand, within PGA1_c02590 at 243.901 kb on + strand, within PGA1_c02590
Per-strain Table
Position Strand Gene LocusTag Fraction marine broth pH 6 remove 241,036 - PGA1_c02560 0.36 +0.8 241,042 + PGA1_c02560 0.37 -1.2 241,061 + PGA1_c02560 0.39 +2.0 241,061 + PGA1_c02560 0.39 +0.1 241,061 + PGA1_c02560 0.39 -1.1 241,067 + PGA1_c02560 0.40 -1.0 241,067 + PGA1_c02560 0.40 +0.5 241,069 - PGA1_c02560 0.40 +0.3 241,069 - PGA1_c02560 0.40 -1.1 241,069 - PGA1_c02560 0.40 -0.5 241,069 - PGA1_c02560 0.40 -0.6 241,069 - PGA1_c02560 0.40 -1.0 241,075 - PGA1_c02560 0.41 +1.4 241,082 - PGA1_c02560 0.42 +1.8 241,082 - PGA1_c02560 0.42 +1.0 241,112 + PGA1_c02560 0.46 -0.4 241,112 + PGA1_c02560 0.46 -1.6 241,119 + PGA1_c02560 0.47 +1.3 241,143 + PGA1_c02560 0.51 +0.2 241,227 + PGA1_c02560 0.62 -1.2 241,230 - PGA1_c02560 0.63 +1.5 241,240 - PGA1_c02560 0.64 -0.1 241,340 + PGA1_c02560 0.78 +0.4 241,348 - PGA1_c02560 0.79 -2.1 241,362 + PGA1_c02560 0.81 -0.4 241,365 - PGA1_c02560 0.81 +0.1 241,382 + PGA1_c02560 0.84 +0.2 241,386 + PGA1_c02560 0.84 +0.8 241,386 + PGA1_c02560 0.84 +0.7 241,399 - PGA1_c02560 0.86 -1.2 241,419 + PGA1_c02560 0.89 -0.8 241,503 - +0.7 241,518 - -2.8 241,597 + PGA1_c02570 0.26 -0.4 241,601 + PGA1_c02570 0.27 -0.7 241,605 - PGA1_c02570 0.28 -0.1 241,618 + PGA1_c02570 0.31 -1.2 241,645 - PGA1_c02570 0.37 +1.0 241,647 - PGA1_c02570 0.38 -2.0 241,658 + PGA1_c02570 0.40 -0.2 241,676 - PGA1_c02570 0.44 -1.2 241,746 + PGA1_c02570 0.61 -0.1 241,746 + PGA1_c02570 0.61 -0.7 241,824 + PGA1_c02570 0.79 -0.0 241,834 + PGA1_c02570 0.81 +0.3 241,865 - PGA1_c02570 0.89 +1.4 241,868 - PGA1_c02570 0.89 -1.1 241,880 + +1.0 241,880 + +0.7 241,880 + -1.0 241,880 + +1.0 241,880 + -0.3 241,880 + +0.2 241,880 + -0.7 241,880 + +1.8 241,888 - -1.0 241,888 - -3.2 241,888 - -0.5 241,890 + +0.8 241,890 + -0.3 241,898 - +0.2 241,898 - +0.5 241,898 - -0.0 241,898 - -0.3 241,898 - -0.3 241,898 - -1.7 241,898 - -0.1 241,898 - -1.5 241,898 - +2.4 241,958 + -1.6 241,966 - -0.8 241,966 - -0.1 241,966 - -0.1 242,030 + -1.0 242,099 - PGA1_c02580 0.11 +2.6 242,100 - PGA1_c02580 0.11 +0.0 242,177 + PGA1_c02580 0.19 -3.4 242,185 - PGA1_c02580 0.20 +1.7 242,205 - PGA1_c02580 0.22 -0.3 242,236 - PGA1_c02580 0.26 -0.7 242,285 + PGA1_c02580 0.31 -1.3 242,351 + PGA1_c02580 0.38 -0.1 242,351 + PGA1_c02580 0.38 -1.0 242,429 + PGA1_c02580 0.47 -0.6 242,434 + PGA1_c02580 0.47 -0.0 242,442 - PGA1_c02580 0.48 -0.2 242,513 + PGA1_c02580 0.56 -0.1 242,519 + PGA1_c02580 0.57 -2.2 242,651 + PGA1_c02580 0.71 +0.2 242,718 + PGA1_c02580 0.78 -0.5 242,761 - PGA1_c02580 0.83 -2.3 242,764 + PGA1_c02580 0.83 +0.6 242,830 - +0.9 242,852 + +1.5 242,854 + +0.8 242,865 + +0.8 242,924 + -0.0 242,924 + +0.3 242,953 + +1.6 243,024 + +0.4 243,040 + -0.7 243,055 + +0.6 243,062 - -0.0 243,064 + -0.1 243,067 - -2.0 243,067 - -0.4 243,087 + +1.4 243,087 + +0.1 243,087 + +0.2 243,087 + +0.4 243,087 + -0.7 243,087 + +0.3 243,087 + -0.9 243,087 + +1.3 243,087 + -0.3 243,087 + +1.6 243,087 + -1.5 243,087 + -0.9 243,087 + +0.4 243,087 + -0.7 243,087 + +1.0 243,087 + +1.5 243,087 + +1.5 243,087 + -0.3 243,087 + +1.7 243,087 + +0.6 243,087 + +1.5 243,087 + +1.0 243,087 + -0.6 243,087 + +0.5 243,087 + +0.7 243,087 + -1.1 243,087 + +0.6 243,087 + -0.3 243,087 + +1.7 243,087 + +0.4 243,087 + +1.4 243,087 + -1.5 243,087 + -1.0 243,087 + +1.3 243,095 - +0.4 243,095 - -1.6 243,095 - +0.6 243,095 - +1.2 243,095 - +0.6 243,095 - -0.0 243,095 - -0.8 243,095 - -3.2 243,095 - -0.3 243,095 - -2.2 243,095 - -0.4 243,095 - -0.5 243,095 - -0.3 243,095 - +0.4 243,095 - +0.5 243,097 + +0.2 243,105 - -0.6 243,150 - +0.6 243,161 + +1.0 243,169 - +2.5 243,182 - +0.6 243,221 + +0.7 243,221 + +1.6 243,226 + +0.3 243,226 + +0.6 243,229 - +0.7 243,282 + PGA1_c02590 0.15 -0.1 243,298 - PGA1_c02590 0.16 +0.2 243,299 + PGA1_c02590 0.17 -1.0 243,307 - PGA1_c02590 0.17 +0.4 243,377 + PGA1_c02590 0.25 -0.6 243,397 + PGA1_c02590 0.28 -2.5 243,453 - PGA1_c02590 0.34 -0.5 243,453 - PGA1_c02590 0.34 +0.9 243,508 - PGA1_c02590 0.40 -1.3 243,604 + PGA1_c02590 0.51 -0.2 243,686 - PGA1_c02590 0.61 -2.5 243,715 + PGA1_c02590 0.64 -0.2 243,724 + PGA1_c02590 0.65 -1.0 243,724 + PGA1_c02590 0.65 -1.1 243,813 + PGA1_c02590 0.75 -1.0 243,819 + PGA1_c02590 0.76 -2.3 243,826 + PGA1_c02590 0.77 -0.3 243,849 - PGA1_c02590 0.79 +0.4 243,864 + PGA1_c02590 0.81 -2.8 243,901 + PGA1_c02590 0.85 -1.7
Or see this region's nucleotide sequence