Experiment: Mixed culture; Syntrophotalea carbinolica 1:1 starting OD to methanogen; 1,3-Propanediol_timecourse1; 20 generations
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 MMP_RS04575 and MMP_RS04580 are separated by 124 nucleotides MMP_RS04580 and MMP_RS04585 are separated by 174 nucleotides MMP_RS04585 and MMP_RS04590 are separated by 27 nucleotides
MMP_RS04575: MMP_RS04575 - homoisocitrate dehydrogenase, at 873,802 to 874,821
_RS04575
MMP_RS04580: MMP_RS04580 - hypothetical protein, at 874,946 to 875,287
_RS04580
MMP_RS04585: MMP_RS04585 - AIR synthase related protein, at 875,462 to 876,343
_RS04585
MMP_RS04590: MMP_RS04590 - hypothetical protein, at 876,371 to 877,336
_RS04590
Position (kb) 875
876
877 Strain fitness (log2 ratio) -7
-6
-5
-4
-3
-2
-1
0
1 at 874.506 kb on - strand at 874.507 kb on + strand at 874.509 kb on + strand at 874.509 kb on + strand at 874.509 kb on + strand at 874.569 kb on - strand at 874.742 kb on + strand at 874.846 kb on - strand at 874.846 kb on - strand at 874.847 kb on + strand at 874.847 kb on + strand at 874.872 kb on - strand at 874.872 kb on - strand at 874.873 kb on + strand at 874.877 kb on - strand at 874.877 kb on - strand at 874.877 kb on - strand at 874.877 kb on - strand at 874.877 kb on - strand at 874.878 kb on + strand at 874.878 kb on + strand at 874.890 kb on - strand at 874.899 kb on + strand at 874.908 kb on - strand at 874.909 kb on + strand at 874.909 kb on + strand at 874.909 kb on + strand at 874.909 kb on + strand at 874.910 kb on - strand at 874.910 kb on - strand at 874.910 kb on - strand at 874.910 kb on - strand at 874.910 kb on - strand at 874.910 kb on - strand at 874.910 kb on - strand at 874.910 kb on - strand at 874.910 kb on - strand at 874.911 kb on + strand at 874.911 kb on + strand at 874.911 kb on + strand at 874.911 kb on + strand at 874.911 kb on + strand at 874.923 kb on - strand at 874.924 kb on + strand at 874.931 kb on - strand at 874.947 kb on - strand at 874.957 kb on + strand at 874.964 kb on - strand at 874.964 kb on - strand at 875.029 kb on - strand, within MMP_RS04580 at 875.029 kb on - strand, within MMP_RS04580 at 875.029 kb on - strand, within MMP_RS04580 at 875.049 kb on - strand, within MMP_RS04580 at 875.065 kb on - strand, within MMP_RS04580 at 875.082 kb on + strand, within MMP_RS04580 at 875.129 kb on + strand, within MMP_RS04580 at 875.129 kb on + strand, within MMP_RS04580 at 875.175 kb on - strand, within MMP_RS04580 at 875.175 kb on - strand, within MMP_RS04580 at 875.175 kb on - strand, within MMP_RS04580 at 875.175 kb on - strand, within MMP_RS04580 at 875.176 kb on + strand, within MMP_RS04580 at 875.176 kb on + strand, within MMP_RS04580 at 875.176 kb on + strand, within MMP_RS04580 at 875.176 kb on + strand, within MMP_RS04580 at 875.176 kb on + strand, within MMP_RS04580 at 875.176 kb on + strand, within MMP_RS04580 at 875.179 kb on - strand, within MMP_RS04580 at 875.180 kb on + strand, within MMP_RS04580 at 875.180 kb on + strand, within MMP_RS04580 at 875.252 kb on - strand, within MMP_RS04580 at 875.289 kb on + strand at 875.304 kb on - strand at 875.305 kb on + strand at 875.322 kb on + strand at 875.339 kb on - strand at 875.340 kb on + strand at 875.348 kb on - strand at 875.352 kb on - strand at 875.353 kb on + strand at 875.353 kb on + strand at 875.354 kb on - strand at 875.355 kb on + strand at 875.382 kb on - strand at 875.383 kb on + strand at 875.388 kb on - strand at 875.388 kb on - strand at 875.389 kb on + strand at 875.391 kb on + strand at 875.391 kb on + strand at 875.394 kb on - strand at 875.395 kb on + strand at 875.411 kb on + strand at 875.425 kb on - strand at 875.426 kb on + strand at 875.426 kb on + strand at 875.428 kb on + strand at 875.444 kb on + strand at 875.489 kb on - strand at 875.490 kb on + strand at 875.503 kb on - strand at 875.503 kb on - strand at 875.516 kb on + strand at 875.598 kb on - strand, within MMP_RS04585 at 875.621 kb on + strand, within MMP_RS04585 at 875.668 kb on - strand, within MMP_RS04585 at 875.678 kb on + strand, within MMP_RS04585 at 875.678 kb on + strand, within MMP_RS04585 at 875.766 kb on - strand, within MMP_RS04585 at 875.767 kb on + strand, within MMP_RS04585 at 875.767 kb on + strand, within MMP_RS04585 at 875.797 kb on - strand, within MMP_RS04585 at 875.797 kb on - strand, within MMP_RS04585 at 875.798 kb on + strand, within MMP_RS04585 at 875.809 kb on + strand, within MMP_RS04585 at 875.811 kb on - strand, within MMP_RS04585 at 875.892 kb on - strand, within MMP_RS04585 at 875.893 kb on + strand, within MMP_RS04585 at 875.925 kb on - strand, within MMP_RS04585 at 875.926 kb on + strand, within MMP_RS04585 at 875.926 kb on + strand, within MMP_RS04585 at 875.926 kb on + strand, within MMP_RS04585 at 875.926 kb on + strand, within MMP_RS04585 at 875.949 kb on - strand, within MMP_RS04585 at 875.959 kb on - strand, within MMP_RS04585 at 876.007 kb on + strand, within MMP_RS04585 at 876.007 kb on + strand, within MMP_RS04585 at 876.166 kb on + strand, within MMP_RS04585 at 876.166 kb on + strand, within MMP_RS04585 at 876.196 kb on - strand, within MMP_RS04585 at 876.196 kb on - strand, within MMP_RS04585 at 876.220 kb on - strand, within MMP_RS04585 at 876.220 kb on - strand, within MMP_RS04585 at 876.220 kb on - strand, within MMP_RS04585 at 876.221 kb on + strand, within MMP_RS04585 at 876.221 kb on + strand, within MMP_RS04585 at 876.221 kb on + strand, within MMP_RS04585 at 876.221 kb on + strand, within MMP_RS04585 at 876.221 kb on + strand, within MMP_RS04585 at 876.250 kb on + strand, within MMP_RS04585 at 876.267 kb on - strand at 876.289 kb on - strand at 876.289 kb on - strand at 876.295 kb on - strand at 876.315 kb on - strand at 876.316 kb on + strand at 876.316 kb on + strand at 876.335 kb on + strand at 876.366 kb on + strand at 876.407 kb on + strand at 876.501 kb on - strand, within MMP_RS04590 at 876.501 kb on - strand, within MMP_RS04590 at 876.502 kb on + strand, within MMP_RS04590 at 876.506 kb on - strand, within MMP_RS04590 at 876.507 kb on + strand, within MMP_RS04590 at 876.507 kb on + strand, within MMP_RS04590 at 876.516 kb on - strand, within MMP_RS04590 at 876.527 kb on - strand, within MMP_RS04590 at 876.528 kb on + strand, within MMP_RS04590 at 876.542 kb on + strand, within MMP_RS04590 at 876.546 kb on + strand, within MMP_RS04590 at 876.560 kb on - strand, within MMP_RS04590 at 876.560 kb on - strand, within MMP_RS04590 at 876.607 kb on - strand, within MMP_RS04590 at 876.608 kb on + strand, within MMP_RS04590 at 876.632 kb on + strand, within MMP_RS04590 at 876.659 kb on - strand, within MMP_RS04590 at 876.687 kb on + strand, within MMP_RS04590 at 876.691 kb on - strand, within MMP_RS04590 at 876.955 kb on + strand, within MMP_RS04590 at 876.998 kb on - strand, within MMP_RS04590 at 877.043 kb on - strand, within MMP_RS04590 at 877.120 kb on + strand, within MMP_RS04590 at 877.133 kb on + strand, within MMP_RS04590 at 877.133 kb on + strand, within MMP_RS04590 at 877.133 kb on + strand, within MMP_RS04590 at 877.138 kb on - strand, within MMP_RS04590 at 877.170 kb on - strand, within MMP_RS04590 at 877.174 kb on - strand, within MMP_RS04590 at 877.209 kb on + strand, within MMP_RS04590 at 877.233 kb on + strand, within MMP_RS04590 at 877.272 kb on + strand
Per-strain Table
Position Strand Gene LocusTag Fraction Mixed culture; Syntrophotalea carbinolica 1:1 starting OD to methanogen; 1,3-Propanediol_timecourse1; 20 generations remove 874,506 - -5.8 874,507 + -5.2 874,509 + -5.1 874,509 + -4.5 874,509 + -6.0 874,569 - -5.2 874,742 + -4.2 874,846 - -4.2 874,846 - -5.8 874,847 + -5.4 874,847 + -5.2 874,872 - -2.9 874,872 - -3.0 874,873 + -4.3 874,877 - -2.1 874,877 - -5.6 874,877 - -5.9 874,877 - -4.4 874,877 - -4.7 874,878 + -5.1 874,878 + -5.5 874,890 - -2.3 874,899 + +0.6 874,908 - -0.1 874,909 + +0.2 874,909 + +0.0 874,909 + -0.0 874,909 + +0.1 874,910 - +0.2 874,910 - +0.1 874,910 - +0.2 874,910 - +0.3 874,910 - -0.6 874,910 - +0.1 874,910 - -0.4 874,910 - -0.0 874,910 - +0.5 874,911 + +0.5 874,911 + -0.2 874,911 + -0.3 874,911 + +0.1 874,911 + +0.4 874,923 - +0.0 874,924 + -0.1 874,931 - -0.3 874,947 - +0.6 874,957 + +0.0 874,964 - -0.1 874,964 - -0.2 875,029 - MMP_RS04580 0.24 +0.3 875,029 - MMP_RS04580 0.24 -0.3 875,029 - MMP_RS04580 0.24 +0.1 875,049 - MMP_RS04580 0.30 +1.5 875,065 - MMP_RS04580 0.35 +0.3 875,082 + MMP_RS04580 0.40 -0.6 875,129 + MMP_RS04580 0.54 -0.2 875,129 + MMP_RS04580 0.54 +0.7 875,175 - MMP_RS04580 0.67 +0.8 875,175 - MMP_RS04580 0.67 -0.0 875,175 - MMP_RS04580 0.67 +0.6 875,175 - MMP_RS04580 0.67 +0.1 875,176 + MMP_RS04580 0.67 +0.6 875,176 + MMP_RS04580 0.67 -0.8 875,176 + MMP_RS04580 0.67 -0.1 875,176 + MMP_RS04580 0.67 +0.1 875,176 + MMP_RS04580 0.67 -0.5 875,176 + MMP_RS04580 0.67 +0.6 875,179 - MMP_RS04580 0.68 +0.2 875,180 + MMP_RS04580 0.68 +0.5 875,180 + MMP_RS04580 0.68 -0.1 875,252 - MMP_RS04580 0.89 +0.1 875,289 + +0.5 875,304 - -0.2 875,305 + -0.6 875,322 + +0.3 875,339 - -0.0 875,340 + +0.1 875,348 - +0.8 875,352 - +0.2 875,353 + +0.5 875,353 + +0.2 875,354 - -1.0 875,355 + -0.3 875,382 - -0.2 875,383 + -0.1 875,388 - -2.2 875,388 - -1.4 875,389 + +0.7 875,391 + +0.1 875,391 + +0.2 875,394 - -1.1 875,395 + +0.2 875,411 + -0.1 875,425 - -3.0 875,426 + +0.0 875,426 + -0.5 875,428 + -1.7 875,444 + -2.1 875,489 - -7.3 875,490 + -4.3 875,503 - -3.8 875,503 - -5.4 875,516 + -6.3 875,598 - MMP_RS04585 0.15 -4.8 875,621 + MMP_RS04585 0.18 -4.3 875,668 - MMP_RS04585 0.23 -2.0 875,678 + MMP_RS04585 0.24 -7.0 875,678 + MMP_RS04585 0.24 -4.7 875,766 - MMP_RS04585 0.34 -6.7 875,767 + MMP_RS04585 0.35 -5.3 875,767 + MMP_RS04585 0.35 -4.7 875,797 - MMP_RS04585 0.38 -5.1 875,797 - MMP_RS04585 0.38 -6.3 875,798 + MMP_RS04585 0.38 -5.3 875,809 + MMP_RS04585 0.39 -2.7 875,811 - MMP_RS04585 0.40 -6.0 875,892 - MMP_RS04585 0.49 -4.6 875,893 + MMP_RS04585 0.49 -5.5 875,925 - MMP_RS04585 0.52 -5.7 875,926 + MMP_RS04585 0.53 -4.3 875,926 + MMP_RS04585 0.53 -5.6 875,926 + MMP_RS04585 0.53 -1.0 875,926 + MMP_RS04585 0.53 -4.0 875,949 - MMP_RS04585 0.55 -5.1 875,959 - MMP_RS04585 0.56 -5.6 876,007 + MMP_RS04585 0.62 -5.7 876,007 + MMP_RS04585 0.62 -4.9 876,166 + MMP_RS04585 0.80 -6.8 876,166 + MMP_RS04585 0.80 -4.9 876,196 - MMP_RS04585 0.83 -5.0 876,196 - MMP_RS04585 0.83 -4.9 876,220 - MMP_RS04585 0.86 -5.6 876,220 - MMP_RS04585 0.86 -7.6 876,220 - MMP_RS04585 0.86 -5.1 876,221 + MMP_RS04585 0.86 -6.2 876,221 + MMP_RS04585 0.86 -6.2 876,221 + MMP_RS04585 0.86 -5.8 876,221 + MMP_RS04585 0.86 -5.2 876,221 + MMP_RS04585 0.86 -7.1 876,250 + MMP_RS04585 0.89 -2.2 876,267 - -6.4 876,289 - -4.8 876,289 - -5.7 876,295 - -3.9 876,315 - -0.0 876,316 + -0.5 876,316 + -0.2 876,335 + +0.4 876,366 + -0.0 876,407 + +0.5 876,501 - MMP_RS04590 0.13 +0.3 876,501 - MMP_RS04590 0.13 +0.1 876,502 + MMP_RS04590 0.14 -0.1 876,506 - MMP_RS04590 0.14 -0.0 876,507 + MMP_RS04590 0.14 +0.3 876,507 + MMP_RS04590 0.14 +0.7 876,516 - MMP_RS04590 0.15 -0.9 876,527 - MMP_RS04590 0.16 -0.4 876,528 + MMP_RS04590 0.16 +0.0 876,542 + MMP_RS04590 0.18 +0.0 876,546 + MMP_RS04590 0.18 -0.5 876,560 - MMP_RS04590 0.20 +0.2 876,560 - MMP_RS04590 0.20 +0.4 876,607 - MMP_RS04590 0.24 -0.4 876,608 + MMP_RS04590 0.25 +0.2 876,632 + MMP_RS04590 0.27 +0.8 876,659 - MMP_RS04590 0.30 -0.5 876,687 + MMP_RS04590 0.33 +0.0 876,691 - MMP_RS04590 0.33 +0.2 876,955 + MMP_RS04590 0.60 -0.4 876,998 - MMP_RS04590 0.65 -0.3 877,043 - MMP_RS04590 0.70 +0.5 877,120 + MMP_RS04590 0.78 +0.6 877,133 + MMP_RS04590 0.79 +0.3 877,133 + MMP_RS04590 0.79 +0.8 877,133 + MMP_RS04590 0.79 -0.4 877,138 - MMP_RS04590 0.79 -0.5 877,170 - MMP_RS04590 0.83 +0.3 877,174 - MMP_RS04590 0.83 +0.0 877,209 + MMP_RS04590 0.87 +0.7 877,233 + MMP_RS04590 0.89 -0.1 877,272 + +0.2
Or see this region's nucleotide sequence