Experiment: NL-CCM; Mixed culture; Sphingobium sp. HT1-2 2:1 starting OD to Azospirillum
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 EX31_RS08395 and EX31_RS08400 are separated by 4 nucleotides EX31_RS08400 and EX31_RS25255 are separated by 34 nucleotides EX31_RS25255 and EX31_RS08405 are separated by 267 nucleotides EX31_RS08405 and EX31_RS08410 are separated by 0 nucleotides EX31_RS08410 and EX31_RS08415 are separated by 3 nucleotides
EX31_RS08395: EX31_RS08395 - anaerobic ribonucleoside-triphosphate reductase, at 186,659 to 188,797
_RS08395
EX31_RS08400: EX31_RS08400 - anaerobic ribonucleoside-triphosphate reductase-activating protein, at 188,802 to 189,266
_RS08400
EX31_RS25255: EX31_RS25255 - hypothetical protein, at 189,301 to 189,462
_RS25255
EX31_RS08405: EX31_RS08405 - phosphonate metabolism transcriptional regulator PhnF, at 189,730 to 190,455
_RS08405
EX31_RS08410: EX31_RS08410 - phosphonate C-P lyase system protein PhnG, at 190,456 to 190,899
_RS08410
EX31_RS08415: EX31_RS08415 - phosphonate C-P lyase system protein PhnH, at 190,903 to 191,484
_RS08415
Position (kb) 189
190
191 Strain fitness (log2 ratio) -3
-2
-1
0
1 at 188.767 kb on - strand at 188.798 kb on + strand at 188.798 kb on + strand at 188.799 kb on - strand at 188.799 kb on - strand at 188.799 kb on - strand at 188.799 kb on - strand at 188.799 kb on - strand at 188.817 kb on + strand at 188.817 kb on + strand at 188.817 kb on + strand at 188.817 kb on + strand at 188.817 kb on + strand at 188.817 kb on + strand at 188.817 kb on + strand at 188.818 kb on - strand at 188.818 kb on - strand at 188.818 kb on - strand at 188.820 kb on + strand at 188.834 kb on - strand at 188.901 kb on + strand, within EX31_RS08400 at 188.901 kb on + strand, within EX31_RS08400 at 188.901 kb on + strand, within EX31_RS08400 at 188.901 kb on + strand, within EX31_RS08400 at 188.901 kb on + strand, within EX31_RS08400 at 188.902 kb on - strand, within EX31_RS08400 at 188.902 kb on - strand, within EX31_RS08400 at 188.902 kb on - strand, within EX31_RS08400 at 188.903 kb on + strand, within EX31_RS08400 at 188.903 kb on + strand, within EX31_RS08400 at 188.942 kb on + strand, within EX31_RS08400 at 188.942 kb on + strand, within EX31_RS08400 at 188.942 kb on + strand, within EX31_RS08400 at 188.943 kb on - strand, within EX31_RS08400 at 188.943 kb on - strand, within EX31_RS08400 at 188.943 kb on - strand, within EX31_RS08400 at 189.067 kb on + strand, within EX31_RS08400 at 189.067 kb on + strand, within EX31_RS08400 at 189.068 kb on - strand, within EX31_RS08400 at 189.077 kb on - strand, within EX31_RS08400 at 189.077 kb on - strand, within EX31_RS08400 at 189.077 kb on - strand, within EX31_RS08400 at 189.120 kb on + strand, within EX31_RS08400 at 189.121 kb on - strand, within EX31_RS08400 at 189.122 kb on + strand, within EX31_RS08400 at 189.122 kb on + strand, within EX31_RS08400 at 189.122 kb on + strand, within EX31_RS08400 at 189.122 kb on + strand, within EX31_RS08400 at 189.122 kb on + strand, within EX31_RS08400 at 189.122 kb on + strand, within EX31_RS08400 at 189.122 kb on + strand, within EX31_RS08400 at 189.122 kb on + strand, within EX31_RS08400 at 189.123 kb on - strand, within EX31_RS08400 at 189.123 kb on - strand, within EX31_RS08400 at 189.123 kb on - strand, within EX31_RS08400 at 189.123 kb on - strand, within EX31_RS08400 at 189.123 kb on - strand, within EX31_RS08400 at 189.123 kb on - strand, within EX31_RS08400 at 189.123 kb on - strand, within EX31_RS08400 at 189.123 kb on - strand, within EX31_RS08400 at 189.123 kb on - strand, within EX31_RS08400 at 189.123 kb on - strand, within EX31_RS08400 at 189.221 kb on + strand at 189.221 kb on + strand at 189.221 kb on + strand at 189.221 kb on + strand at 189.221 kb on + strand at 189.222 kb on - strand at 189.222 kb on - strand at 189.222 kb on - strand at 189.255 kb on + strand at 189.256 kb on - strand at 189.256 kb on - strand at 189.308 kb on - strand at 189.308 kb on - strand at 189.347 kb on + strand, within EX31_RS25255 at 189.348 kb on - strand, within EX31_RS25255 at 189.348 kb on - strand, within EX31_RS25255 at 189.348 kb on - strand, within EX31_RS25255 at 189.348 kb on - strand, within EX31_RS25255 at 189.351 kb on + strand, within EX31_RS25255 at 189.351 kb on + strand, within EX31_RS25255 at 189.351 kb on + strand, within EX31_RS25255 at 189.351 kb on + strand, within EX31_RS25255 at 189.351 kb on + strand, within EX31_RS25255 at 189.351 kb on + strand, within EX31_RS25255 at 189.352 kb on - strand, within EX31_RS25255 at 189.352 kb on - strand, within EX31_RS25255 at 189.352 kb on - strand, within EX31_RS25255 at 189.352 kb on - strand, within EX31_RS25255 at 189.352 kb on - strand, within EX31_RS25255 at 189.416 kb on - strand, within EX31_RS25255 at 189.416 kb on - strand, within EX31_RS25255 at 189.420 kb on + strand, within EX31_RS25255 at 189.420 kb on + strand, within EX31_RS25255 at 189.420 kb on + strand, within EX31_RS25255 at 189.427 kb on + strand, within EX31_RS25255 at 189.427 kb on + strand, within EX31_RS25255 at 189.428 kb on - strand, within EX31_RS25255 at 189.462 kb on + strand at 189.462 kb on + strand at 189.462 kb on + strand at 189.463 kb on - strand at 189.463 kb on - strand at 189.478 kb on - strand at 189.481 kb on + strand at 189.482 kb on - strand at 189.482 kb on - strand at 189.494 kb on + strand at 189.495 kb on - strand at 189.495 kb on - strand at 189.495 kb on - strand at 189.515 kb on - strand at 189.515 kb on - strand at 189.515 kb on - strand at 189.515 kb on - strand at 189.515 kb on - strand at 189.521 kb on + strand at 189.535 kb on + strand at 189.536 kb on - strand at 189.615 kb on + strand at 189.694 kb on + strand at 189.694 kb on + strand at 189.695 kb on - strand at 189.720 kb on - strand at 189.737 kb on + strand at 189.737 kb on + strand at 189.737 kb on + strand at 189.737 kb on + strand at 189.737 kb on + strand at 189.738 kb on - strand at 189.738 kb on - strand at 189.738 kb on - strand at 189.738 kb on - strand at 189.738 kb on - strand at 189.738 kb on - strand at 189.769 kb on + strand at 189.829 kb on + strand, within EX31_RS08405 at 189.830 kb on - strand, within EX31_RS08405 at 189.830 kb on - strand, within EX31_RS08405 at 189.870 kb on - strand, within EX31_RS08405 at 190.116 kb on + strand, within EX31_RS08405 at 190.116 kb on + strand, within EX31_RS08405 at 190.116 kb on + strand, within EX31_RS08405 at 190.116 kb on + strand, within EX31_RS08405 at 190.116 kb on + strand, within EX31_RS08405 at 190.116 kb on + strand, within EX31_RS08405 at 190.116 kb on + strand, within EX31_RS08405 at 190.116 kb on + strand, within EX31_RS08405 at 190.116 kb on + strand, within EX31_RS08405 at 190.117 kb on - strand, within EX31_RS08405 at 190.117 kb on - strand, within EX31_RS08405 at 190.117 kb on - strand, within EX31_RS08405 at 190.128 kb on + strand, within EX31_RS08405 at 190.174 kb on + strand, within EX31_RS08405 at 190.174 kb on + strand, within EX31_RS08405 at 190.174 kb on + strand, within EX31_RS08405 at 190.175 kb on - strand, within EX31_RS08405 at 190.175 kb on - strand, within EX31_RS08405 at 190.323 kb on - strand, within EX31_RS08405 at 190.402 kb on + strand at 190.644 kb on + strand, within EX31_RS08410 at 190.699 kb on + strand, within EX31_RS08410 at 190.699 kb on + strand, within EX31_RS08410 at 190.699 kb on + strand, within EX31_RS08410 at 190.699 kb on + strand, within EX31_RS08410 at 190.699 kb on + strand, within EX31_RS08410 at 190.699 kb on + strand, within EX31_RS08410 at 190.699 kb on + strand, within EX31_RS08410 at 190.699 kb on + strand, within EX31_RS08410 at 190.699 kb on + strand, within EX31_RS08410 at 190.699 kb on + strand, within EX31_RS08410 at 190.700 kb on - strand, within EX31_RS08410 at 190.700 kb on - strand, within EX31_RS08410 at 190.700 kb on - strand, within EX31_RS08410 at 190.700 kb on - strand, within EX31_RS08410 at 190.700 kb on - strand, within EX31_RS08410 at 190.700 kb on - strand, within EX31_RS08410 at 190.763 kb on + strand, within EX31_RS08410 at 190.764 kb on - strand, within EX31_RS08410 at 190.764 kb on - strand, within EX31_RS08410 at 190.789 kb on - strand, within EX31_RS08410 at 190.789 kb on - strand, within EX31_RS08410 at 190.789 kb on - strand, within EX31_RS08410 at 190.800 kb on - strand, within EX31_RS08410 at 190.879 kb on - strand at 190.897 kb on + strand at 190.898 kb on - strand at 190.948 kb on + strand at 190.949 kb on - strand at 190.949 kb on - strand at 191.030 kb on + strand, within EX31_RS08415 at 191.030 kb on + strand, within EX31_RS08415 at 191.031 kb on - strand, within EX31_RS08415 at 191.064 kb on + strand, within EX31_RS08415 at 191.064 kb on + strand, within EX31_RS08415 at 191.065 kb on - strand, within EX31_RS08415 at 191.065 kb on - strand, within EX31_RS08415 at 191.122 kb on - strand, within EX31_RS08415 at 191.122 kb on - strand, within EX31_RS08415 at 191.377 kb on + strand, within EX31_RS08415 at 191.377 kb on + strand, within EX31_RS08415 at 191.421 kb on + strand, within EX31_RS08415 at 191.421 kb on + strand, within EX31_RS08415 at 191.421 kb on + strand, within EX31_RS08415 at 191.422 kb on - strand, within EX31_RS08415 at 191.422 kb on - strand, within EX31_RS08415 at 191.422 kb on - strand, within EX31_RS08415
Per-strain Table
Position Strand Gene LocusTag Fraction NL-CCM; Mixed culture; Sphingobium sp. HT1-2 2:1 starting OD to Azospirillum remove 188,767 - -0.2 188,798 + -0.1 188,798 + +0.4 188,799 - +0.2 188,799 - +1.0 188,799 - -0.2 188,799 - -0.5 188,799 - +0.5 188,817 + -0.6 188,817 + -0.3 188,817 + -0.7 188,817 + +0.6 188,817 + +0.5 188,817 + +0.6 188,817 + -1.1 188,818 - +0.3 188,818 - +0.1 188,818 - +0.2 188,820 + -0.7 188,834 - +0.3 188,901 + EX31_RS08400 0.21 +0.5 188,901 + EX31_RS08400 0.21 -0.7 188,901 + EX31_RS08400 0.21 +0.3 188,901 + EX31_RS08400 0.21 +0.6 188,901 + EX31_RS08400 0.21 -0.1 188,902 - EX31_RS08400 0.22 +0.5 188,902 - EX31_RS08400 0.22 -0.2 188,902 - EX31_RS08400 0.22 -1.6 188,903 + EX31_RS08400 0.22 +0.6 188,903 + EX31_RS08400 0.22 -2.3 188,942 + EX31_RS08400 0.30 -0.4 188,942 + EX31_RS08400 0.30 -1.2 188,942 + EX31_RS08400 0.30 +0.3 188,943 - EX31_RS08400 0.30 +0.4 188,943 - EX31_RS08400 0.30 -0.4 188,943 - EX31_RS08400 0.30 +0.7 189,067 + EX31_RS08400 0.57 -0.2 189,067 + EX31_RS08400 0.57 +0.4 189,068 - EX31_RS08400 0.57 -0.0 189,077 - EX31_RS08400 0.59 +1.4 189,077 - EX31_RS08400 0.59 -1.0 189,077 - EX31_RS08400 0.59 -0.4 189,120 + EX31_RS08400 0.68 +0.6 189,121 - EX31_RS08400 0.69 +0.8 189,122 + EX31_RS08400 0.69 +0.3 189,122 + EX31_RS08400 0.69 +0.6 189,122 + EX31_RS08400 0.69 +0.3 189,122 + EX31_RS08400 0.69 +0.4 189,122 + EX31_RS08400 0.69 +0.4 189,122 + EX31_RS08400 0.69 +0.6 189,122 + EX31_RS08400 0.69 +0.3 189,122 + EX31_RS08400 0.69 +0.3 189,123 - EX31_RS08400 0.69 -0.5 189,123 - EX31_RS08400 0.69 -0.3 189,123 - EX31_RS08400 0.69 +1.0 189,123 - EX31_RS08400 0.69 +1.1 189,123 - EX31_RS08400 0.69 -0.3 189,123 - EX31_RS08400 0.69 -0.3 189,123 - EX31_RS08400 0.69 -1.1 189,123 - EX31_RS08400 0.69 +1.5 189,123 - EX31_RS08400 0.69 +1.7 189,123 - EX31_RS08400 0.69 -0.2 189,221 + +0.2 189,221 + +0.4 189,221 + +0.1 189,221 + +0.7 189,221 + -0.2 189,222 - -0.7 189,222 - +0.2 189,222 - -0.3 189,255 + -0.1 189,256 - +0.8 189,256 - +0.7 189,308 - -0.5 189,308 - +0.6 189,347 + EX31_RS25255 0.28 +1.6 189,348 - EX31_RS25255 0.29 +0.3 189,348 - EX31_RS25255 0.29 -0.8 189,348 - EX31_RS25255 0.29 -0.4 189,348 - EX31_RS25255 0.29 +0.1 189,351 + EX31_RS25255 0.31 -0.3 189,351 + EX31_RS25255 0.31 -0.3 189,351 + EX31_RS25255 0.31 +0.8 189,351 + EX31_RS25255 0.31 +0.9 189,351 + EX31_RS25255 0.31 +1.3 189,351 + EX31_RS25255 0.31 +0.6 189,352 - EX31_RS25255 0.31 -0.7 189,352 - EX31_RS25255 0.31 -1.0 189,352 - EX31_RS25255 0.31 -0.2 189,352 - EX31_RS25255 0.31 +0.1 189,352 - EX31_RS25255 0.31 -0.7 189,416 - EX31_RS25255 0.71 -0.2 189,416 - EX31_RS25255 0.71 -0.0 189,420 + EX31_RS25255 0.73 +0.4 189,420 + EX31_RS25255 0.73 +0.5 189,420 + EX31_RS25255 0.73 +0.5 189,427 + EX31_RS25255 0.78 +0.1 189,427 + EX31_RS25255 0.78 -0.4 189,428 - EX31_RS25255 0.78 +0.9 189,462 + +0.9 189,462 + -0.7 189,462 + +0.2 189,463 - +0.3 189,463 - +0.4 189,478 - -0.2 189,481 + -2.1 189,482 - -0.0 189,482 - -0.0 189,494 + -1.4 189,495 - -0.3 189,495 - -0.4 189,495 - -0.3 189,515 - -0.8 189,515 - -0.3 189,515 - +0.4 189,515 - +1.1 189,515 - -0.6 189,521 + -1.5 189,535 + +0.1 189,536 - +0.6 189,615 + -0.9 189,694 + -1.5 189,694 + -1.0 189,695 - -1.8 189,720 - +0.3 189,737 + -0.7 189,737 + +0.4 189,737 + -0.6 189,737 + -0.4 189,737 + +0.7 189,738 - -1.0 189,738 - +0.3 189,738 - +0.3 189,738 - +0.3 189,738 - -0.9 189,738 - -0.2 189,769 + -2.7 189,829 + EX31_RS08405 0.14 -1.6 189,830 - EX31_RS08405 0.14 -2.0 189,830 - EX31_RS08405 0.14 +0.1 189,870 - EX31_RS08405 0.19 -1.7 190,116 + EX31_RS08405 0.53 -0.5 190,116 + EX31_RS08405 0.53 -0.8 190,116 + EX31_RS08405 0.53 +0.4 190,116 + EX31_RS08405 0.53 -1.2 190,116 + EX31_RS08405 0.53 +0.7 190,116 + EX31_RS08405 0.53 -0.1 190,116 + EX31_RS08405 0.53 -1.1 190,116 + EX31_RS08405 0.53 -1.5 190,116 + EX31_RS08405 0.53 -0.5 190,117 - EX31_RS08405 0.53 +0.7 190,117 - EX31_RS08405 0.53 -0.1 190,117 - EX31_RS08405 0.53 +1.0 190,128 + EX31_RS08405 0.55 -0.2 190,174 + EX31_RS08405 0.61 -0.6 190,174 + EX31_RS08405 0.61 -2.8 190,174 + EX31_RS08405 0.61 -1.0 190,175 - EX31_RS08405 0.61 +0.1 190,175 - EX31_RS08405 0.61 -0.2 190,323 - EX31_RS08405 0.82 +0.9 190,402 + -0.7 190,644 + EX31_RS08410 0.42 -0.5 190,699 + EX31_RS08410 0.55 -0.0 190,699 + EX31_RS08410 0.55 -0.7 190,699 + EX31_RS08410 0.55 -0.0 190,699 + EX31_RS08410 0.55 +0.7 190,699 + EX31_RS08410 0.55 -0.1 190,699 + EX31_RS08410 0.55 +0.5 190,699 + EX31_RS08410 0.55 +0.6 190,699 + EX31_RS08410 0.55 +0.7 190,699 + EX31_RS08410 0.55 +0.3 190,699 + EX31_RS08410 0.55 +0.4 190,700 - EX31_RS08410 0.55 -0.4 190,700 - EX31_RS08410 0.55 +0.3 190,700 - EX31_RS08410 0.55 +0.6 190,700 - EX31_RS08410 0.55 -1.2 190,700 - EX31_RS08410 0.55 +0.2 190,700 - EX31_RS08410 0.55 -0.2 190,763 + EX31_RS08410 0.69 -0.3 190,764 - EX31_RS08410 0.69 +0.3 190,764 - EX31_RS08410 0.69 +0.0 190,789 - EX31_RS08410 0.75 +0.8 190,789 - EX31_RS08410 0.75 +0.7 190,789 - EX31_RS08410 0.75 -0.1 190,800 - EX31_RS08410 0.77 +1.1 190,879 - -0.3 190,897 + +0.3 190,898 - +0.1 190,948 + -0.2 190,949 - +0.2 190,949 - -0.4 191,030 + EX31_RS08415 0.22 -0.1 191,030 + EX31_RS08415 0.22 -2.0 191,031 - EX31_RS08415 0.22 -0.1 191,064 + EX31_RS08415 0.28 -0.8 191,064 + EX31_RS08415 0.28 -2.1 191,065 - EX31_RS08415 0.28 +0.4 191,065 - EX31_RS08415 0.28 -0.8 191,122 - EX31_RS08415 0.38 -0.2 191,122 - EX31_RS08415 0.38 +0.1 191,377 + EX31_RS08415 0.81 +1.0 191,377 + EX31_RS08415 0.81 +0.3 191,421 + EX31_RS08415 0.89 +0.8 191,421 + EX31_RS08415 0.89 -0.6 191,421 + EX31_RS08415 0.89 -0.7 191,422 - EX31_RS08415 0.89 +0.8 191,422 - EX31_RS08415 0.89 +0.2 191,422 - EX31_RS08415 0.89 +0.2
Or see this region's nucleotide sequence