Experiment: Mixed culture; Methylosinus sp. DMC45 1:1 with Pseudomonas_DMC3_ML3; dNMS with methane
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 GFF2888 and GFF2889 overlap by 4 nucleotides GFF2889 and GFF2890 overlap by 1 nucleotides GFF2890 and GFF2891 are separated by 265 nucleotides GFF2891 and GFF2892 are separated by 118 nucleotides
GFF2888 - Protein-glutamate methylesterase/protein-glutamine glutaminase, at 253,287 to 253,880
GFF2888
GFF2889 - Chemotaxis protein methyltransferase, at 253,877 to 254,710
GFF2889
GFF2890 - Sensor histidine kinase RcsC, at 254,710 to 258,183
GFF2890
GFF2891 - Sensor kinase CckA, at 258,449 to 258,808
GFF2891
GFF2892 - hypothetical protein, at 258,927 to 260,231
GFF2892
Position (kb) 254
255
256
257
258
259 Strain fitness (log2 ratio) -3
-2
-1
0
1 at 253.774 kb on + strand, within GFF2888 at 253.774 kb on + strand, within GFF2888 at 253.774 kb on + strand, within GFF2888 at 253.775 kb on - strand, within GFF2888 at 253.932 kb on + strand at 253.932 kb on + strand at 253.932 kb on + strand at 253.933 kb on - strand at 253.933 kb on - strand at 254.040 kb on + strand, within GFF2889 at 254.041 kb on - strand, within GFF2889 at 254.041 kb on - strand, within GFF2889 at 254.172 kb on + strand, within GFF2889 at 254.173 kb on - strand, within GFF2889 at 254.175 kb on + strand, within GFF2889 at 254.211 kb on + strand, within GFF2889 at 254.211 kb on + strand, within GFF2889 at 254.224 kb on - strand, within GFF2889 at 254.298 kb on + strand, within GFF2889 at 254.299 kb on - strand, within GFF2889 at 254.403 kb on + strand, within GFF2889 at 254.403 kb on + strand, within GFF2889 at 254.403 kb on + strand, within GFF2889 at 254.403 kb on + strand, within GFF2889 at 254.403 kb on + strand, within GFF2889 at 254.407 kb on + strand, within GFF2889 at 254.407 kb on + strand, within GFF2889 at 254.407 kb on + strand, within GFF2889 at 254.407 kb on + strand, within GFF2889 at 254.407 kb on + strand, within GFF2889 at 254.407 kb on + strand, within GFF2889 at 254.613 kb on + strand, within GFF2889 at 254.613 kb on + strand, within GFF2889 at 254.614 kb on - strand, within GFF2889 at 254.628 kb on + strand at 254.628 kb on + strand at 254.628 kb on + strand at 254.629 kb on - strand at 254.629 kb on - strand at 254.629 kb on - strand at 254.629 kb on - strand at 254.629 kb on - strand at 254.629 kb on - strand at 254.629 kb on - strand at 254.634 kb on + strand at 254.634 kb on + strand at 254.634 kb on + strand at 254.634 kb on + strand at 254.634 kb on + strand at 254.634 kb on + strand at 254.635 kb on - strand at 254.635 kb on - strand at 254.635 kb on - strand at 254.635 kb on - strand at 254.666 kb on + strand at 254.666 kb on + strand at 254.711 kb on + strand at 254.712 kb on - strand at 254.712 kb on - strand at 254.712 kb on - strand at 254.712 kb on - strand at 254.743 kb on + strand at 254.743 kb on + strand at 254.744 kb on - strand at 254.744 kb on - strand at 254.744 kb on - strand at 254.744 kb on - strand at 254.744 kb on - strand at 254.744 kb on - strand at 254.786 kb on + strand at 254.787 kb on - strand at 254.929 kb on + strand at 254.929 kb on + strand at 254.929 kb on + strand at 254.929 kb on + strand at 254.929 kb on + strand at 254.929 kb on + strand at 254.929 kb on + strand at 254.929 kb on + strand at 254.929 kb on + strand at 254.930 kb on - strand at 254.930 kb on - strand at 254.930 kb on - strand at 254.930 kb on - strand at 254.930 kb on - strand at 254.930 kb on - strand at 254.930 kb on - strand at 254.930 kb on - strand at 254.930 kb on - strand at 254.930 kb on - strand at 255.239 kb on + strand, within GFF2890 at 255.240 kb on - strand, within GFF2890 at 255.240 kb on - strand, within GFF2890 at 255.287 kb on + strand, within GFF2890 at 255.287 kb on + strand, within GFF2890 at 255.392 kb on + strand, within GFF2890 at 255.392 kb on + strand, within GFF2890 at 255.392 kb on + strand, within GFF2890 at 255.392 kb on + strand, within GFF2890 at 255.392 kb on + strand, within GFF2890 at 255.392 kb on + strand, within GFF2890 at 255.392 kb on + strand, within GFF2890 at 255.392 kb on + strand, within GFF2890 at 255.392 kb on + strand, within GFF2890 at 255.393 kb on - strand, within GFF2890 at 255.393 kb on - strand, within GFF2890 at 255.393 kb on - strand, within GFF2890 at 255.393 kb on - strand, within GFF2890 at 255.818 kb on + strand, within GFF2890 at 255.818 kb on + strand, within GFF2890 at 255.818 kb on + strand, within GFF2890 at 255.819 kb on - strand, within GFF2890 at 255.819 kb on - strand, within GFF2890 at 255.819 kb on - strand, within GFF2890 at 255.819 kb on - strand, within GFF2890 at 255.842 kb on + strand, within GFF2890 at 255.842 kb on + strand, within GFF2890 at 255.843 kb on - strand, within GFF2890 at 255.843 kb on - strand, within GFF2890 at 255.843 kb on - strand, within GFF2890 at 255.936 kb on + strand, within GFF2890 at 256.046 kb on + strand, within GFF2890 at 256.047 kb on - strand, within GFF2890 at 256.068 kb on + strand, within GFF2890 at 256.069 kb on - strand, within GFF2890 at 256.069 kb on - strand, within GFF2890 at 256.170 kb on - strand, within GFF2890 at 256.215 kb on + strand, within GFF2890 at 256.590 kb on - strand, within GFF2890 at 256.727 kb on + strand, within GFF2890 at 256.727 kb on + strand, within GFF2890 at 256.727 kb on + strand, within GFF2890 at 256.727 kb on + strand, within GFF2890 at 256.727 kb on + strand, within GFF2890 at 256.727 kb on + strand, within GFF2890 at 256.728 kb on - strand, within GFF2890 at 256.728 kb on - strand, within GFF2890 at 256.728 kb on - strand, within GFF2890 at 257.195 kb on + strand, within GFF2890 at 257.270 kb on + strand, within GFF2890 at 257.270 kb on + strand, within GFF2890 at 257.270 kb on + strand, within GFF2890 at 257.270 kb on + strand, within GFF2890 at 257.271 kb on - strand, within GFF2890 at 257.271 kb on - strand, within GFF2890 at 257.271 kb on - strand, within GFF2890 at 257.312 kb on + strand, within GFF2890 at 257.312 kb on + strand, within GFF2890 at 257.313 kb on - strand, within GFF2890 at 257.313 kb on - strand, within GFF2890 at 257.354 kb on + strand, within GFF2890 at 257.354 kb on + strand, within GFF2890 at 257.355 kb on - strand, within GFF2890 at 257.355 kb on - strand, within GFF2890 at 257.381 kb on + strand, within GFF2890 at 257.381 kb on + strand, within GFF2890 at 257.382 kb on - strand, within GFF2890 at 257.382 kb on - strand, within GFF2890 at 257.382 kb on - strand, within GFF2890 at 257.382 kb on - strand, within GFF2890 at 257.382 kb on - strand, within GFF2890 at 257.404 kb on - strand, within GFF2890 at 257.534 kb on + strand, within GFF2890 at 257.534 kb on + strand, within GFF2890 at 257.535 kb on - strand, within GFF2890 at 257.535 kb on - strand, within GFF2890 at 257.535 kb on - strand, within GFF2890 at 257.573 kb on + strand, within GFF2890 at 257.573 kb on + strand, within GFF2890 at 257.573 kb on + strand, within GFF2890 at 257.573 kb on + strand, within GFF2890 at 257.573 kb on + strand, within GFF2890 at 257.573 kb on + strand, within GFF2890 at 257.574 kb on - strand, within GFF2890 at 257.574 kb on - strand, within GFF2890 at 257.574 kb on - strand, within GFF2890 at 257.612 kb on + strand, within GFF2890 at 257.612 kb on + strand, within GFF2890 at 257.613 kb on - strand, within GFF2890 at 257.790 kb on + strand, within GFF2890 at 257.790 kb on + strand, within GFF2890 at 257.791 kb on - strand, within GFF2890 at 257.791 kb on - strand, within GFF2890 at 257.791 kb on - strand, within GFF2890 at 257.801 kb on + strand, within GFF2890 at 257.886 kb on + strand at 257.886 kb on + strand at 257.886 kb on + strand at 257.886 kb on + strand at 257.886 kb on + strand at 257.886 kb on + strand at 257.887 kb on - strand at 257.887 kb on - strand at 257.887 kb on - strand at 257.887 kb on - strand at 258.065 kb on + strand at 258.065 kb on + strand at 258.065 kb on + strand at 258.065 kb on + strand at 258.065 kb on + strand at 258.065 kb on + strand at 258.066 kb on - strand at 258.066 kb on - strand at 258.066 kb on - strand at 258.066 kb on - strand at 258.066 kb on - strand at 258.066 kb on - strand at 258.346 kb on + strand at 258.368 kb on + strand at 258.379 kb on + strand at 258.380 kb on - strand at 258.380 kb on - strand at 258.469 kb on + strand at 258.469 kb on + strand at 258.480 kb on + strand at 258.480 kb on + strand at 258.596 kb on - strand, within GFF2891 at 258.777 kb on + strand at 258.806 kb on + strand at 258.806 kb on + strand at 258.806 kb on + strand at 258.806 kb on + strand at 258.807 kb on - strand at 258.821 kb on - strand at 258.967 kb on - strand at 258.967 kb on - strand at 259.121 kb on - strand, within GFF2892 at 259.121 kb on - strand, within GFF2892
Per-strain Table
Position Strand Gene LocusTag Fraction Mixed culture; Methylosinus sp. DMC45 1:1 with Pseudomonas_DMC3_ML3; dNMS with methane remove 253,774 + GFF2888 0.82 -0.4 253,774 + GFF2888 0.82 +0.5 253,774 + GFF2888 0.82 -0.3 253,775 - GFF2888 0.82 -0.1 253,932 + +0.8 253,932 + -0.8 253,932 + +1.1 253,933 - +0.0 253,933 - -0.0 254,040 + GFF2889 0.20 +0.4 254,041 - GFF2889 0.20 +0.4 254,041 - GFF2889 0.20 +0.7 254,172 + GFF2889 0.35 -0.6 254,173 - GFF2889 0.35 +0.1 254,175 + GFF2889 0.36 +0.1 254,211 + GFF2889 0.40 +0.3 254,211 + GFF2889 0.40 +0.2 254,224 - GFF2889 0.42 +1.1 254,298 + GFF2889 0.50 -0.4 254,299 - GFF2889 0.51 -0.5 254,403 + GFF2889 0.63 +0.1 254,403 + GFF2889 0.63 -0.1 254,403 + GFF2889 0.63 -0.8 254,403 + GFF2889 0.63 -1.2 254,403 + GFF2889 0.63 -0.3 254,407 + GFF2889 0.64 -0.5 254,407 + GFF2889 0.64 -1.3 254,407 + GFF2889 0.64 +0.8 254,407 + GFF2889 0.64 -0.5 254,407 + GFF2889 0.64 +0.4 254,407 + GFF2889 0.64 +0.2 254,613 + GFF2889 0.88 -0.7 254,613 + GFF2889 0.88 -0.0 254,614 - GFF2889 0.88 -0.9 254,628 + -0.3 254,628 + +0.3 254,628 + -0.1 254,629 - -0.8 254,629 - +0.4 254,629 - +0.0 254,629 - -0.8 254,629 - -0.3 254,629 - -0.2 254,629 - -0.6 254,634 + -0.5 254,634 + +0.4 254,634 + +0.1 254,634 + +0.3 254,634 + -0.1 254,634 + -0.8 254,635 - -0.2 254,635 - -0.3 254,635 - +0.8 254,635 - +0.1 254,666 + +0.4 254,666 + +0.1 254,711 + -0.2 254,712 - -0.1 254,712 - +0.2 254,712 - +0.3 254,712 - +0.7 254,743 + +0.7 254,743 + -0.7 254,744 - -1.8 254,744 - -0.7 254,744 - -1.4 254,744 - -0.2 254,744 - +0.4 254,744 - +0.4 254,786 + +0.1 254,787 - -0.2 254,929 + +0.2 254,929 + -0.8 254,929 + -0.2 254,929 + +0.0 254,929 + +0.6 254,929 + -0.0 254,929 + +0.9 254,929 + -0.7 254,929 + -0.6 254,930 - -0.0 254,930 - +1.1 254,930 - +0.4 254,930 - -0.3 254,930 - -0.0 254,930 - -0.5 254,930 - +0.1 254,930 - +1.3 254,930 - +0.6 254,930 - +0.2 255,239 + GFF2890 0.15 -0.9 255,240 - GFF2890 0.15 +0.1 255,240 - GFF2890 0.15 +0.2 255,287 + GFF2890 0.17 -0.4 255,287 + GFF2890 0.17 +0.1 255,392 + GFF2890 0.20 -0.1 255,392 + GFF2890 0.20 +0.9 255,392 + GFF2890 0.20 +0.5 255,392 + GFF2890 0.20 +0.6 255,392 + GFF2890 0.20 -0.0 255,392 + GFF2890 0.20 -0.1 255,392 + GFF2890 0.20 +0.4 255,392 + GFF2890 0.20 -0.4 255,392 + GFF2890 0.20 -1.2 255,393 - GFF2890 0.20 +0.8 255,393 - GFF2890 0.20 +0.6 255,393 - GFF2890 0.20 +0.2 255,393 - GFF2890 0.20 -0.9 255,818 + GFF2890 0.32 -1.3 255,818 + GFF2890 0.32 +0.0 255,818 + GFF2890 0.32 +0.4 255,819 - GFF2890 0.32 -0.7 255,819 - GFF2890 0.32 +0.1 255,819 - GFF2890 0.32 +0.4 255,819 - GFF2890 0.32 +1.0 255,842 + GFF2890 0.33 +0.6 255,842 + GFF2890 0.33 -0.6 255,843 - GFF2890 0.33 -0.2 255,843 - GFF2890 0.33 -0.1 255,843 - GFF2890 0.33 -1.0 255,936 + GFF2890 0.35 -0.6 256,046 + GFF2890 0.38 -0.9 256,047 - GFF2890 0.38 -0.7 256,068 + GFF2890 0.39 -0.9 256,069 - GFF2890 0.39 -0.3 256,069 - GFF2890 0.39 +0.6 256,170 - GFF2890 0.42 +1.3 256,215 + GFF2890 0.43 -0.7 256,590 - GFF2890 0.54 -0.6 256,727 + GFF2890 0.58 -0.2 256,727 + GFF2890 0.58 -0.2 256,727 + GFF2890 0.58 -1.1 256,727 + GFF2890 0.58 -0.9 256,727 + GFF2890 0.58 -0.8 256,727 + GFF2890 0.58 -2.9 256,728 - GFF2890 0.58 +0.6 256,728 - GFF2890 0.58 -0.4 256,728 - GFF2890 0.58 -1.2 257,195 + GFF2890 0.72 -0.1 257,270 + GFF2890 0.74 -1.5 257,270 + GFF2890 0.74 +0.0 257,270 + GFF2890 0.74 +0.2 257,270 + GFF2890 0.74 -0.3 257,271 - GFF2890 0.74 -0.5 257,271 - GFF2890 0.74 -0.1 257,271 - GFF2890 0.74 -0.4 257,312 + GFF2890 0.75 -0.7 257,312 + GFF2890 0.75 +1.1 257,313 - GFF2890 0.75 -0.3 257,313 - GFF2890 0.75 -0.8 257,354 + GFF2890 0.76 +0.5 257,354 + GFF2890 0.76 -0.4 257,355 - GFF2890 0.76 +0.8 257,355 - GFF2890 0.76 -0.5 257,381 + GFF2890 0.77 -0.1 257,381 + GFF2890 0.77 +0.4 257,382 - GFF2890 0.77 -0.3 257,382 - GFF2890 0.77 +0.9 257,382 - GFF2890 0.77 +0.7 257,382 - GFF2890 0.77 -0.1 257,382 - GFF2890 0.77 -0.0 257,404 - GFF2890 0.78 -0.5 257,534 + GFF2890 0.81 +0.1 257,534 + GFF2890 0.81 -0.1 257,535 - GFF2890 0.81 -0.0 257,535 - GFF2890 0.81 -0.9 257,535 - GFF2890 0.81 -0.2 257,573 + GFF2890 0.82 -0.3 257,573 + GFF2890 0.82 -0.1 257,573 + GFF2890 0.82 -1.4 257,573 + GFF2890 0.82 -0.8 257,573 + GFF2890 0.82 -2.2 257,573 + GFF2890 0.82 +0.7 257,574 - GFF2890 0.82 +0.2 257,574 - GFF2890 0.82 +1.1 257,574 - GFF2890 0.82 -1.7 257,612 + GFF2890 0.84 +0.4 257,612 + GFF2890 0.84 +0.8 257,613 - GFF2890 0.84 -0.5 257,790 + GFF2890 0.89 -0.6 257,790 + GFF2890 0.89 +0.5 257,791 - GFF2890 0.89 -0.8 257,791 - GFF2890 0.89 -0.2 257,791 - GFF2890 0.89 -0.1 257,801 + GFF2890 0.89 +0.8 257,886 + +0.3 257,886 + +0.6 257,886 + +1.1 257,886 + +0.4 257,886 + +0.6 257,886 + -0.5 257,887 - -0.5 257,887 - +0.2 257,887 - +0.7 257,887 - +0.3 258,065 + -0.1 258,065 + +0.1 258,065 + +0.3 258,065 + -1.8 258,065 + -1.8 258,065 + +0.2 258,066 - +0.7 258,066 - -0.4 258,066 - -1.1 258,066 - -0.3 258,066 - -0.4 258,066 - +0.5 258,346 + +0.2 258,368 + -0.5 258,379 + +0.3 258,380 - -2.2 258,380 - +0.8 258,469 + +0.0 258,469 + +0.1 258,480 + +0.5 258,480 + +1.7 258,596 - GFF2891 0.41 -0.9 258,777 + +0.0 258,806 + -0.3 258,806 + -0.2 258,806 + -0.9 258,806 + -1.3 258,807 - -0.6 258,821 - -0.2 258,967 - -0.5 258,967 - -0.3 259,121 - GFF2892 0.15 -0.3 259,121 - GFF2892 0.15 -0.2
Or see this region's nucleotide sequence