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 GFF2438 and GFF2439 overlap by 4 nucleotides GFF2439 and GFF2440 are separated by 242 nucleotides GFF2440 and GFF2441 are separated by 73 nucleotides GFF2441 and GFF2442 are separated by 82 nucleotides
GFF2438 - hypothetical protein, at 228,097 to 229,386
GFF2438
GFF2439 - hypothetical protein, at 229,383 to 229,649
GFF2439
GFF2440 - Flagellin, at 229,892 to 230,752
GFF2440
GFF2441 - hypothetical protein, at 230,826 to 231,182
GFF2441
GFF2442 - B-type flagellar hook-associated protein 2, at 231,265 to 232,719
GFF2442
Position (kb) 229
230
231 Strain fitness (log2 ratio) -2
-1
0
1
2 at 228.937 kb on + strand, within GFF2438 at 228.937 kb on + strand, within GFF2438 at 228.937 kb on + strand, within GFF2438 at 228.962 kb on + strand, within GFF2438 at 228.962 kb on + strand, within GFF2438 at 228.963 kb on - strand, within GFF2438 at 229.015 kb on + strand, within GFF2438 at 229.015 kb on + strand, within GFF2438 at 229.037 kb on - strand, within GFF2438 at 229.270 kb on + strand at 229.271 kb on - strand at 229.291 kb on + strand at 229.291 kb on + strand at 229.291 kb on + strand at 229.291 kb on + strand at 229.291 kb on + strand at 229.291 kb on + strand at 229.292 kb on - strand at 229.292 kb on - strand at 229.292 kb on - strand at 229.293 kb on + strand at 229.294 kb on - strand at 229.294 kb on - strand at 229.294 kb on - strand at 229.480 kb on + strand, within GFF2439 at 229.480 kb on + strand, within GFF2439 at 229.480 kb on + strand, within GFF2439 at 229.480 kb on + strand, within GFF2439 at 229.481 kb on - strand, within GFF2439 at 229.481 kb on - strand, within GFF2439 at 229.498 kb on + strand, within GFF2439 at 229.498 kb on + strand, within GFF2439 at 229.499 kb on - strand, within GFF2439 at 229.499 kb on - strand, within GFF2439 at 229.499 kb on - strand, within GFF2439 at 229.499 kb on - strand, within GFF2439 at 229.499 kb on - strand, within GFF2439 at 229.499 kb on - strand, within GFF2439 at 229.499 kb on - strand, within GFF2439 at 229.602 kb on + strand, within GFF2439 at 229.602 kb on + strand, within GFF2439 at 229.602 kb on + strand, within GFF2439 at 229.602 kb on + strand, within GFF2439 at 229.603 kb on - strand, within GFF2439 at 229.603 kb on - strand, within GFF2439 at 229.603 kb on - strand, within GFF2439 at 229.603 kb on - strand, within GFF2439 at 229.604 kb on + strand, within GFF2439 at 229.605 kb on - strand, within GFF2439 at 229.605 kb on - strand, within GFF2439 at 229.696 kb on - strand at 229.696 kb on - strand at 229.696 kb on - strand at 229.728 kb on + strand at 229.728 kb on + strand at 229.810 kb on - strand at 229.810 kb on - strand at 229.810 kb on - strand at 229.813 kb on + strand at 229.813 kb on + strand at 229.813 kb on + strand at 229.814 kb on - strand at 229.814 kb on - strand at 229.814 kb on - strand at 229.814 kb on - strand at 229.814 kb on - strand at 229.814 kb on - strand at 229.829 kb on + strand at 229.899 kb on + strand at 229.900 kb on - strand at 229.905 kb on + strand at 229.905 kb on + strand at 230.050 kb on + strand, within GFF2440 at 230.050 kb on + strand, within GFF2440 at 230.050 kb on + strand, within GFF2440 at 230.050 kb on + strand, within GFF2440 at 230.050 kb on + strand, within GFF2440 at 230.051 kb on - strand, within GFF2440 at 230.051 kb on - strand, within GFF2440 at 230.051 kb on - strand, within GFF2440 at 230.051 kb on - strand, within GFF2440 at 230.051 kb on - strand, within GFF2440 at 230.051 kb on - strand, within GFF2440 at 230.051 kb on - strand, within GFF2440 at 230.104 kb on + strand, within GFF2440 at 230.104 kb on + strand, within GFF2440 at 230.104 kb on + strand, within GFF2440 at 230.104 kb on + strand, within GFF2440 at 230.105 kb on - strand, within GFF2440 at 230.105 kb on - strand, within GFF2440 at 230.105 kb on - strand, within GFF2440 at 230.164 kb on + strand, within GFF2440 at 230.182 kb on + strand, within GFF2440 at 230.278 kb on + strand, within GFF2440 at 230.278 kb on + strand, within GFF2440 at 230.279 kb on - strand, within GFF2440 at 230.279 kb on - strand, within GFF2440 at 230.320 kb on + strand, within GFF2440 at 230.321 kb on - strand, within GFF2440 at 230.321 kb on - strand, within GFF2440 at 230.376 kb on + strand, within GFF2440 at 230.377 kb on - strand, within GFF2440 at 230.412 kb on + strand, within GFF2440 at 230.412 kb on + strand, within GFF2440 at 230.413 kb on - strand, within GFF2440 at 230.413 kb on - strand, within GFF2440 at 230.422 kb on + strand, within GFF2440 at 230.422 kb on + strand, within GFF2440 at 230.422 kb on + strand, within GFF2440 at 230.427 kb on + strand, within GFF2440 at 230.427 kb on + strand, within GFF2440 at 230.427 kb on + strand, within GFF2440 at 230.427 kb on + strand, within GFF2440 at 230.428 kb on - strand, within GFF2440 at 230.428 kb on - strand, within GFF2440 at 230.428 kb on - strand, within GFF2440 at 230.428 kb on - strand, within GFF2440 at 230.428 kb on - strand, within GFF2440 at 230.440 kb on + strand, within GFF2440 at 230.440 kb on + strand, within GFF2440 at 230.625 kb on + strand, within GFF2440 at 230.626 kb on - strand, within GFF2440 at 230.701 kb on - strand at 230.733 kb on + strand at 230.750 kb on + strand at 230.751 kb on - strand at 230.761 kb on + strand at 230.762 kb on - strand at 230.768 kb on - strand at 230.768 kb on - strand at 230.811 kb on + strand at 230.839 kb on + strand at 230.839 kb on + strand at 230.846 kb on + strand at 230.847 kb on - strand at 230.847 kb on - strand at 230.847 kb on - strand at 230.910 kb on - strand, within GFF2441 at 230.910 kb on - strand, within GFF2441 at 230.992 kb on + strand, within GFF2441 at 230.992 kb on + strand, within GFF2441 at 230.993 kb on - strand, within GFF2441 at 230.993 kb on - strand, within GFF2441 at 231.020 kb on + strand, within GFF2441 at 231.020 kb on + strand, within GFF2441 at 231.021 kb on - strand, within GFF2441 at 231.021 kb on - strand, within GFF2441 at 231.021 kb on - strand, within GFF2441 at 231.125 kb on + strand, within GFF2441 at 231.125 kb on + strand, within GFF2441 at 231.126 kb on - strand, within GFF2441 at 231.183 kb on + strand at 231.196 kb on + strand at 231.197 kb on - strand at 231.224 kb on + strand at 231.281 kb on + strand at 231.375 kb on + strand at 231.381 kb on + strand at 231.382 kb on - strand at 231.382 kb on - strand at 231.382 kb on - strand at 231.382 kb on - strand at 231.382 kb on - strand at 231.565 kb on + strand, within GFF2442 at 231.565 kb on + strand, within GFF2442 at 231.565 kb on + strand, within GFF2442 at 231.566 kb on - strand, within GFF2442 at 231.566 kb on - strand, within GFF2442 at 231.566 kb on - strand, within GFF2442 at 231.566 kb on - strand, within GFF2442 at 231.685 kb on + strand, within GFF2442 at 231.685 kb on + strand, within GFF2442 at 231.685 kb on + strand, within GFF2442 at 231.685 kb on + strand, within GFF2442 at 231.685 kb on + strand, within GFF2442 at 231.686 kb on - strand, within GFF2442 at 231.686 kb on - strand, within GFF2442
Per-strain Table
Position Strand Gene LocusTag Fraction Mixed culture; Methylosinus sp. DMC45 1:1 with Pseudomonas_DMC3_ML3; dNMS with methane remove 228,937 + GFF2438 0.65 -0.5 228,937 + GFF2438 0.65 -0.5 228,937 + GFF2438 0.65 -0.6 228,962 + GFF2438 0.67 +0.0 228,962 + GFF2438 0.67 +0.6 228,963 - GFF2438 0.67 -0.2 229,015 + GFF2438 0.71 +0.7 229,015 + GFF2438 0.71 +0.7 229,037 - GFF2438 0.73 +0.3 229,270 + -2.3 229,271 - -1.1 229,291 + +0.0 229,291 + +0.2 229,291 + -0.0 229,291 + +0.7 229,291 + -0.4 229,291 + +0.3 229,292 - +1.2 229,292 - -0.8 229,292 - +0.8 229,293 + +1.5 229,294 - -0.7 229,294 - -0.9 229,294 - +0.4 229,480 + GFF2439 0.36 +1.5 229,480 + GFF2439 0.36 -0.8 229,480 + GFF2439 0.36 -0.4 229,480 + GFF2439 0.36 +0.8 229,481 - GFF2439 0.37 +0.5 229,481 - GFF2439 0.37 +0.4 229,498 + GFF2439 0.43 +1.1 229,498 + GFF2439 0.43 -1.0 229,499 - GFF2439 0.43 +0.4 229,499 - GFF2439 0.43 -0.5 229,499 - GFF2439 0.43 -0.7 229,499 - GFF2439 0.43 -0.5 229,499 - GFF2439 0.43 -0.1 229,499 - GFF2439 0.43 +0.2 229,499 - GFF2439 0.43 +1.5 229,602 + GFF2439 0.82 +1.2 229,602 + GFF2439 0.82 +0.3 229,602 + GFF2439 0.82 -1.2 229,602 + GFF2439 0.82 +0.2 229,603 - GFF2439 0.82 -0.3 229,603 - GFF2439 0.82 +0.7 229,603 - GFF2439 0.82 -0.0 229,603 - GFF2439 0.82 -0.5 229,604 + GFF2439 0.83 +0.1 229,605 - GFF2439 0.83 +0.9 229,605 - GFF2439 0.83 +0.4 229,696 - -0.8 229,696 - +1.1 229,696 - +2.0 229,728 + +0.5 229,728 + -0.9 229,810 - +0.5 229,810 - +0.5 229,810 - +1.3 229,813 + +0.3 229,813 + -0.8 229,813 + +0.4 229,814 - -0.9 229,814 - +0.1 229,814 - -0.7 229,814 - +0.2 229,814 - +0.1 229,814 - +1.5 229,829 + +0.6 229,899 + -0.1 229,900 - +0.2 229,905 + +1.3 229,905 + +0.5 230,050 + GFF2440 0.18 +0.2 230,050 + GFF2440 0.18 +0.3 230,050 + GFF2440 0.18 +0.6 230,050 + GFF2440 0.18 +2.6 230,050 + GFF2440 0.18 +0.3 230,051 - GFF2440 0.18 +1.1 230,051 - GFF2440 0.18 +0.1 230,051 - GFF2440 0.18 +0.9 230,051 - GFF2440 0.18 -0.4 230,051 - GFF2440 0.18 -0.3 230,051 - GFF2440 0.18 -1.9 230,051 - GFF2440 0.18 +0.7 230,104 + GFF2440 0.25 +0.7 230,104 + GFF2440 0.25 +0.5 230,104 + GFF2440 0.25 -1.2 230,104 + GFF2440 0.25 -0.2 230,105 - GFF2440 0.25 +1.0 230,105 - GFF2440 0.25 -0.3 230,105 - GFF2440 0.25 -0.0 230,164 + GFF2440 0.32 +1.5 230,182 + GFF2440 0.34 +1.5 230,278 + GFF2440 0.45 +0.1 230,278 + GFF2440 0.45 -0.1 230,279 - GFF2440 0.45 -0.4 230,279 - GFF2440 0.45 +0.2 230,320 + GFF2440 0.50 +0.1 230,321 - GFF2440 0.50 +0.8 230,321 - GFF2440 0.50 +0.5 230,376 + GFF2440 0.56 +0.3 230,377 - GFF2440 0.56 +0.3 230,412 + GFF2440 0.60 +1.5 230,412 + GFF2440 0.60 +0.4 230,413 - GFF2440 0.61 -0.9 230,413 - GFF2440 0.61 -0.1 230,422 + GFF2440 0.62 +1.0 230,422 + GFF2440 0.62 +0.5 230,422 + GFF2440 0.62 +0.8 230,427 + GFF2440 0.62 +0.9 230,427 + GFF2440 0.62 +0.0 230,427 + GFF2440 0.62 -0.1 230,427 + GFF2440 0.62 +0.7 230,428 - GFF2440 0.62 -1.1 230,428 - GFF2440 0.62 +0.4 230,428 - GFF2440 0.62 +0.9 230,428 - GFF2440 0.62 -0.3 230,428 - GFF2440 0.62 +0.7 230,440 + GFF2440 0.64 +1.8 230,440 + GFF2440 0.64 +0.6 230,625 + GFF2440 0.85 +0.1 230,626 - GFF2440 0.85 -0.7 230,701 - -0.3 230,733 + -0.3 230,750 + -0.3 230,751 - +0.4 230,761 + +0.6 230,762 - +1.8 230,768 - -0.6 230,768 - -0.1 230,811 + -1.8 230,839 + -1.3 230,839 + +0.5 230,846 + -0.7 230,847 - -0.6 230,847 - -1.1 230,847 - +0.0 230,910 - GFF2441 0.24 -0.5 230,910 - GFF2441 0.24 -0.6 230,992 + GFF2441 0.46 -0.4 230,992 + GFF2441 0.46 +1.1 230,993 - GFF2441 0.47 -1.3 230,993 - GFF2441 0.47 -1.1 231,020 + GFF2441 0.54 +0.1 231,020 + GFF2441 0.54 -0.3 231,021 - GFF2441 0.55 +0.1 231,021 - GFF2441 0.55 -1.9 231,021 - GFF2441 0.55 +0.3 231,125 + GFF2441 0.84 +0.3 231,125 + GFF2441 0.84 +0.2 231,126 - GFF2441 0.84 -0.7 231,183 + -0.9 231,196 + +1.2 231,197 - -0.9 231,224 + -0.5 231,281 + -0.1 231,375 + -0.8 231,381 + -0.1 231,382 - +0.6 231,382 - +1.3 231,382 - -0.3 231,382 - +0.3 231,382 - +0.7 231,565 + GFF2442 0.21 +0.1 231,565 + GFF2442 0.21 +0.1 231,565 + GFF2442 0.21 -0.1 231,566 - GFF2442 0.21 +1.3 231,566 - GFF2442 0.21 +0.5 231,566 - GFF2442 0.21 -0.7 231,566 - GFF2442 0.21 -0.6 231,685 + GFF2442 0.29 -0.5 231,685 + GFF2442 0.29 -0.9 231,685 + GFF2442 0.29 -0.2 231,685 + GFF2442 0.29 +1.6 231,685 + GFF2442 0.29 -1.2 231,686 - GFF2442 0.29 +0.1 231,686 - GFF2442 0.29 +1.8
Or see this region's nucleotide sequence