Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS16425

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse9; day5

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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.

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500 ntHMPREF1058_RS16430 and HMPREF1058_RS16425 are separated by 15 nucleotidesHMPREF1058_RS16425 and HMPREF1058_RS16420 are separated by 19 nucleotides HMPREF1058_RS16430: HMPREF1058_RS16430 - FecR domain-containing protein, at 670,722 to 671,891 _RS16430 HMPREF1058_RS16425: HMPREF1058_RS16425 - TonB-dependent receptor, at 671,907 to 675,260 _RS16425 HMPREF1058_RS16420: HMPREF1058_RS16420 - RagB/SusD family nutrient uptake outer membrane protein, at 675,280 to 676,728 _RS16420 Position (kb) 671 672 673 674 675 676Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1 2 3at 670.971 kb on - strand, within HMPREF1058_RS16430at 670.982 kb on - strand, within HMPREF1058_RS16430at 670.982 kb on - strand, within HMPREF1058_RS16430at 670.986 kb on + strand, within HMPREF1058_RS16430at 671.006 kb on - strand, within HMPREF1058_RS16430at 671.141 kb on + strand, within HMPREF1058_RS16430at 671.144 kb on - strand, within HMPREF1058_RS16430at 671.177 kb on - strand, within HMPREF1058_RS16430at 671.204 kb on + strand, within HMPREF1058_RS16430at 671.205 kb on - strand, within HMPREF1058_RS16430at 671.224 kb on + strand, within HMPREF1058_RS16430at 671.224 kb on + strand, within HMPREF1058_RS16430at 671.257 kb on + strand, within HMPREF1058_RS16430at 671.262 kb on - strand, within HMPREF1058_RS16430at 671.265 kb on - strand, within HMPREF1058_RS16430at 671.292 kb on + strand, within HMPREF1058_RS16430at 671.293 kb on - strand, within HMPREF1058_RS16430at 671.299 kb on + strand, within HMPREF1058_RS16430at 671.299 kb on + strand, within HMPREF1058_RS16430at 671.300 kb on - strand, within HMPREF1058_RS16430at 671.300 kb on - strand, within HMPREF1058_RS16430at 671.305 kb on + strand, within HMPREF1058_RS16430at 671.406 kb on + strand, within HMPREF1058_RS16430at 671.439 kb on - strand, within HMPREF1058_RS16430at 671.439 kb on - strand, within HMPREF1058_RS16430at 671.440 kb on + strand, within HMPREF1058_RS16430at 671.440 kb on + strand, within HMPREF1058_RS16430at 671.441 kb on - strand, within HMPREF1058_RS16430at 671.442 kb on - strand, within HMPREF1058_RS16430at 671.623 kb on + strand, within HMPREF1058_RS16430at 671.629 kb on + strand, within HMPREF1058_RS16430at 671.666 kb on - strand, within HMPREF1058_RS16430at 671.791 kb on + strandat 671.883 kb on + strandat 671.884 kb on - strandat 671.907 kb on - strandat 671.926 kb on - strandat 671.945 kb on + strandat 672.105 kb on - strandat 672.140 kb on - strandat 672.160 kb on + strandat 672.246 kb on - strand, within HMPREF1058_RS16425at 672.348 kb on - strand, within HMPREF1058_RS16425at 672.365 kb on + strand, within HMPREF1058_RS16425at 672.406 kb on + strand, within HMPREF1058_RS16425at 672.406 kb on + strand, within HMPREF1058_RS16425at 672.407 kb on - strand, within HMPREF1058_RS16425at 672.413 kb on - strand, within HMPREF1058_RS16425at 672.413 kb on - strand, within HMPREF1058_RS16425at 672.419 kb on + strand, within HMPREF1058_RS16425at 672.421 kb on + strand, within HMPREF1058_RS16425at 672.444 kb on + strand, within HMPREF1058_RS16425at 672.445 kb on - strand, within HMPREF1058_RS16425at 672.445 kb on - strand, within HMPREF1058_RS16425at 672.448 kb on + strand, within HMPREF1058_RS16425at 672.449 kb on - strand, within HMPREF1058_RS16425at 672.449 kb on - strand, within HMPREF1058_RS16425at 672.449 kb on - strand, within HMPREF1058_RS16425at 672.490 kb on + strand, within HMPREF1058_RS16425at 672.737 kb on + strand, within HMPREF1058_RS16425at 672.737 kb on + strand, within HMPREF1058_RS16425at 672.746 kb on + strand, within HMPREF1058_RS16425at 672.759 kb on + strand, within HMPREF1058_RS16425at 672.759 kb on + strand, within HMPREF1058_RS16425at 672.764 kb on - strand, within HMPREF1058_RS16425at 672.764 kb on - strand, within HMPREF1058_RS16425at 672.803 kb on + strand, within HMPREF1058_RS16425at 672.830 kb on + strand, within HMPREF1058_RS16425at 672.865 kb on + strand, within HMPREF1058_RS16425at 672.865 kb on + strand, within HMPREF1058_RS16425at 672.865 kb on + strand, within HMPREF1058_RS16425at 672.865 kb on + strand, within HMPREF1058_RS16425at 672.875 kb on + strand, within HMPREF1058_RS16425at 672.926 kb on - strand, within HMPREF1058_RS16425at 672.933 kb on - strand, within HMPREF1058_RS16425at 672.933 kb on - strand, within HMPREF1058_RS16425at 672.935 kb on + strand, within HMPREF1058_RS16425at 673.067 kb on - strand, within HMPREF1058_RS16425at 673.116 kb on + strand, within HMPREF1058_RS16425at 673.118 kb on - strand, within HMPREF1058_RS16425at 673.262 kb on + strand, within HMPREF1058_RS16425at 673.263 kb on - strand, within HMPREF1058_RS16425at 673.274 kb on - strand, within HMPREF1058_RS16425at 673.313 kb on + strand, within HMPREF1058_RS16425at 673.314 kb on - strand, within HMPREF1058_RS16425at 673.327 kb on + strand, within HMPREF1058_RS16425at 673.327 kb on + strand, within HMPREF1058_RS16425at 673.404 kb on + strand, within HMPREF1058_RS16425at 673.405 kb on - strand, within HMPREF1058_RS16425at 673.423 kb on - strand, within HMPREF1058_RS16425at 673.438 kb on - strand, within HMPREF1058_RS16425at 673.438 kb on - strand, within HMPREF1058_RS16425at 673.476 kb on + strand, within HMPREF1058_RS16425at 673.477 kb on - strand, within HMPREF1058_RS16425at 673.527 kb on + strand, within HMPREF1058_RS16425at 673.535 kb on - strand, within HMPREF1058_RS16425at 673.549 kb on - strand, within HMPREF1058_RS16425at 673.650 kb on + strand, within HMPREF1058_RS16425at 673.650 kb on + strand, within HMPREF1058_RS16425at 673.773 kb on + strand, within HMPREF1058_RS16425at 673.773 kb on + strand, within HMPREF1058_RS16425at 673.773 kb on + strand, within HMPREF1058_RS16425at 673.773 kb on + strand, within HMPREF1058_RS16425at 673.782 kb on - strand, within HMPREF1058_RS16425at 673.785 kb on - strand, within HMPREF1058_RS16425at 673.785 kb on - strand, within HMPREF1058_RS16425at 673.849 kb on - strand, within HMPREF1058_RS16425at 673.954 kb on + strand, within HMPREF1058_RS16425at 673.954 kb on + strand, within HMPREF1058_RS16425at 673.954 kb on + strand, within HMPREF1058_RS16425at 673.955 kb on - strand, within HMPREF1058_RS16425at 673.959 kb on + strand, within HMPREF1058_RS16425at 673.960 kb on - strand, within HMPREF1058_RS16425at 673.977 kb on + strand, within HMPREF1058_RS16425at 673.977 kb on + strand, within HMPREF1058_RS16425at 674.010 kb on - strand, within HMPREF1058_RS16425at 674.074 kb on + strand, within HMPREF1058_RS16425at 674.090 kb on + strand, within HMPREF1058_RS16425at 674.157 kb on + strandat 674.158 kb on - strand, within HMPREF1058_RS16425at 674.158 kb on - strand, within HMPREF1058_RS16425at 674.199 kb on - strand, within HMPREF1058_RS16425at 674.243 kb on + strand, within HMPREF1058_RS16425at 674.275 kb on + strand, within HMPREF1058_RS16425at 674.301 kb on - strand, within HMPREF1058_RS16425at 674.334 kb on - strand, within HMPREF1058_RS16425at 674.394 kb on - strand, within HMPREF1058_RS16425at 674.422 kb on - strand, within HMPREF1058_RS16425at 674.427 kb on - strand, within HMPREF1058_RS16425at 674.483 kb on + strand, within HMPREF1058_RS16425at 674.486 kb on - strand, within HMPREF1058_RS16425at 674.492 kb on + strand, within HMPREF1058_RS16425at 674.632 kb on + strand, within HMPREF1058_RS16425at 674.632 kb on + strand, within HMPREF1058_RS16425at 674.633 kb on - strand, within HMPREF1058_RS16425at 674.676 kb on + strand, within HMPREF1058_RS16425at 674.708 kb on + strand, within HMPREF1058_RS16425at 674.709 kb on - strand, within HMPREF1058_RS16425at 674.710 kb on + strand, within HMPREF1058_RS16425at 674.711 kb on - strand, within HMPREF1058_RS16425at 674.711 kb on - strand, within HMPREF1058_RS16425at 674.732 kb on + strand, within HMPREF1058_RS16425at 674.755 kb on + strand, within HMPREF1058_RS16425at 674.759 kb on + strand, within HMPREF1058_RS16425at 674.791 kb on + strand, within HMPREF1058_RS16425at 674.803 kb on + strand, within HMPREF1058_RS16425at 674.811 kb on - strand, within HMPREF1058_RS16425at 674.906 kb on - strand, within HMPREF1058_RS16425at 674.918 kb on - strand, within HMPREF1058_RS16425at 675.088 kb on + strandat 675.110 kb on + strandat 675.111 kb on - strandat 675.118 kb on + strandat 675.119 kb on - strandat 675.124 kb on + strandat 675.124 kb on + strandat 675.124 kb on + strandat 675.124 kb on + strandat 675.125 kb on - strandat 675.126 kb on + strandat 675.171 kb on + strandat 675.171 kb on + strandat 675.171 kb on + strandat 675.292 kb on - strandat 675.316 kb on - strandat 675.477 kb on - strand, within HMPREF1058_RS16420at 675.516 kb on - strand, within HMPREF1058_RS16420at 675.542 kb on - strand, within HMPREF1058_RS16420at 675.603 kb on + strand, within HMPREF1058_RS16420at 675.643 kb on - strand, within HMPREF1058_RS16420at 675.651 kb on + strand, within HMPREF1058_RS16420at 675.652 kb on - strand, within HMPREF1058_RS16420at 675.654 kb on - strand, within HMPREF1058_RS16420at 675.674 kb on - strand, within HMPREF1058_RS16420at 675.804 kb on - strand, within HMPREF1058_RS16420at 675.811 kb on - strand, within HMPREF1058_RS16420at 675.811 kb on - strand, within HMPREF1058_RS16420at 675.813 kb on - strand, within HMPREF1058_RS16420at 675.834 kb on + strand, within HMPREF1058_RS16420at 675.834 kb on + strand, within HMPREF1058_RS16420at 675.835 kb on - strand, within HMPREF1058_RS16420at 675.906 kb on + strand, within HMPREF1058_RS16420at 675.936 kb on + strand, within HMPREF1058_RS16420at 675.959 kb on - strand, within HMPREF1058_RS16420at 675.959 kb on - strand, within HMPREF1058_RS16420at 675.962 kb on + strand, within HMPREF1058_RS16420at 675.966 kb on + strand, within HMPREF1058_RS16420at 675.966 kb on + strand, within HMPREF1058_RS16420at 676.197 kb on + strand, within HMPREF1058_RS16420at 676.201 kb on - strand, within HMPREF1058_RS16420

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse9; day5
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670,971 - HMPREF1058_RS16430 0.21 -3.6
670,982 - HMPREF1058_RS16430 0.22 -3.2
670,982 - HMPREF1058_RS16430 0.22 -1.6
670,986 + HMPREF1058_RS16430 0.23 -3.6
671,006 - HMPREF1058_RS16430 0.24 -1.1
671,141 + HMPREF1058_RS16430 0.36 -0.1
671,144 - HMPREF1058_RS16430 0.36 -2.1
671,177 - HMPREF1058_RS16430 0.39 -4.4
671,204 + HMPREF1058_RS16430 0.41 -1.1
671,205 - HMPREF1058_RS16430 0.41 -1.6
671,224 + HMPREF1058_RS16430 0.43 -0.1
671,224 + HMPREF1058_RS16430 0.43 -1.4
671,257 + HMPREF1058_RS16430 0.46 +0.1
671,262 - HMPREF1058_RS16430 0.46 -0.2
671,265 - HMPREF1058_RS16430 0.46 -1.5
671,292 + HMPREF1058_RS16430 0.49 -2.3
671,293 - HMPREF1058_RS16430 0.49 -2.0
671,299 + HMPREF1058_RS16430 0.49 -1.6
671,299 + HMPREF1058_RS16430 0.49 +0.5
671,300 - HMPREF1058_RS16430 0.49 -1.4
671,300 - HMPREF1058_RS16430 0.49 -3.7
671,305 + HMPREF1058_RS16430 0.50 -2.9
671,406 + HMPREF1058_RS16430 0.58 +0.5
671,439 - HMPREF1058_RS16430 0.61 -4.0
671,439 - HMPREF1058_RS16430 0.61 -1.7
671,440 + HMPREF1058_RS16430 0.61 +1.1
671,440 + HMPREF1058_RS16430 0.61 +1.3
671,441 - HMPREF1058_RS16430 0.61 -2.1
671,442 - HMPREF1058_RS16430 0.62 -0.1
671,623 + HMPREF1058_RS16430 0.77 +2.5
671,629 + HMPREF1058_RS16430 0.78 -0.1
671,666 - HMPREF1058_RS16430 0.81 -1.1
671,791 + +1.5
671,883 + -1.8
671,884 - -5.3
671,907 - -2.1
671,926 - -0.1
671,945 + -2.2
672,105 - -0.1
672,140 - -1.1
672,160 + -1.3
672,246 - HMPREF1058_RS16425 0.10 -2.7
672,348 - HMPREF1058_RS16425 0.13 -1.3
672,365 + HMPREF1058_RS16425 0.14 -2.8
672,406 + HMPREF1058_RS16425 0.15 -1.1
672,406 + HMPREF1058_RS16425 0.15 -4.8
672,407 - HMPREF1058_RS16425 0.15 -3.9
672,413 - HMPREF1058_RS16425 0.15 -2.1
672,413 - HMPREF1058_RS16425 0.15 -0.8
672,419 + HMPREF1058_RS16425 0.15 -0.1
672,421 + HMPREF1058_RS16425 0.15 -2.3
672,444 + HMPREF1058_RS16425 0.16 -1.8
672,445 - HMPREF1058_RS16425 0.16 -2.1
672,445 - HMPREF1058_RS16425 0.16 -0.1
672,448 + HMPREF1058_RS16425 0.16 -2.4
672,449 - HMPREF1058_RS16425 0.16 -1.1
672,449 - HMPREF1058_RS16425 0.16 -3.2
672,449 - HMPREF1058_RS16425 0.16 -2.1
672,490 + HMPREF1058_RS16425 0.17 -1.6
672,737 + HMPREF1058_RS16425 0.25 -1.6
672,737 + HMPREF1058_RS16425 0.25 -1.4
672,746 + HMPREF1058_RS16425 0.25 -2.5
672,759 + HMPREF1058_RS16425 0.25 -2.4
672,759 + HMPREF1058_RS16425 0.25 -0.1
672,764 - HMPREF1058_RS16425 0.26 -1.6
672,764 - HMPREF1058_RS16425 0.26 -1.9
672,803 + HMPREF1058_RS16425 0.27 -1.1
672,830 + HMPREF1058_RS16425 0.28 -2.6
672,865 + HMPREF1058_RS16425 0.29 -3.6
672,865 + HMPREF1058_RS16425 0.29 -2.1
672,865 + HMPREF1058_RS16425 0.29 -0.4
672,865 + HMPREF1058_RS16425 0.29 -1.1
672,875 + HMPREF1058_RS16425 0.29 -2.9
672,926 - HMPREF1058_RS16425 0.30 -0.1
672,933 - HMPREF1058_RS16425 0.31 -1.4
672,933 - HMPREF1058_RS16425 0.31 -1.6
672,935 + HMPREF1058_RS16425 0.31 -1.6
673,067 - HMPREF1058_RS16425 0.35 -1.5
673,116 + HMPREF1058_RS16425 0.36 -0.5
673,118 - HMPREF1058_RS16425 0.36 -3.6
673,262 + HMPREF1058_RS16425 0.40 -1.1
673,263 - HMPREF1058_RS16425 0.40 -0.9
673,274 - HMPREF1058_RS16425 0.41 -1.9
673,313 + HMPREF1058_RS16425 0.42 -2.6
673,314 - HMPREF1058_RS16425 0.42 -2.2
673,327 + HMPREF1058_RS16425 0.42 +3.4
673,327 + HMPREF1058_RS16425 0.42 -1.7
673,404 + HMPREF1058_RS16425 0.45 -2.4
673,405 - HMPREF1058_RS16425 0.45 -1.9
673,423 - HMPREF1058_RS16425 0.45 -1.5
673,438 - HMPREF1058_RS16425 0.46 -1.6
673,438 - HMPREF1058_RS16425 0.46 -0.9
673,476 + HMPREF1058_RS16425 0.47 -2.1
673,477 - HMPREF1058_RS16425 0.47 -1.6
673,527 + HMPREF1058_RS16425 0.48 -0.1
673,535 - HMPREF1058_RS16425 0.49 -2.1
673,549 - HMPREF1058_RS16425 0.49 -1.1
673,650 + HMPREF1058_RS16425 0.52 -1.1
673,650 + HMPREF1058_RS16425 0.52 -4.3
673,773 + HMPREF1058_RS16425 0.56 -2.4
673,773 + HMPREF1058_RS16425 0.56 -2.3
673,773 + HMPREF1058_RS16425 0.56 -2.1
673,773 + HMPREF1058_RS16425 0.56 +0.3
673,782 - HMPREF1058_RS16425 0.56 -3.2
673,785 - HMPREF1058_RS16425 0.56 -2.4
673,785 - HMPREF1058_RS16425 0.56 -1.6
673,849 - HMPREF1058_RS16425 0.58 -0.8
673,954 + HMPREF1058_RS16425 0.61 -1.1
673,954 + HMPREF1058_RS16425 0.61 -3.1
673,954 + HMPREF1058_RS16425 0.61 -0.6
673,955 - HMPREF1058_RS16425 0.61 -2.5
673,959 + HMPREF1058_RS16425 0.61 -2.4
673,960 - HMPREF1058_RS16425 0.61 -0.4
673,977 + HMPREF1058_RS16425 0.62 -1.1
673,977 + HMPREF1058_RS16425 0.62 -1.5
674,010 - HMPREF1058_RS16425 0.63 -2.4
674,074 + HMPREF1058_RS16425 0.65 -2.4
674,090 + HMPREF1058_RS16425 0.65 -1.3
674,157 + -1.1
674,158 - HMPREF1058_RS16425 0.67 -1.1
674,158 - HMPREF1058_RS16425 0.67 -1.6
674,199 - HMPREF1058_RS16425 0.68 -2.6
674,243 + HMPREF1058_RS16425 0.70 -1.1
674,275 + HMPREF1058_RS16425 0.71 -1.1
674,301 - HMPREF1058_RS16425 0.71 -2.1
674,334 - HMPREF1058_RS16425 0.72 -3.6
674,394 - HMPREF1058_RS16425 0.74 -3.1
674,422 - HMPREF1058_RS16425 0.75 -1.3
674,427 - HMPREF1058_RS16425 0.75 -1.4
674,483 + HMPREF1058_RS16425 0.77 -2.1
674,486 - HMPREF1058_RS16425 0.77 -2.2
674,492 + HMPREF1058_RS16425 0.77 +0.9
674,632 + HMPREF1058_RS16425 0.81 -2.4
674,632 + HMPREF1058_RS16425 0.81 -3.0
674,633 - HMPREF1058_RS16425 0.81 -0.1
674,676 + HMPREF1058_RS16425 0.83 -1.1
674,708 + HMPREF1058_RS16425 0.84 -0.1
674,709 - HMPREF1058_RS16425 0.84 -0.6
674,710 + HMPREF1058_RS16425 0.84 +0.3
674,711 - HMPREF1058_RS16425 0.84 -1.0
674,711 - HMPREF1058_RS16425 0.84 -3.1
674,732 + HMPREF1058_RS16425 0.84 -1.2
674,755 + HMPREF1058_RS16425 0.85 -1.1
674,759 + HMPREF1058_RS16425 0.85 -3.9
674,791 + HMPREF1058_RS16425 0.86 +0.2
674,803 + HMPREF1058_RS16425 0.86 -3.3
674,811 - HMPREF1058_RS16425 0.87 -3.8
674,906 - HMPREF1058_RS16425 0.89 -1.8
674,918 - HMPREF1058_RS16425 0.90 -2.7
675,088 + -1.7
675,110 + -2.6
675,111 - -2.9
675,118 + -2.3
675,119 - -1.6
675,124 + -3.1
675,124 + -3.3
675,124 + -1.7
675,124 + -0.1
675,125 - -1.9
675,126 + -2.9
675,171 + -3.1
675,171 + -1.7
675,171 + -1.1
675,292 - -3.5
675,316 - -2.1
675,477 - HMPREF1058_RS16420 0.14 -2.1
675,516 - HMPREF1058_RS16420 0.16 -2.1
675,542 - HMPREF1058_RS16420 0.18 -1.7
675,603 + HMPREF1058_RS16420 0.22 +0.1
675,643 - HMPREF1058_RS16420 0.25 -2.1
675,651 + HMPREF1058_RS16420 0.26 -2.1
675,652 - HMPREF1058_RS16420 0.26 -3.9
675,654 - HMPREF1058_RS16420 0.26 -3.5
675,674 - HMPREF1058_RS16420 0.27 -4.1
675,804 - HMPREF1058_RS16420 0.36 -2.9
675,811 - HMPREF1058_RS16420 0.37 +0.9
675,811 - HMPREF1058_RS16420 0.37 -1.9
675,813 - HMPREF1058_RS16420 0.37 -1.1
675,834 + HMPREF1058_RS16420 0.38 -1.4
675,834 + HMPREF1058_RS16420 0.38 -2.5
675,835 - HMPREF1058_RS16420 0.38 -2.4
675,906 + HMPREF1058_RS16420 0.43 -1.7
675,936 + HMPREF1058_RS16420 0.45 -0.1
675,959 - HMPREF1058_RS16420 0.47 -1.3
675,959 - HMPREF1058_RS16420 0.47 +0.5
675,962 + HMPREF1058_RS16420 0.47 -0.7
675,966 + HMPREF1058_RS16420 0.47 -1.8
675,966 + HMPREF1058_RS16420 0.47 -2.5
676,197 + HMPREF1058_RS16420 0.63 -3.3
676,201 - HMPREF1058_RS16420 0.64 -1.6

Or see this region's nucleotide sequence