Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS11830

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse14; day3

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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_RS11840 and HMPREF1058_RS11835 are separated by 75 nucleotidesHMPREF1058_RS11835 and HMPREF1058_RS11830 are separated by 130 nucleotidesHMPREF1058_RS11830 and HMPREF1058_RS11825 are separated by 48 nucleotides HMPREF1058_RS11840: HMPREF1058_RS11840 - hypothetical protein, at 268,795 to 272,100 _RS11840 HMPREF1058_RS11835: HMPREF1058_RS11835 - hypothetical protein, at 272,176 to 272,523 _RS11835 HMPREF1058_RS11830: HMPREF1058_RS11830 - hypothetical protein, at 272,654 to 275,269 _RS11830 HMPREF1058_RS11825: HMPREF1058_RS11825 - helix-turn-helix transcriptional regulator, at 275,318 to 275,809 _RS11825 Position (kb) 272 273 274 275 276Strain fitness (log2 ratio) -2 -1 0 1 2at 271.721 kb on - strand, within HMPREF1058_RS11840at 271.733 kb on + strand, within HMPREF1058_RS11840at 271.733 kb on + strand, within HMPREF1058_RS11840at 271.734 kb on - strand, within HMPREF1058_RS11840at 271.736 kb on - strand, within HMPREF1058_RS11840at 271.736 kb on - strand, within HMPREF1058_RS11840at 271.742 kb on - strand, within HMPREF1058_RS11840at 271.745 kb on - strand, within HMPREF1058_RS11840at 271.755 kb on + strand, within HMPREF1058_RS11840at 271.819 kb on + strandat 271.819 kb on + strandat 271.820 kb on - strandat 271.820 kb on - strandat 271.911 kb on + strandat 271.958 kb on - strandat 272.004 kb on + strandat 272.036 kb on + strandat 272.083 kb on - strandat 272.098 kb on + strandat 272.112 kb on - strandat 272.115 kb on + strandat 272.190 kb on - strandat 272.191 kb on + strandat 272.192 kb on - strandat 272.207 kb on - strandat 272.276 kb on + strand, within HMPREF1058_RS11835at 272.326 kb on - strand, within HMPREF1058_RS11835at 272.341 kb on - strand, within HMPREF1058_RS11835at 272.351 kb on + strand, within HMPREF1058_RS11835at 272.356 kb on + strand, within HMPREF1058_RS11835at 272.357 kb on - strand, within HMPREF1058_RS11835at 272.357 kb on - strand, within HMPREF1058_RS11835at 272.395 kb on - strand, within HMPREF1058_RS11835at 272.402 kb on - strand, within HMPREF1058_RS11835at 272.434 kb on + strand, within HMPREF1058_RS11835at 272.437 kb on + strand, within HMPREF1058_RS11835at 272.483 kb on + strand, within HMPREF1058_RS11835at 272.484 kb on - strand, within HMPREF1058_RS11835at 272.487 kb on + strand, within HMPREF1058_RS11835at 272.488 kb on - strand, within HMPREF1058_RS11835at 272.513 kb on - strandat 272.546 kb on - strandat 272.555 kb on + strandat 272.555 kb on + strandat 272.574 kb on + strandat 272.655 kb on + strandat 272.655 kb on + strandat 272.706 kb on + strandat 272.706 kb on + strandat 272.707 kb on - strandat 272.711 kb on - strandat 272.740 kb on + strandat 272.743 kb on + strandat 272.743 kb on + strandat 272.761 kb on + strandat 272.810 kb on - strandat 272.819 kb on - strandat 272.868 kb on - strandat 272.880 kb on + strandat 272.881 kb on - strandat 272.884 kb on + strandat 272.884 kb on + strandat 272.884 kb on + strandat 272.884 kb on + strandat 272.885 kb on - strandat 272.886 kb on + strandat 272.887 kb on - strandat 272.887 kb on - strandat 272.887 kb on - strandat 272.887 kb on - strandat 272.921 kb on - strand, within HMPREF1058_RS11830at 272.921 kb on - strand, within HMPREF1058_RS11830at 272.938 kb on - strand, within HMPREF1058_RS11830at 272.942 kb on - strand, within HMPREF1058_RS11830at 273.007 kb on + strand, within HMPREF1058_RS11830at 273.008 kb on - strand, within HMPREF1058_RS11830at 273.067 kb on + strand, within HMPREF1058_RS11830at 273.105 kb on + strand, within HMPREF1058_RS11830at 273.105 kb on + strand, within HMPREF1058_RS11830at 273.121 kb on - strand, within HMPREF1058_RS11830at 273.125 kb on - strand, within HMPREF1058_RS11830at 273.125 kb on - strand, within HMPREF1058_RS11830at 273.166 kb on + strand, within HMPREF1058_RS11830at 273.221 kb on + strand, within HMPREF1058_RS11830at 273.223 kb on + strand, within HMPREF1058_RS11830at 273.223 kb on + strand, within HMPREF1058_RS11830at 273.239 kb on + strand, within HMPREF1058_RS11830at 273.239 kb on + strand, within HMPREF1058_RS11830at 273.239 kb on + strand, within HMPREF1058_RS11830at 273.240 kb on - strand, within HMPREF1058_RS11830at 273.241 kb on + strand, within HMPREF1058_RS11830at 273.301 kb on + strand, within HMPREF1058_RS11830at 273.302 kb on - strand, within HMPREF1058_RS11830at 273.335 kb on + strand, within HMPREF1058_RS11830at 273.336 kb on - strand, within HMPREF1058_RS11830at 273.421 kb on + strand, within HMPREF1058_RS11830at 273.422 kb on - strand, within HMPREF1058_RS11830at 273.449 kb on - strand, within HMPREF1058_RS11830at 273.452 kb on + strand, within HMPREF1058_RS11830at 273.456 kb on + strand, within HMPREF1058_RS11830at 273.457 kb on - strand, within HMPREF1058_RS11830at 273.457 kb on - strand, within HMPREF1058_RS11830at 273.457 kb on - strand, within HMPREF1058_RS11830at 273.457 kb on - strand, within HMPREF1058_RS11830at 273.491 kb on - strand, within HMPREF1058_RS11830at 273.542 kb on - strand, within HMPREF1058_RS11830at 273.544 kb on + strand, within HMPREF1058_RS11830at 273.564 kb on - strand, within HMPREF1058_RS11830at 273.666 kb on + strand, within HMPREF1058_RS11830at 273.666 kb on + strand, within HMPREF1058_RS11830at 273.670 kb on + strand, within HMPREF1058_RS11830at 273.691 kb on + strand, within HMPREF1058_RS11830at 273.827 kb on + strand, within HMPREF1058_RS11830at 273.866 kb on - strand, within HMPREF1058_RS11830at 273.878 kb on - strand, within HMPREF1058_RS11830at 273.883 kb on + strand, within HMPREF1058_RS11830at 273.884 kb on - strand, within HMPREF1058_RS11830at 273.948 kb on + strand, within HMPREF1058_RS11830at 273.948 kb on + strand, within HMPREF1058_RS11830at 273.949 kb on - strand, within HMPREF1058_RS11830at 273.949 kb on - strand, within HMPREF1058_RS11830at 273.949 kb on - strand, within HMPREF1058_RS11830at 273.954 kb on - strand, within HMPREF1058_RS11830at 273.954 kb on - strand, within HMPREF1058_RS11830at 273.986 kb on - strand, within HMPREF1058_RS11830at 273.997 kb on + strand, within HMPREF1058_RS11830at 274.038 kb on - strand, within HMPREF1058_RS11830at 274.038 kb on - strand, within HMPREF1058_RS11830at 274.046 kb on + strand, within HMPREF1058_RS11830at 274.047 kb on - strand, within HMPREF1058_RS11830at 274.050 kb on + strand, within HMPREF1058_RS11830at 274.051 kb on - strand, within HMPREF1058_RS11830at 274.054 kb on - strand, within HMPREF1058_RS11830at 274.060 kb on - strand, within HMPREF1058_RS11830at 274.094 kb on - strand, within HMPREF1058_RS11830at 274.115 kb on + strand, within HMPREF1058_RS11830at 274.125 kb on + strand, within HMPREF1058_RS11830at 274.133 kb on - strand, within HMPREF1058_RS11830at 274.149 kb on - strand, within HMPREF1058_RS11830at 274.204 kb on + strand, within HMPREF1058_RS11830at 274.205 kb on - strandat 274.257 kb on + strand, within HMPREF1058_RS11830at 274.260 kb on - strand, within HMPREF1058_RS11830at 274.282 kb on + strand, within HMPREF1058_RS11830at 274.283 kb on - strand, within HMPREF1058_RS11830at 274.283 kb on - strand, within HMPREF1058_RS11830at 274.284 kb on + strand, within HMPREF1058_RS11830at 274.284 kb on + strand, within HMPREF1058_RS11830at 274.284 kb on + strand, within HMPREF1058_RS11830at 274.285 kb on - strand, within HMPREF1058_RS11830at 274.302 kb on + strand, within HMPREF1058_RS11830at 274.303 kb on - strand, within HMPREF1058_RS11830at 274.303 kb on - strand, within HMPREF1058_RS11830at 274.303 kb on - strand, within HMPREF1058_RS11830at 274.335 kb on + strand, within HMPREF1058_RS11830at 274.336 kb on - strand, within HMPREF1058_RS11830at 274.369 kb on + strand, within HMPREF1058_RS11830at 274.369 kb on + strand, within HMPREF1058_RS11830at 274.372 kb on - strand, within HMPREF1058_RS11830at 274.490 kb on - strand, within HMPREF1058_RS11830at 274.501 kb on + strand, within HMPREF1058_RS11830at 274.519 kb on + strand, within HMPREF1058_RS11830at 274.593 kb on + strand, within HMPREF1058_RS11830at 274.594 kb on - strand, within HMPREF1058_RS11830at 274.598 kb on + strand, within HMPREF1058_RS11830at 274.598 kb on + strand, within HMPREF1058_RS11830at 274.599 kb on - strand, within HMPREF1058_RS11830at 274.609 kb on + strand, within HMPREF1058_RS11830at 274.610 kb on - strand, within HMPREF1058_RS11830at 274.679 kb on + strand, within HMPREF1058_RS11830at 274.693 kb on + strand, within HMPREF1058_RS11830at 274.694 kb on - strand, within HMPREF1058_RS11830at 274.746 kb on - strand, within HMPREF1058_RS11830at 274.782 kb on + strand, within HMPREF1058_RS11830at 274.783 kb on - strand, within HMPREF1058_RS11830at 274.783 kb on - strand, within HMPREF1058_RS11830at 274.783 kb on - strand, within HMPREF1058_RS11830at 274.783 kb on - strand, within HMPREF1058_RS11830at 274.836 kb on + strand, within HMPREF1058_RS11830at 274.963 kb on + strand, within HMPREF1058_RS11830at 275.034 kb on + strandat 275.035 kb on - strandat 275.035 kb on - strandat 275.075 kb on + strandat 275.075 kb on + strandat 275.111 kb on + strandat 275.168 kb on - strandat 275.188 kb on - strandat 275.188 kb on - strandat 275.589 kb on - strand, within HMPREF1058_RS11825at 275.646 kb on - strand, within HMPREF1058_RS11825at 275.666 kb on - strand, within HMPREF1058_RS11825at 275.668 kb on - strand, within HMPREF1058_RS11825at 275.767 kb on + strandat 275.768 kb on - strandat 275.798 kb on + strandat 275.809 kb on + strandat 275.809 kb on + strandat 275.814 kb on + strandat 275.831 kb on - strandat 275.902 kb on - strandat 276.008 kb on - strandat 276.020 kb on - strandat 276.047 kb on + strandat 276.055 kb on + strandat 276.075 kb on - strandat 276.081 kb on + strandat 276.082 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse14; day3
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271,721 - HMPREF1058_RS11840 0.89 +0.3
271,733 + HMPREF1058_RS11840 0.89 -0.3
271,733 + HMPREF1058_RS11840 0.89 -0.1
271,734 - HMPREF1058_RS11840 0.89 +0.4
271,736 - HMPREF1058_RS11840 0.89 +1.3
271,736 - HMPREF1058_RS11840 0.89 +1.4
271,742 - HMPREF1058_RS11840 0.89 +1.0
271,745 - HMPREF1058_RS11840 0.89 -0.1
271,755 + HMPREF1058_RS11840 0.90 +2.0
271,819 + -0.4
271,819 + -0.7
271,820 - +0.7
271,820 - +0.8
271,911 + +0.5
271,958 - +0.9
272,004 + -0.7
272,036 + -0.3
272,083 - -0.1
272,098 + -0.0
272,112 - +0.8
272,115 + -0.4
272,190 - +0.2
272,191 + -1.4
272,192 - -0.7
272,207 - -0.2
272,276 + HMPREF1058_RS11835 0.29 -0.1
272,326 - HMPREF1058_RS11835 0.43 -0.7
272,341 - HMPREF1058_RS11835 0.47 +0.2
272,351 + HMPREF1058_RS11835 0.50 -0.3
272,356 + HMPREF1058_RS11835 0.52 +0.2
272,357 - HMPREF1058_RS11835 0.52 +2.5
272,357 - HMPREF1058_RS11835 0.52 -0.0
272,395 - HMPREF1058_RS11835 0.63 +1.3
272,402 - HMPREF1058_RS11835 0.65 +0.5
272,434 + HMPREF1058_RS11835 0.74 +0.5
272,437 + HMPREF1058_RS11835 0.75 +0.4
272,483 + HMPREF1058_RS11835 0.88 -0.8
272,484 - HMPREF1058_RS11835 0.89 -1.1
272,487 + HMPREF1058_RS11835 0.89 -0.5
272,488 - HMPREF1058_RS11835 0.90 +0.1
272,513 - +0.2
272,546 - +0.2
272,555 + -0.1
272,555 + +0.3
272,574 + -0.5
272,655 + -1.9
272,655 + -0.5
272,706 + +0.1
272,706 + -0.5
272,707 - +0.8
272,711 - +1.1
272,740 + +0.8
272,743 + -0.8
272,743 + -0.5
272,761 + +1.0
272,810 - +0.5
272,819 - +0.4
272,868 - +0.1
272,880 + -0.6
272,881 - +0.5
272,884 + +0.6
272,884 + -1.1
272,884 + -0.1
272,884 + +1.3
272,885 - +0.8
272,886 + +0.8
272,887 - +0.7
272,887 - +1.7
272,887 - +0.8
272,887 - +0.6
272,921 - HMPREF1058_RS11830 0.10 +0.9
272,921 - HMPREF1058_RS11830 0.10 +0.3
272,938 - HMPREF1058_RS11830 0.11 +0.7
272,942 - HMPREF1058_RS11830 0.11 +1.5
273,007 + HMPREF1058_RS11830 0.13 +1.0
273,008 - HMPREF1058_RS11830 0.14 +1.1
273,067 + HMPREF1058_RS11830 0.16 -0.2
273,105 + HMPREF1058_RS11830 0.17 +0.7
273,105 + HMPREF1058_RS11830 0.17 +1.0
273,121 - HMPREF1058_RS11830 0.18 +0.6
273,125 - HMPREF1058_RS11830 0.18 -0.6
273,125 - HMPREF1058_RS11830 0.18 +0.1
273,166 + HMPREF1058_RS11830 0.20 -0.2
273,221 + HMPREF1058_RS11830 0.22 +0.3
273,223 + HMPREF1058_RS11830 0.22 +0.3
273,223 + HMPREF1058_RS11830 0.22 +0.7
273,239 + HMPREF1058_RS11830 0.22 +0.7
273,239 + HMPREF1058_RS11830 0.22 +1.0
273,239 + HMPREF1058_RS11830 0.22 +0.1
273,240 - HMPREF1058_RS11830 0.22 +0.6
273,241 + HMPREF1058_RS11830 0.22 -0.5
273,301 + HMPREF1058_RS11830 0.25 -0.6
273,302 - HMPREF1058_RS11830 0.25 +0.1
273,335 + HMPREF1058_RS11830 0.26 +1.0
273,336 - HMPREF1058_RS11830 0.26 +0.4
273,421 + HMPREF1058_RS11830 0.29 -0.4
273,422 - HMPREF1058_RS11830 0.29 -0.4
273,449 - HMPREF1058_RS11830 0.30 -0.8
273,452 + HMPREF1058_RS11830 0.31 +0.1
273,456 + HMPREF1058_RS11830 0.31 -0.7
273,457 - HMPREF1058_RS11830 0.31 -0.9
273,457 - HMPREF1058_RS11830 0.31 +0.9
273,457 - HMPREF1058_RS11830 0.31 +0.7
273,457 - HMPREF1058_RS11830 0.31 +0.0
273,491 - HMPREF1058_RS11830 0.32 +0.5
273,542 - HMPREF1058_RS11830 0.34 +1.2
273,544 + HMPREF1058_RS11830 0.34 -0.5
273,564 - HMPREF1058_RS11830 0.35 +0.8
273,666 + HMPREF1058_RS11830 0.39 -0.2
273,666 + HMPREF1058_RS11830 0.39 +0.8
273,670 + HMPREF1058_RS11830 0.39 +1.0
273,691 + HMPREF1058_RS11830 0.40 +0.8
273,827 + HMPREF1058_RS11830 0.45 +1.5
273,866 - HMPREF1058_RS11830 0.46 +1.1
273,878 - HMPREF1058_RS11830 0.47 +0.6
273,883 + HMPREF1058_RS11830 0.47 -1.0
273,884 - HMPREF1058_RS11830 0.47 +0.5
273,948 + HMPREF1058_RS11830 0.49 +0.7
273,948 + HMPREF1058_RS11830 0.49 +1.3
273,949 - HMPREF1058_RS11830 0.50 +0.9
273,949 - HMPREF1058_RS11830 0.50 +0.6
273,949 - HMPREF1058_RS11830 0.50 -0.2
273,954 - HMPREF1058_RS11830 0.50 +0.0
273,954 - HMPREF1058_RS11830 0.50 +0.4
273,986 - HMPREF1058_RS11830 0.51 +1.9
273,997 + HMPREF1058_RS11830 0.51 +0.6
274,038 - HMPREF1058_RS11830 0.53 +0.7
274,038 - HMPREF1058_RS11830 0.53 -0.6
274,046 + HMPREF1058_RS11830 0.53 -0.4
274,047 - HMPREF1058_RS11830 0.53 -0.7
274,050 + HMPREF1058_RS11830 0.53 -0.1
274,051 - HMPREF1058_RS11830 0.53 +0.9
274,054 - HMPREF1058_RS11830 0.54 +0.4
274,060 - HMPREF1058_RS11830 0.54 +1.1
274,094 - HMPREF1058_RS11830 0.55 +0.1
274,115 + HMPREF1058_RS11830 0.56 +1.1
274,125 + HMPREF1058_RS11830 0.56 +0.5
274,133 - HMPREF1058_RS11830 0.57 -0.5
274,149 - HMPREF1058_RS11830 0.57 +1.0
274,204 + HMPREF1058_RS11830 0.59 +1.5
274,205 - -0.1
274,257 + HMPREF1058_RS11830 0.61 +1.1
274,260 - HMPREF1058_RS11830 0.61 +0.5
274,282 + HMPREF1058_RS11830 0.62 +0.6
274,283 - HMPREF1058_RS11830 0.62 +0.0
274,283 - HMPREF1058_RS11830 0.62 +0.3
274,284 + HMPREF1058_RS11830 0.62 +1.2
274,284 + HMPREF1058_RS11830 0.62 +1.0
274,284 + HMPREF1058_RS11830 0.62 +0.4
274,285 - HMPREF1058_RS11830 0.62 +1.4
274,302 + HMPREF1058_RS11830 0.63 +0.1
274,303 - HMPREF1058_RS11830 0.63 +0.7
274,303 - HMPREF1058_RS11830 0.63 +1.0
274,303 - HMPREF1058_RS11830 0.63 -0.5
274,335 + HMPREF1058_RS11830 0.64 -2.1
274,336 - HMPREF1058_RS11830 0.64 +0.4
274,369 + HMPREF1058_RS11830 0.66 +0.9
274,369 + HMPREF1058_RS11830 0.66 +2.1
274,372 - HMPREF1058_RS11830 0.66 +0.7
274,490 - HMPREF1058_RS11830 0.70 -0.1
274,501 + HMPREF1058_RS11830 0.71 +1.6
274,519 + HMPREF1058_RS11830 0.71 +0.9
274,593 + HMPREF1058_RS11830 0.74 +0.7
274,594 - HMPREF1058_RS11830 0.74 +0.2
274,598 + HMPREF1058_RS11830 0.74 +0.9
274,598 + HMPREF1058_RS11830 0.74 +1.6
274,599 - HMPREF1058_RS11830 0.74 +0.8
274,609 + HMPREF1058_RS11830 0.75 +1.5
274,610 - HMPREF1058_RS11830 0.75 +1.0
274,679 + HMPREF1058_RS11830 0.77 +1.1
274,693 + HMPREF1058_RS11830 0.78 -0.6
274,694 - HMPREF1058_RS11830 0.78 +1.9
274,746 - HMPREF1058_RS11830 0.80 +0.3
274,782 + HMPREF1058_RS11830 0.81 +0.4
274,783 - HMPREF1058_RS11830 0.81 +2.3
274,783 - HMPREF1058_RS11830 0.81 +0.8
274,783 - HMPREF1058_RS11830 0.81 +0.8
274,783 - HMPREF1058_RS11830 0.81 +0.3
274,836 + HMPREF1058_RS11830 0.83 +0.9
274,963 + HMPREF1058_RS11830 0.88 +1.0
275,034 + +1.1
275,035 - +1.5
275,035 - +1.3
275,075 + +0.2
275,075 + +2.4
275,111 + +0.5
275,168 - +1.3
275,188 - +2.7
275,188 - +0.9
275,589 - HMPREF1058_RS11825 0.55 +0.7
275,646 - HMPREF1058_RS11825 0.67 +1.7
275,666 - HMPREF1058_RS11825 0.71 +1.8
275,668 - HMPREF1058_RS11825 0.71 +1.8
275,767 + +1.4
275,768 - +0.1
275,798 + +2.4
275,809 + +2.0
275,809 + +1.2
275,814 + +2.1
275,831 - -1.1
275,902 - +1.6
276,008 - +0.7
276,020 - +0.8
276,047 + -1.9
276,055 + -0.1
276,075 - -2.7
276,081 + +1.3
276,082 - +0.6

Or see this region's nucleotide sequence