Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS17935

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse13; 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_RS17940 and HMPREF1058_RS17935 are separated by 18 nucleotidesHMPREF1058_RS17935 and HMPREF1058_RS17930 are separated by 14 nucleotides HMPREF1058_RS17940: HMPREF1058_RS17940 - alpha-amylase, at 294,879 to 296,291 _RS17940 HMPREF1058_RS17935: HMPREF1058_RS17935 - glycosyltransferase, at 296,310 to 297,575 _RS17935 HMPREF1058_RS17930: HMPREF1058_RS17930 - glycogen debranching enzyme N-terminal domain-containing protein, at 297,590 to 299,530 _RS17930 Position (kb) 296 297 298Strain fitness (log2 ratio) -4 -3 -2 -1 0 1at 295.327 kb on + strand, within HMPREF1058_RS17940at 295.406 kb on + strand, within HMPREF1058_RS17940at 295.406 kb on + strand, within HMPREF1058_RS17940at 295.475 kb on + strand, within HMPREF1058_RS17940at 295.620 kb on + strand, within HMPREF1058_RS17940at 295.623 kb on - strand, within HMPREF1058_RS17940at 295.624 kb on + strand, within HMPREF1058_RS17940at 295.624 kb on + strand, within HMPREF1058_RS17940at 295.664 kb on + strand, within HMPREF1058_RS17940at 295.799 kb on + strand, within HMPREF1058_RS17940at 295.827 kb on - strand, within HMPREF1058_RS17940at 295.836 kb on - strand, within HMPREF1058_RS17940at 295.891 kb on - strand, within HMPREF1058_RS17940at 296.079 kb on - strand, within HMPREF1058_RS17940at 296.100 kb on - strand, within HMPREF1058_RS17940at 296.147 kb on + strand, within HMPREF1058_RS17940at 296.148 kb on - strand, within HMPREF1058_RS17940at 296.148 kb on - strand, within HMPREF1058_RS17940at 296.150 kb on - strandat 296.200 kb on + strandat 296.201 kb on - strandat 296.207 kb on - strandat 296.221 kb on - strandat 296.221 kb on - strandat 296.221 kb on - strandat 296.221 kb on - strandat 296.280 kb on + strandat 296.297 kb on - strandat 296.300 kb on + strandat 296.301 kb on - strandat 296.316 kb on - strandat 296.316 kb on - strandat 296.341 kb on + strandat 296.378 kb on + strandat 296.379 kb on - strandat 296.444 kb on + strand, within HMPREF1058_RS17935at 296.444 kb on + strand, within HMPREF1058_RS17935at 296.445 kb on - strand, within HMPREF1058_RS17935at 296.449 kb on + strand, within HMPREF1058_RS17935at 296.450 kb on - strand, within HMPREF1058_RS17935at 296.450 kb on - strand, within HMPREF1058_RS17935at 296.540 kb on + strand, within HMPREF1058_RS17935at 296.613 kb on + strand, within HMPREF1058_RS17935at 296.613 kb on + strand, within HMPREF1058_RS17935at 296.630 kb on - strand, within HMPREF1058_RS17935at 296.800 kb on + strand, within HMPREF1058_RS17935at 296.991 kb on - strand, within HMPREF1058_RS17935at 296.991 kb on - strand, within HMPREF1058_RS17935at 296.994 kb on - strand, within HMPREF1058_RS17935at 297.031 kb on + strand, within HMPREF1058_RS17935at 297.031 kb on + strand, within HMPREF1058_RS17935at 297.031 kb on + strand, within HMPREF1058_RS17935at 297.031 kb on + strand, within HMPREF1058_RS17935at 297.032 kb on - strand, within HMPREF1058_RS17935at 297.033 kb on + strand, within HMPREF1058_RS17935at 297.034 kb on - strand, within HMPREF1058_RS17935at 297.034 kb on - strand, within HMPREF1058_RS17935at 297.204 kb on - strand, within HMPREF1058_RS17935at 297.261 kb on - strand, within HMPREF1058_RS17935at 297.284 kb on + strand, within HMPREF1058_RS17935at 297.284 kb on + strand, within HMPREF1058_RS17935at 297.284 kb on + strand, within HMPREF1058_RS17935at 297.285 kb on - strand, within HMPREF1058_RS17935at 297.285 kb on - strand, within HMPREF1058_RS17935at 297.286 kb on + strand, within HMPREF1058_RS17935at 297.301 kb on + strand, within HMPREF1058_RS17935at 297.302 kb on - strand, within HMPREF1058_RS17935at 297.302 kb on - strand, within HMPREF1058_RS17935at 297.302 kb on - strand, within HMPREF1058_RS17935at 297.306 kb on - strand, within HMPREF1058_RS17935at 297.306 kb on - strand, within HMPREF1058_RS17935at 297.322 kb on + strand, within HMPREF1058_RS17935at 297.360 kb on + strand, within HMPREF1058_RS17935at 297.364 kb on + strand, within HMPREF1058_RS17935at 297.364 kb on + strand, within HMPREF1058_RS17935at 297.370 kb on + strand, within HMPREF1058_RS17935at 297.371 kb on - strand, within HMPREF1058_RS17935at 297.414 kb on - strand, within HMPREF1058_RS17935at 297.501 kb on + strandat 297.508 kb on + strandat 297.508 kb on + strandat 297.595 kb on - strandat 297.600 kb on + strandat 297.646 kb on + strandat 297.704 kb on + strandat 297.706 kb on + strandat 297.707 kb on - strandat 297.715 kb on + strandat 297.785 kb on - strand, within HMPREF1058_RS17930at 297.787 kb on - strand, within HMPREF1058_RS17930at 297.787 kb on - strand, within HMPREF1058_RS17930at 297.790 kb on + strand, within HMPREF1058_RS17930at 297.799 kb on - strand, within HMPREF1058_RS17930at 297.810 kb on + strand, within HMPREF1058_RS17930at 297.811 kb on - strand, within HMPREF1058_RS17930at 297.849 kb on + strand, within HMPREF1058_RS17930at 297.856 kb on - strand, within HMPREF1058_RS17930at 297.883 kb on - strand, within HMPREF1058_RS17930at 297.938 kb on - strandat 298.011 kb on - strand, within HMPREF1058_RS17930at 298.015 kb on + strand, within HMPREF1058_RS17930at 298.016 kb on - strand, within HMPREF1058_RS17930at 298.051 kb on + strand, within HMPREF1058_RS17930at 298.065 kb on + strand, within HMPREF1058_RS17930at 298.077 kb on + strand, within HMPREF1058_RS17930at 298.084 kb on - strand, within HMPREF1058_RS17930at 298.133 kb on + strand, within HMPREF1058_RS17930at 298.190 kb on - strand, within HMPREF1058_RS17930at 298.220 kb on - strand, within HMPREF1058_RS17930at 298.234 kb on - strand, within HMPREF1058_RS17930at 298.444 kb on + strand, within HMPREF1058_RS17930at 298.489 kb on - strand, within HMPREF1058_RS17930

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse13; day3
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295,327 + HMPREF1058_RS17940 0.32 -1.6
295,406 + HMPREF1058_RS17940 0.37 -0.9
295,406 + HMPREF1058_RS17940 0.37 -1.6
295,475 + HMPREF1058_RS17940 0.42 -0.5
295,620 + HMPREF1058_RS17940 0.52 -0.9
295,623 - HMPREF1058_RS17940 0.53 -2.8
295,624 + HMPREF1058_RS17940 0.53 -1.8
295,624 + HMPREF1058_RS17940 0.53 -0.6
295,664 + HMPREF1058_RS17940 0.56 -1.9
295,799 + HMPREF1058_RS17940 0.65 -2.5
295,827 - HMPREF1058_RS17940 0.67 -2.9
295,836 - HMPREF1058_RS17940 0.68 -1.1
295,891 - HMPREF1058_RS17940 0.72 -2.9
296,079 - HMPREF1058_RS17940 0.85 -1.6
296,100 - HMPREF1058_RS17940 0.86 -2.6
296,147 + HMPREF1058_RS17940 0.90 -0.6
296,148 - HMPREF1058_RS17940 0.90 -2.2
296,148 - HMPREF1058_RS17940 0.90 -1.5
296,150 - -1.4
296,200 + -0.6
296,201 - -1.3
296,207 - -2.1
296,221 - -0.9
296,221 - +0.0
296,221 - -2.2
296,221 - -1.2
296,280 + -3.0
296,297 - -0.4
296,300 + -0.2
296,301 - -2.4
296,316 - -3.2
296,316 - +0.7
296,341 + -2.3
296,378 + -1.5
296,379 - -1.5
296,444 + HMPREF1058_RS17935 0.11 -3.4
296,444 + HMPREF1058_RS17935 0.11 -0.6
296,445 - HMPREF1058_RS17935 0.11 -1.9
296,449 + HMPREF1058_RS17935 0.11 -1.6
296,450 - HMPREF1058_RS17935 0.11 -1.3
296,450 - HMPREF1058_RS17935 0.11 -0.6
296,540 + HMPREF1058_RS17935 0.18 -1.6
296,613 + HMPREF1058_RS17935 0.24 -2.3
296,613 + HMPREF1058_RS17935 0.24 +0.1
296,630 - HMPREF1058_RS17935 0.25 -2.9
296,800 + HMPREF1058_RS17935 0.39 -3.0
296,991 - HMPREF1058_RS17935 0.54 -1.6
296,991 - HMPREF1058_RS17935 0.54 -2.2
296,994 - HMPREF1058_RS17935 0.54 -2.2
297,031 + HMPREF1058_RS17935 0.57 -1.0
297,031 + HMPREF1058_RS17935 0.57 -2.5
297,031 + HMPREF1058_RS17935 0.57 -1.7
297,031 + HMPREF1058_RS17935 0.57 -1.5
297,032 - HMPREF1058_RS17935 0.57 -2.4
297,033 + HMPREF1058_RS17935 0.57 -3.3
297,034 - HMPREF1058_RS17935 0.57 -2.0
297,034 - HMPREF1058_RS17935 0.57 -1.5
297,204 - HMPREF1058_RS17935 0.71 -0.9
297,261 - HMPREF1058_RS17935 0.75 -1.7
297,284 + HMPREF1058_RS17935 0.77 -2.2
297,284 + HMPREF1058_RS17935 0.77 -0.5
297,284 + HMPREF1058_RS17935 0.77 -1.3
297,285 - HMPREF1058_RS17935 0.77 -1.2
297,285 - HMPREF1058_RS17935 0.77 -1.5
297,286 + HMPREF1058_RS17935 0.77 -2.2
297,301 + HMPREF1058_RS17935 0.78 -4.0
297,302 - HMPREF1058_RS17935 0.78 -2.9
297,302 - HMPREF1058_RS17935 0.78 -4.6
297,302 - HMPREF1058_RS17935 0.78 -2.1
297,306 - HMPREF1058_RS17935 0.79 -1.2
297,306 - HMPREF1058_RS17935 0.79 -1.8
297,322 + HMPREF1058_RS17935 0.80 -0.6
297,360 + HMPREF1058_RS17935 0.83 -2.5
297,364 + HMPREF1058_RS17935 0.83 -0.5
297,364 + HMPREF1058_RS17935 0.83 -0.4
297,370 + HMPREF1058_RS17935 0.84 -0.6
297,371 - HMPREF1058_RS17935 0.84 -1.8
297,414 - HMPREF1058_RS17935 0.87 -3.0
297,501 + -0.8
297,508 + -0.9
297,508 + -1.2
297,595 - -2.5
297,600 + -1.9
297,646 + -1.6
297,704 + -2.1
297,706 + -1.0
297,707 - -0.5
297,715 + -2.9
297,785 - HMPREF1058_RS17930 0.10 -2.7
297,787 - HMPREF1058_RS17930 0.10 -1.7
297,787 - HMPREF1058_RS17930 0.10 +0.6
297,790 + HMPREF1058_RS17930 0.10 -1.2
297,799 - HMPREF1058_RS17930 0.11 -1.1
297,810 + HMPREF1058_RS17930 0.11 -1.4
297,811 - HMPREF1058_RS17930 0.11 -1.5
297,849 + HMPREF1058_RS17930 0.13 -1.8
297,856 - HMPREF1058_RS17930 0.14 -0.4
297,883 - HMPREF1058_RS17930 0.15 -0.2
297,938 - -0.9
298,011 - HMPREF1058_RS17930 0.22 +0.6
298,015 + HMPREF1058_RS17930 0.22 -0.5
298,016 - HMPREF1058_RS17930 0.22 -0.6
298,051 + HMPREF1058_RS17930 0.24 -1.9
298,065 + HMPREF1058_RS17930 0.24 -2.0
298,077 + HMPREF1058_RS17930 0.25 -2.0
298,084 - HMPREF1058_RS17930 0.25 -1.0
298,133 + HMPREF1058_RS17930 0.28 -1.3
298,190 - HMPREF1058_RS17930 0.31 -1.3
298,220 - HMPREF1058_RS17930 0.32 -1.3
298,234 - HMPREF1058_RS17930 0.33 +0.1
298,444 + HMPREF1058_RS17930 0.44 -1.7
298,489 - HMPREF1058_RS17930 0.46 -0.2

Or see this region's nucleotide sequence