Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS17930

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4

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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_RS17935 and HMPREF1058_RS17930 are separated by 14 nucleotidesHMPREF1058_RS17930 and HMPREF1058_RS17925 are separated by 180 nucleotides 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 HMPREF1058_RS17925: HMPREF1058_RS17925 - rhomboid family intramembrane serine protease, at 299,711 to 300,376 _RS17925 Position (kb) 297 298 299 300Strain fitness (log2 ratio) -6 -5 -4 -3 -2 -1 0 1at 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 297.034 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 297.412 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_RS17930at 298.609 kb on + strand, within HMPREF1058_RS17930at 298.610 kb on - strand, within HMPREF1058_RS17930at 298.610 kb on - strand, within HMPREF1058_RS17930at 298.703 kb on + strand, within HMPREF1058_RS17930at 298.723 kb on + strand, within HMPREF1058_RS17930at 298.774 kb on + strand, within HMPREF1058_RS17930at 298.830 kb on - strand, within HMPREF1058_RS17930at 298.830 kb on - strand, within HMPREF1058_RS17930at 298.964 kb on - strand, within HMPREF1058_RS17930at 298.966 kb on - strand, within HMPREF1058_RS17930at 298.966 kb on - strand, within HMPREF1058_RS17930at 298.966 kb on - strand, within HMPREF1058_RS17930at 298.968 kb on - strand, within HMPREF1058_RS17930at 299.053 kb on + strand, within HMPREF1058_RS17930at 299.056 kb on - strand, within HMPREF1058_RS17930at 299.101 kb on + strand, within HMPREF1058_RS17930at 299.129 kb on - strand, within HMPREF1058_RS17930at 299.130 kb on + strand, within HMPREF1058_RS17930at 299.204 kb on + strand, within HMPREF1058_RS17930at 299.205 kb on - strandat 299.205 kb on - strand, within HMPREF1058_RS17930at 299.207 kb on - strand, within HMPREF1058_RS17930at 299.207 kb on - strand, within HMPREF1058_RS17930at 299.212 kb on + strand, within HMPREF1058_RS17930at 299.244 kb on + strand, within HMPREF1058_RS17930at 299.244 kb on + strand, within HMPREF1058_RS17930at 299.245 kb on - strand, within HMPREF1058_RS17930at 299.245 kb on - strand, within HMPREF1058_RS17930at 299.245 kb on - strand, within HMPREF1058_RS17930at 299.245 kb on - strand, within HMPREF1058_RS17930at 299.265 kb on + strand, within HMPREF1058_RS17930at 299.281 kb on - strand, within HMPREF1058_RS17930at 299.318 kb on + strand, within HMPREF1058_RS17930at 299.348 kb on + strandat 299.348 kb on + strandat 299.349 kb on - strandat 299.349 kb on - strandat 299.349 kb on - strandat 299.431 kb on + strandat 299.520 kb on - strandat 299.520 kb on - strandat 299.530 kb on + strandat 299.531 kb on - strandat 299.531 kb on - strandat 299.542 kb on + strandat 299.677 kb on - strandat 299.679 kb on + strandat 299.699 kb on - strandat 299.834 kb on + strand, within HMPREF1058_RS17925at 299.856 kb on + strand, within HMPREF1058_RS17925at 299.905 kb on - strand, within HMPREF1058_RS17925at 299.938 kb on - strand, within HMPREF1058_RS17925at 299.978 kb on - strand, within HMPREF1058_RS17925at 299.979 kb on + strand, within HMPREF1058_RS17925at 300.021 kb on + strand, within HMPREF1058_RS17925at 300.043 kb on + strand, within HMPREF1058_RS17925at 300.058 kb on + strand, within HMPREF1058_RS17925at 300.060 kb on + strand, within HMPREF1058_RS17925at 300.123 kb on + strand, within HMPREF1058_RS17925at 300.151 kb on - strand, within HMPREF1058_RS17925at 300.152 kb on + strand, within HMPREF1058_RS17925at 300.452 kb on + strandat 300.481 kb on - strandat 300.481 kb on - strandat 300.524 kb on + strandat 300.525 kb on - strandat 300.529 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4
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296,613 + HMPREF1058_RS17935 0.24 -2.3
296,613 + HMPREF1058_RS17935 0.24 -2.0
296,630 - HMPREF1058_RS17935 0.25 -1.5
296,800 + HMPREF1058_RS17935 0.39 -2.3
296,991 - HMPREF1058_RS17935 0.54 -2.8
296,991 - HMPREF1058_RS17935 0.54 -1.5
296,994 - HMPREF1058_RS17935 0.54 -2.3
297,031 + HMPREF1058_RS17935 0.57 -3.3
297,031 + HMPREF1058_RS17935 0.57 +0.0
297,031 + HMPREF1058_RS17935 0.57 -1.0
297,031 + HMPREF1058_RS17935 0.57 -2.0
297,032 - HMPREF1058_RS17935 0.57 -3.7
297,033 + HMPREF1058_RS17935 0.57 -2.0
297,034 - HMPREF1058_RS17935 0.57 -3.0
297,034 - HMPREF1058_RS17935 0.57 -1.0
297,034 - HMPREF1058_RS17935 0.57 -1.0
297,204 - HMPREF1058_RS17935 0.71 -2.3
297,261 - HMPREF1058_RS17935 0.75 -3.0
297,284 + HMPREF1058_RS17935 0.77 +0.0
297,284 + HMPREF1058_RS17935 0.77 +0.0
297,284 + HMPREF1058_RS17935 0.77 -2.5
297,285 - HMPREF1058_RS17935 0.77 -1.5
297,285 - HMPREF1058_RS17935 0.77 -3.1
297,286 + HMPREF1058_RS17935 0.77 -1.0
297,301 + HMPREF1058_RS17935 0.78 -1.0
297,302 - HMPREF1058_RS17935 0.78 -3.7
297,302 - HMPREF1058_RS17935 0.78 -3.8
297,302 - HMPREF1058_RS17935 0.78 -4.6
297,306 - HMPREF1058_RS17935 0.79 +0.0
297,306 - HMPREF1058_RS17935 0.79 -5.2
297,322 + HMPREF1058_RS17935 0.80 -2.0
297,360 + HMPREF1058_RS17935 0.83 -2.8
297,364 + HMPREF1058_RS17935 0.83 -3.1
297,364 + HMPREF1058_RS17935 0.83 -1.0
297,370 + HMPREF1058_RS17935 0.84 -2.0
297,371 - HMPREF1058_RS17935 0.84 -3.8
297,412 - HMPREF1058_RS17935 0.87 +0.0
297,414 - HMPREF1058_RS17935 0.87 -3.4
297,501 + -2.0
297,508 + -1.5
297,508 + -1.0
297,595 - -1.5
297,600 + -1.0
297,646 + -3.1
297,704 + -2.5
297,706 + -1.0
297,707 - +0.0
297,715 + -1.0
297,785 - HMPREF1058_RS17930 0.10 +0.0
297,787 - HMPREF1058_RS17930 0.10 -2.5
297,787 - HMPREF1058_RS17930 0.10 -2.8
297,790 + HMPREF1058_RS17930 0.10 -1.5
297,799 - HMPREF1058_RS17930 0.11 -3.3
297,810 + HMPREF1058_RS17930 0.11 -3.5
297,811 - HMPREF1058_RS17930 0.11 -1.0
297,849 + HMPREF1058_RS17930 0.13 -3.9
297,856 - HMPREF1058_RS17930 0.14 -4.3
297,883 - HMPREF1058_RS17930 0.15 -2.9
297,938 - +0.0
298,011 - HMPREF1058_RS17930 0.22 -1.5
298,015 + HMPREF1058_RS17930 0.22 -2.3
298,016 - HMPREF1058_RS17930 0.22 -1.0
298,051 + HMPREF1058_RS17930 0.24 -2.8
298,065 + HMPREF1058_RS17930 0.24 -4.0
298,077 + HMPREF1058_RS17930 0.25 -2.3
298,084 - HMPREF1058_RS17930 0.25 -2.0
298,133 + HMPREF1058_RS17930 0.28 -2.3
298,190 - HMPREF1058_RS17930 0.31 -2.8
298,220 - HMPREF1058_RS17930 0.32 -2.8
298,234 - HMPREF1058_RS17930 0.33 -3.0
298,444 + HMPREF1058_RS17930 0.44 -1.0
298,489 - HMPREF1058_RS17930 0.46 +0.0
298,609 + HMPREF1058_RS17930 0.52 -3.9
298,610 - HMPREF1058_RS17930 0.53 -5.7
298,610 - HMPREF1058_RS17930 0.53 -3.4
298,703 + HMPREF1058_RS17930 0.57 -4.2
298,723 + HMPREF1058_RS17930 0.58 -1.5
298,774 + HMPREF1058_RS17930 0.61 -3.3
298,830 - HMPREF1058_RS17930 0.64 -3.5
298,830 - HMPREF1058_RS17930 0.64 -3.4
298,964 - HMPREF1058_RS17930 0.71 -2.8
298,966 - HMPREF1058_RS17930 0.71 -2.3
298,966 - HMPREF1058_RS17930 0.71 -1.5
298,966 - HMPREF1058_RS17930 0.71 -2.5
298,968 - HMPREF1058_RS17930 0.71 -6.3
299,053 + HMPREF1058_RS17930 0.75 +0.0
299,056 - HMPREF1058_RS17930 0.76 -2.8
299,101 + HMPREF1058_RS17930 0.78 +0.0
299,129 - HMPREF1058_RS17930 0.79 -4.3
299,130 + HMPREF1058_RS17930 0.79 -2.3
299,204 + HMPREF1058_RS17930 0.83 -1.0
299,205 - -1.0
299,205 - HMPREF1058_RS17930 0.83 +0.0
299,207 - HMPREF1058_RS17930 0.83 -3.0
299,207 - HMPREF1058_RS17930 0.83 -1.5
299,212 + HMPREF1058_RS17930 0.84 +0.0
299,244 + HMPREF1058_RS17930 0.85 -1.0
299,244 + HMPREF1058_RS17930 0.85 -3.9
299,245 - HMPREF1058_RS17930 0.85 -4.0
299,245 - HMPREF1058_RS17930 0.85 -3.0
299,245 - HMPREF1058_RS17930 0.85 +0.0
299,245 - HMPREF1058_RS17930 0.85 -3.9
299,265 + HMPREF1058_RS17930 0.86 +0.0
299,281 - HMPREF1058_RS17930 0.87 -2.8
299,318 + HMPREF1058_RS17930 0.89 -2.3
299,348 + -3.0
299,348 + -1.5
299,349 - -4.1
299,349 - -2.8
299,349 - -2.5
299,431 + -2.3
299,520 - -3.4
299,520 - -1.0
299,530 + -3.5
299,531 - -5.8
299,531 - -2.0
299,542 + +0.0
299,677 - -1.0
299,679 + -1.5
299,699 - -1.0
299,834 + HMPREF1058_RS17925 0.18 -2.5
299,856 + HMPREF1058_RS17925 0.22 +0.6
299,905 - HMPREF1058_RS17925 0.29 +1.1
299,938 - HMPREF1058_RS17925 0.34 -1.0
299,978 - HMPREF1058_RS17925 0.40 -1.3
299,979 + HMPREF1058_RS17925 0.40 +0.0
300,021 + HMPREF1058_RS17925 0.47 -1.3
300,043 + HMPREF1058_RS17925 0.50 +1.6
300,058 + HMPREF1058_RS17925 0.52 -1.8
300,060 + HMPREF1058_RS17925 0.52 +0.6
300,123 + HMPREF1058_RS17925 0.62 -0.4
300,151 - HMPREF1058_RS17925 0.66 +0.7
300,152 + HMPREF1058_RS17925 0.66 -1.5
300,452 + -1.5
300,481 - +1.2
300,481 - +1.0
300,524 + +1.2
300,525 - +0.6
300,529 + +0.5

Or see this region's nucleotide sequence