Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS11190

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; 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_RS11200 and HMPREF1058_RS11195 are separated by 98 nucleotidesHMPREF1058_RS11195 and HMPREF1058_RS11190 are separated by 180 nucleotidesHMPREF1058_RS11190 and HMPREF1058_RS11185 are separated by 93 nucleotides HMPREF1058_RS11200: HMPREF1058_RS11200 - sulfate permease, at 435,318 to 437,000 _RS11200 HMPREF1058_RS11195: HMPREF1058_RS11195 - DUF4884 domain-containing protein, at 437,099 to 437,368 _RS11195 HMPREF1058_RS11190: HMPREF1058_RS11190 - rubrerythrin family protein, at 437,549 to 438,127 _RS11190 HMPREF1058_RS11185: HMPREF1058_RS11185 - response regulator, at 438,221 to 442,207 _RS11185 Position (kb) 437 438 439Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3 4at 436.665 kb on + strand, within HMPREF1058_RS11200at 436.665 kb on + strand, within HMPREF1058_RS11200at 436.692 kb on - strand, within HMPREF1058_RS11200at 436.745 kb on + strand, within HMPREF1058_RS11200at 436.746 kb on - strand, within HMPREF1058_RS11200at 436.766 kb on + strand, within HMPREF1058_RS11200at 436.777 kb on - strand, within HMPREF1058_RS11200at 436.782 kb on + strand, within HMPREF1058_RS11200at 436.812 kb on - strand, within HMPREF1058_RS11200at 436.821 kb on + strand, within HMPREF1058_RS11200at 436.822 kb on - strand, within HMPREF1058_RS11200at 436.822 kb on - strand, within HMPREF1058_RS11200at 436.901 kb on + strandat 436.901 kb on + strandat 436.901 kb on + strandat 436.902 kb on - strandat 436.911 kb on - strandat 437.014 kb on + strandat 437.020 kb on - strandat 437.060 kb on - strandat 437.066 kb on + strandat 437.071 kb on + strandat 437.072 kb on - strandat 437.106 kb on + strandat 437.165 kb on + strand, within HMPREF1058_RS11195at 437.165 kb on + strand, within HMPREF1058_RS11195at 437.188 kb on - strand, within HMPREF1058_RS11195at 437.219 kb on + strand, within HMPREF1058_RS11195at 437.219 kb on + strand, within HMPREF1058_RS11195at 437.219 kb on + strand, within HMPREF1058_RS11195at 437.220 kb on - strand, within HMPREF1058_RS11195at 437.247 kb on + strand, within HMPREF1058_RS11195at 437.248 kb on - strand, within HMPREF1058_RS11195at 437.259 kb on + strand, within HMPREF1058_RS11195at 437.260 kb on - strand, within HMPREF1058_RS11195at 437.260 kb on - strand, within HMPREF1058_RS11195at 437.326 kb on + strand, within HMPREF1058_RS11195at 437.326 kb on + strand, within HMPREF1058_RS11195at 437.326 kb on + strand, within HMPREF1058_RS11195at 437.327 kb on - strand, within HMPREF1058_RS11195at 437.330 kb on - strand, within HMPREF1058_RS11195at 437.330 kb on - strand, within HMPREF1058_RS11195at 437.348 kb on + strandat 437.402 kb on + strandat 437.418 kb on + strandat 437.440 kb on + strandat 437.471 kb on + strandat 437.522 kb on + strandat 437.632 kb on + strand, within HMPREF1058_RS11190at 437.636 kb on + strand, within HMPREF1058_RS11190at 437.666 kb on + strand, within HMPREF1058_RS11190at 437.667 kb on - strand, within HMPREF1058_RS11190at 437.677 kb on - strand, within HMPREF1058_RS11190at 437.758 kb on - strand, within HMPREF1058_RS11190at 437.758 kb on - strand, within HMPREF1058_RS11190at 437.764 kb on + strand, within HMPREF1058_RS11190at 437.764 kb on + strand, within HMPREF1058_RS11190at 437.908 kb on + strand, within HMPREF1058_RS11190at 437.909 kb on - strand, within HMPREF1058_RS11190at 437.912 kb on + strand, within HMPREF1058_RS11190at 437.913 kb on - strand, within HMPREF1058_RS11190at 437.922 kb on + strand, within HMPREF1058_RS11190at 437.954 kb on + strand, within HMPREF1058_RS11190at 437.955 kb on - strand, within HMPREF1058_RS11190at 437.991 kb on + strand, within HMPREF1058_RS11190at 437.991 kb on + strand, within HMPREF1058_RS11190at 438.016 kb on - strand, within HMPREF1058_RS11190at 438.044 kb on + strand, within HMPREF1058_RS11190at 438.045 kb on - strand, within HMPREF1058_RS11190at 438.045 kb on - strand, within HMPREF1058_RS11190at 438.048 kb on + strand, within HMPREF1058_RS11190at 438.069 kb on + strandat 438.118 kb on + strandat 438.123 kb on - strandat 438.294 kb on + strandat 438.319 kb on + strandat 438.319 kb on + strandat 438.322 kb on - strandat 438.383 kb on + strandat 438.515 kb on + strandat 438.630 kb on - strand, within HMPREF1058_RS11185at 438.657 kb on + strand, within HMPREF1058_RS11185at 438.684 kb on + strand, within HMPREF1058_RS11185at 438.706 kb on + strand, within HMPREF1058_RS11185at 438.713 kb on + strand, within HMPREF1058_RS11185at 438.713 kb on + strand, within HMPREF1058_RS11185at 438.713 kb on + strand, within HMPREF1058_RS11185at 438.714 kb on - strand, within HMPREF1058_RS11185at 438.714 kb on - strand, within HMPREF1058_RS11185at 438.760 kb on + strand, within HMPREF1058_RS11185at 438.761 kb on - strand, within HMPREF1058_RS11185at 438.899 kb on - strand, within HMPREF1058_RS11185at 438.903 kb on - strand, within HMPREF1058_RS11185at 438.903 kb on - strand, within HMPREF1058_RS11185at 438.903 kb on - strand, within HMPREF1058_RS11185at 438.903 kb on - strand, within HMPREF1058_RS11185at 438.914 kb on - strand, within HMPREF1058_RS11185at 438.926 kb on - strand, within HMPREF1058_RS11185at 438.982 kb on + strand, within HMPREF1058_RS11185at 439.109 kb on - strand, within HMPREF1058_RS11185

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day4
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436,665 + HMPREF1058_RS11200 0.80 +0.8
436,665 + HMPREF1058_RS11200 0.80 -0.3
436,692 - HMPREF1058_RS11200 0.82 +0.7
436,745 + HMPREF1058_RS11200 0.85 +0.6
436,746 - HMPREF1058_RS11200 0.85 -1.4
436,766 + HMPREF1058_RS11200 0.86 +0.3
436,777 - HMPREF1058_RS11200 0.87 +0.6
436,782 + HMPREF1058_RS11200 0.87 -0.5
436,812 - HMPREF1058_RS11200 0.89 -0.8
436,821 + HMPREF1058_RS11200 0.89 -1.3
436,822 - HMPREF1058_RS11200 0.89 +0.4
436,822 - HMPREF1058_RS11200 0.89 +0.5
436,901 + +1.1
436,901 + +0.6
436,901 + -0.3
436,902 - -4.3
436,911 - +0.3
437,014 + +2.5
437,020 - -0.5
437,060 - +0.5
437,066 + +1.3
437,071 + -1.3
437,072 - -1.2
437,106 + +0.9
437,165 + HMPREF1058_RS11195 0.24 -0.5
437,165 + HMPREF1058_RS11195 0.24 +0.7
437,188 - HMPREF1058_RS11195 0.33 -0.8
437,219 + HMPREF1058_RS11195 0.44 -0.1
437,219 + HMPREF1058_RS11195 0.44 -1.0
437,219 + HMPREF1058_RS11195 0.44 +4.6
437,220 - HMPREF1058_RS11195 0.45 -0.3
437,247 + HMPREF1058_RS11195 0.55 +2.0
437,248 - HMPREF1058_RS11195 0.55 +0.7
437,259 + HMPREF1058_RS11195 0.59 -1.2
437,260 - HMPREF1058_RS11195 0.60 +1.0
437,260 - HMPREF1058_RS11195 0.60 +1.0
437,326 + HMPREF1058_RS11195 0.84 -2.1
437,326 + HMPREF1058_RS11195 0.84 +0.0
437,326 + HMPREF1058_RS11195 0.84 +0.4
437,327 - HMPREF1058_RS11195 0.84 +1.1
437,330 - HMPREF1058_RS11195 0.86 -1.6
437,330 - HMPREF1058_RS11195 0.86 -2.3
437,348 + -0.9
437,402 + +0.7
437,418 + -0.5
437,440 + -1.3
437,471 + +1.4
437,522 + -1.1
437,632 + HMPREF1058_RS11190 0.14 +1.0
437,636 + HMPREF1058_RS11190 0.15 +0.2
437,666 + HMPREF1058_RS11190 0.20 +0.2
437,667 - HMPREF1058_RS11190 0.20 -0.3
437,677 - HMPREF1058_RS11190 0.22 +2.0
437,758 - HMPREF1058_RS11190 0.36 -0.2
437,758 - HMPREF1058_RS11190 0.36 +1.4
437,764 + HMPREF1058_RS11190 0.37 +0.8
437,764 + HMPREF1058_RS11190 0.37 -0.6
437,908 + HMPREF1058_RS11190 0.62 -0.3
437,909 - HMPREF1058_RS11190 0.62 -2.3
437,912 + HMPREF1058_RS11190 0.63 +0.7
437,913 - HMPREF1058_RS11190 0.63 +1.3
437,922 + HMPREF1058_RS11190 0.64 +0.6
437,954 + HMPREF1058_RS11190 0.70 +1.4
437,955 - HMPREF1058_RS11190 0.70 -1.3
437,991 + HMPREF1058_RS11190 0.76 +1.3
437,991 + HMPREF1058_RS11190 0.76 +1.5
438,016 - HMPREF1058_RS11190 0.81 -2.1
438,044 + HMPREF1058_RS11190 0.85 +0.8
438,045 - HMPREF1058_RS11190 0.86 +2.8
438,045 - HMPREF1058_RS11190 0.86 -2.3
438,048 + HMPREF1058_RS11190 0.86 -0.3
438,069 + -1.3
438,118 + +2.8
438,123 - -0.3
438,294 + -1.9
438,319 + -0.5
438,319 + -1.9
438,322 - +1.7
438,383 + -0.7
438,515 + -0.9
438,630 - HMPREF1058_RS11185 0.10 +0.0
438,657 + HMPREF1058_RS11185 0.11 +2.5
438,684 + HMPREF1058_RS11185 0.12 +0.8
438,706 + HMPREF1058_RS11185 0.12 +0.5
438,713 + HMPREF1058_RS11185 0.12 +3.0
438,713 + HMPREF1058_RS11185 0.12 +0.4
438,713 + HMPREF1058_RS11185 0.12 -1.0
438,714 - HMPREF1058_RS11185 0.12 +1.2
438,714 - HMPREF1058_RS11185 0.12 +0.1
438,760 + HMPREF1058_RS11185 0.14 -0.7
438,761 - HMPREF1058_RS11185 0.14 +1.2
438,899 - HMPREF1058_RS11185 0.17 -1.9
438,903 - HMPREF1058_RS11185 0.17 -3.1
438,903 - HMPREF1058_RS11185 0.17 -2.0
438,903 - HMPREF1058_RS11185 0.17 +1.9
438,903 - HMPREF1058_RS11185 0.17 -1.9
438,914 - HMPREF1058_RS11185 0.17 -2.7
438,926 - HMPREF1058_RS11185 0.18 +0.7
438,982 + HMPREF1058_RS11185 0.19 -0.5
439,109 - HMPREF1058_RS11185 0.22 +0.9

Or see this region's nucleotide sequence