Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS18110

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse18; day1

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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_RS18120 and HMPREF1058_RS18115 are separated by 68 nucleotidesHMPREF1058_RS18115 and HMPREF1058_RS18110 are separated by 101 nucleotidesHMPREF1058_RS18110 and HMPREF1058_RS18105 are separated by 3 nucleotides HMPREF1058_RS18120: HMPREF1058_RS18120 - formate C-acetyltransferase, at 254,138 to 256,366 _RS18120 HMPREF1058_RS18115: HMPREF1058_RS18115 - pyruvate formate lyase-activating protein, at 256,435 to 257,163 _RS18115 HMPREF1058_RS18110: HMPREF1058_RS18110 - LUD domain-containing protein, at 257,265 to 257,852 _RS18110 HMPREF1058_RS18105: HMPREF1058_RS18105 - lactate utilization protein, at 257,856 to 259,223 _RS18105 Position (kb) 257 258Strain fitness (log2 ratio) -1 0 1 2at 256.270 kb on + strandat 256.335 kb on + strandat 256.364 kb on + strandat 256.364 kb on + strandat 256.365 kb on - strandat 256.374 kb on + strandat 256.375 kb on - strandat 256.376 kb on + strandat 256.376 kb on + strandat 256.445 kb on + strandat 256.453 kb on + strandat 256.506 kb on - strandat 256.531 kb on + strand, within HMPREF1058_RS18115at 256.734 kb on + strand, within HMPREF1058_RS18115at 256.736 kb on + strand, within HMPREF1058_RS18115at 256.736 kb on + strand, within HMPREF1058_RS18115at 256.736 kb on + strand, within HMPREF1058_RS18115at 256.737 kb on - strand, within HMPREF1058_RS18115at 256.740 kb on + strand, within HMPREF1058_RS18115at 256.752 kb on + strand, within HMPREF1058_RS18115at 256.769 kb on + strand, within HMPREF1058_RS18115at 256.800 kb on - strand, within HMPREF1058_RS18115at 256.806 kb on - strand, within HMPREF1058_RS18115at 256.806 kb on - strand, within HMPREF1058_RS18115at 256.822 kb on - strand, within HMPREF1058_RS18115at 256.824 kb on + strand, within HMPREF1058_RS18115at 256.871 kb on + strand, within HMPREF1058_RS18115at 256.871 kb on + strand, within HMPREF1058_RS18115at 256.872 kb on - strand, within HMPREF1058_RS18115at 256.872 kb on - strand, within HMPREF1058_RS18115at 256.876 kb on - strand, within HMPREF1058_RS18115at 256.926 kb on - strand, within HMPREF1058_RS18115at 256.928 kb on + strand, within HMPREF1058_RS18115at 256.940 kb on - strand, within HMPREF1058_RS18115at 256.942 kb on - strand, within HMPREF1058_RS18115at 256.962 kb on - strand, within HMPREF1058_RS18115at 257.009 kb on + strand, within HMPREF1058_RS18115at 257.015 kb on + strand, within HMPREF1058_RS18115at 257.015 kb on + strand, within HMPREF1058_RS18115at 257.015 kb on + strand, within HMPREF1058_RS18115at 257.018 kb on + strand, within HMPREF1058_RS18115at 257.019 kb on - strand, within HMPREF1058_RS18115at 257.019 kb on - strand, within HMPREF1058_RS18115at 257.028 kb on + strand, within HMPREF1058_RS18115at 257.028 kb on + strand, within HMPREF1058_RS18115at 257.029 kb on - strand, within HMPREF1058_RS18115at 257.047 kb on + strand, within HMPREF1058_RS18115at 257.100 kb on - strandat 257.151 kb on - strandat 257.161 kb on + strandat 257.195 kb on - strandat 257.244 kb on + strandat 257.248 kb on + strandat 257.249 kb on - strandat 257.262 kb on + strandat 257.262 kb on + strandat 257.262 kb on + strandat 257.263 kb on - strandat 257.266 kb on + strandat 257.266 kb on + strandat 257.267 kb on - strandat 257.269 kb on - strandat 257.381 kb on + strand, within HMPREF1058_RS18110at 257.386 kb on - strand, within HMPREF1058_RS18110at 257.395 kb on + strand, within HMPREF1058_RS18110at 257.408 kb on + strand, within HMPREF1058_RS18110at 257.424 kb on - strand, within HMPREF1058_RS18110at 257.429 kb on + strand, within HMPREF1058_RS18110at 257.460 kb on - strand, within HMPREF1058_RS18110at 257.481 kb on + strand, within HMPREF1058_RS18110at 257.535 kb on + strand, within HMPREF1058_RS18110at 257.536 kb on - strand, within HMPREF1058_RS18110at 257.606 kb on + strand, within HMPREF1058_RS18110at 257.606 kb on + strand, within HMPREF1058_RS18110at 257.607 kb on - strand, within HMPREF1058_RS18110at 257.607 kb on - strand, within HMPREF1058_RS18110at 257.607 kb on - strand, within HMPREF1058_RS18110at 257.709 kb on + strand, within HMPREF1058_RS18110at 257.729 kb on - strand, within HMPREF1058_RS18110at 257.753 kb on - strand, within HMPREF1058_RS18110at 257.765 kb on + strand, within HMPREF1058_RS18110at 257.798 kb on - strandat 257.802 kb on + strandat 257.832 kb on + strandat 257.832 kb on + strandat 257.833 kb on - strandat 257.833 kb on - strandat 257.834 kb on + strandat 257.835 kb on - strandat 257.950 kb on + strandat 257.951 kb on - strandat 258.003 kb on - strand, within HMPREF1058_RS18105at 258.142 kb on - strand, within HMPREF1058_RS18105at 258.191 kb on - strand, within HMPREF1058_RS18105at 258.191 kb on - strand, within HMPREF1058_RS18105at 258.253 kb on + strand, within HMPREF1058_RS18105at 258.270 kb on - strand, within HMPREF1058_RS18105at 258.270 kb on - strand, within HMPREF1058_RS18105at 258.276 kb on - strand, within HMPREF1058_RS18105at 258.280 kb on - strand, within HMPREF1058_RS18105at 258.291 kb on - strand, within HMPREF1058_RS18105at 258.291 kb on - strand, within HMPREF1058_RS18105at 258.291 kb on - strand, within HMPREF1058_RS18105at 258.291 kb on - strand, within HMPREF1058_RS18105at 258.291 kb on - strand, within HMPREF1058_RS18105at 258.296 kb on + strand, within HMPREF1058_RS18105at 258.332 kb on + strand, within HMPREF1058_RS18105at 258.356 kb on + strand, within HMPREF1058_RS18105at 258.359 kb on + strand, within HMPREF1058_RS18105at 258.360 kb on - strand, within HMPREF1058_RS18105at 258.377 kb on + strand, within HMPREF1058_RS18105at 258.380 kb on + strand, within HMPREF1058_RS18105at 258.381 kb on - strand, within HMPREF1058_RS18105at 258.425 kb on + strand, within HMPREF1058_RS18105at 258.425 kb on + strand, within HMPREF1058_RS18105at 258.426 kb on - strand, within HMPREF1058_RS18105at 258.426 kb on - strand, within HMPREF1058_RS18105at 258.427 kb on + strand, within HMPREF1058_RS18105at 258.427 kb on + strand, within HMPREF1058_RS18105at 258.427 kb on + strand, within HMPREF1058_RS18105at 258.432 kb on - strand, within HMPREF1058_RS18105at 258.540 kb on - strand, within HMPREF1058_RS18105at 258.578 kb on + strand, within HMPREF1058_RS18105at 258.579 kb on - strand, within HMPREF1058_RS18105at 258.582 kb on + strand, within HMPREF1058_RS18105at 258.683 kb on + strand, within HMPREF1058_RS18105at 258.684 kb on - strand, within HMPREF1058_RS18105at 258.688 kb on + strand, within HMPREF1058_RS18105at 258.692 kb on + strand, within HMPREF1058_RS18105at 258.693 kb on - strand, within HMPREF1058_RS18105at 258.745 kb on - strand, within HMPREF1058_RS18105at 258.816 kb on - strand, within HMPREF1058_RS18105at 258.816 kb on - strand, within HMPREF1058_RS18105

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse18; day1
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256,270 + -0.6
256,335 + -0.1
256,364 + +0.7
256,364 + +0.6
256,365 - +0.2
256,374 + +0.8
256,375 - -1.6
256,376 + +0.4
256,376 + +0.2
256,445 + +0.0
256,453 + +0.0
256,506 - -0.2
256,531 + HMPREF1058_RS18115 0.13 +0.5
256,734 + HMPREF1058_RS18115 0.41 +2.3
256,736 + HMPREF1058_RS18115 0.41 +0.3
256,736 + HMPREF1058_RS18115 0.41 -0.2
256,736 + HMPREF1058_RS18115 0.41 +0.3
256,737 - HMPREF1058_RS18115 0.41 +0.4
256,740 + HMPREF1058_RS18115 0.42 -0.5
256,752 + HMPREF1058_RS18115 0.43 +0.8
256,769 + HMPREF1058_RS18115 0.46 +0.3
256,800 - HMPREF1058_RS18115 0.50 +0.3
256,806 - HMPREF1058_RS18115 0.51 -0.2
256,806 - HMPREF1058_RS18115 0.51 -0.1
256,822 - HMPREF1058_RS18115 0.53 +0.0
256,824 + HMPREF1058_RS18115 0.53 +0.4
256,871 + HMPREF1058_RS18115 0.60 -0.6
256,871 + HMPREF1058_RS18115 0.60 -0.6
256,872 - HMPREF1058_RS18115 0.60 +0.0
256,872 - HMPREF1058_RS18115 0.60 +0.3
256,876 - HMPREF1058_RS18115 0.60 +0.4
256,926 - HMPREF1058_RS18115 0.67 +0.1
256,928 + HMPREF1058_RS18115 0.68 +0.6
256,940 - HMPREF1058_RS18115 0.69 +0.3
256,942 - HMPREF1058_RS18115 0.70 +1.3
256,962 - HMPREF1058_RS18115 0.72 +0.5
257,009 + HMPREF1058_RS18115 0.79 -0.2
257,015 + HMPREF1058_RS18115 0.80 -0.2
257,015 + HMPREF1058_RS18115 0.80 +0.3
257,015 + HMPREF1058_RS18115 0.80 -0.4
257,018 + HMPREF1058_RS18115 0.80 +0.7
257,019 - HMPREF1058_RS18115 0.80 -0.3
257,019 - HMPREF1058_RS18115 0.80 +0.6
257,028 + HMPREF1058_RS18115 0.81 +0.9
257,028 + HMPREF1058_RS18115 0.81 -0.3
257,029 - HMPREF1058_RS18115 0.81 +0.8
257,047 + HMPREF1058_RS18115 0.84 +0.1
257,100 - -0.4
257,151 - +0.3
257,161 + -0.2
257,195 - +0.6
257,244 + -0.4
257,248 + +0.5
257,249 - +0.4
257,262 + +0.3
257,262 + +0.3
257,262 + -0.1
257,263 - +0.6
257,266 + +1.4
257,266 + -0.7
257,267 - -0.1
257,269 - +0.1
257,381 + HMPREF1058_RS18110 0.20 -0.1
257,386 - HMPREF1058_RS18110 0.21 -0.7
257,395 + HMPREF1058_RS18110 0.22 +0.2
257,408 + HMPREF1058_RS18110 0.24 +0.3
257,424 - HMPREF1058_RS18110 0.27 +0.4
257,429 + HMPREF1058_RS18110 0.28 +0.4
257,460 - HMPREF1058_RS18110 0.33 +0.4
257,481 + HMPREF1058_RS18110 0.37 +1.2
257,535 + HMPREF1058_RS18110 0.46 +0.6
257,536 - HMPREF1058_RS18110 0.46 -0.4
257,606 + HMPREF1058_RS18110 0.58 +0.3
257,606 + HMPREF1058_RS18110 0.58 -0.1
257,607 - HMPREF1058_RS18110 0.58 +0.1
257,607 - HMPREF1058_RS18110 0.58 -0.4
257,607 - HMPREF1058_RS18110 0.58 +0.6
257,709 + HMPREF1058_RS18110 0.76 -0.1
257,729 - HMPREF1058_RS18110 0.79 +0.3
257,753 - HMPREF1058_RS18110 0.83 +0.7
257,765 + HMPREF1058_RS18110 0.85 +1.6
257,798 - -1.6
257,802 + +0.3
257,832 + +0.5
257,832 + -0.1
257,833 - +0.4
257,833 - +0.3
257,834 + +0.6
257,835 - +0.1
257,950 + +0.0
257,951 - +0.8
258,003 - HMPREF1058_RS18105 0.11 -0.4
258,142 - HMPREF1058_RS18105 0.21 +0.1
258,191 - HMPREF1058_RS18105 0.24 -0.1
258,191 - HMPREF1058_RS18105 0.24 +0.2
258,253 + HMPREF1058_RS18105 0.29 +0.3
258,270 - HMPREF1058_RS18105 0.30 -0.4
258,270 - HMPREF1058_RS18105 0.30 +0.9
258,276 - HMPREF1058_RS18105 0.31 +0.6
258,280 - HMPREF1058_RS18105 0.31 -0.0
258,291 - HMPREF1058_RS18105 0.32 -0.2
258,291 - HMPREF1058_RS18105 0.32 +0.1
258,291 - HMPREF1058_RS18105 0.32 +1.7
258,291 - HMPREF1058_RS18105 0.32 +0.7
258,291 - HMPREF1058_RS18105 0.32 +0.3
258,296 + HMPREF1058_RS18105 0.32 +0.7
258,332 + HMPREF1058_RS18105 0.35 -0.1
258,356 + HMPREF1058_RS18105 0.37 -0.3
258,359 + HMPREF1058_RS18105 0.37 +0.3
258,360 - HMPREF1058_RS18105 0.37 +0.5
258,377 + HMPREF1058_RS18105 0.38 +1.1
258,380 + HMPREF1058_RS18105 0.38 +1.2
258,381 - HMPREF1058_RS18105 0.38 +0.4
258,425 + HMPREF1058_RS18105 0.42 +1.5
258,425 + HMPREF1058_RS18105 0.42 -0.2
258,426 - HMPREF1058_RS18105 0.42 +0.3
258,426 - HMPREF1058_RS18105 0.42 +0.3
258,427 + HMPREF1058_RS18105 0.42 +0.3
258,427 + HMPREF1058_RS18105 0.42 +0.3
258,427 + HMPREF1058_RS18105 0.42 +0.4
258,432 - HMPREF1058_RS18105 0.42 +0.9
258,540 - HMPREF1058_RS18105 0.50 -0.5
258,578 + HMPREF1058_RS18105 0.53 +0.4
258,579 - HMPREF1058_RS18105 0.53 +0.3
258,582 + HMPREF1058_RS18105 0.53 -0.1
258,683 + HMPREF1058_RS18105 0.60 -0.3
258,684 - HMPREF1058_RS18105 0.61 +0.3
258,688 + HMPREF1058_RS18105 0.61 +1.7
258,692 + HMPREF1058_RS18105 0.61 +0.6
258,693 - HMPREF1058_RS18105 0.61 +0.6
258,745 - HMPREF1058_RS18105 0.65 +0.7
258,816 - HMPREF1058_RS18105 0.70 +0.2
258,816 - HMPREF1058_RS18105 0.70 +0.7

Or see this region's nucleotide sequence