Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS18105

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_RS18115 and HMPREF1058_RS18110 are separated by 101 nucleotidesHMPREF1058_RS18110 and HMPREF1058_RS18105 are separated by 3 nucleotidesHMPREF1058_RS18105 and HMPREF1058_RS18100 overlap by 4 nucleotides 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 HMPREF1058_RS18100: HMPREF1058_RS18100 - (Fe-S)-binding protein, at 259,220 to 259,960 _RS18100 Position (kb) 257 258 259 260Strain fitness (log2 ratio) -2 -1 0 1 2 3 4at 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 256.939 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 257.194 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 257.267 kb on - strandat 257.269 kb on - strandat 257.355 kb on - strand, within HMPREF1058_RS18110at 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 + strandat 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_RS18105at 258.872 kb on + strand, within HMPREF1058_RS18105at 258.956 kb on + strand, within HMPREF1058_RS18105at 259.052 kb on + strand, within HMPREF1058_RS18105at 259.053 kb on - strand, within HMPREF1058_RS18105at 259.056 kb on - strand, within HMPREF1058_RS18105at 259.056 kb on - strand, within HMPREF1058_RS18105at 259.060 kb on - strand, within HMPREF1058_RS18105at 259.060 kb on - strand, within HMPREF1058_RS18105at 259.067 kb on + strand, within HMPREF1058_RS18105at 259.079 kb on + strand, within HMPREF1058_RS18105at 259.112 kb on + strandat 259.224 kb on - strandat 259.224 kb on - strandat 259.332 kb on + strand, within HMPREF1058_RS18100at 259.352 kb on - strand, within HMPREF1058_RS18100at 259.473 kb on - strand, within HMPREF1058_RS18100at 259.475 kb on + strand, within HMPREF1058_RS18100at 259.475 kb on + strand, within HMPREF1058_RS18100at 259.583 kb on - strand, within HMPREF1058_RS18100at 259.643 kb on - strand, within HMPREF1058_RS18100at 259.643 kb on - strand, within HMPREF1058_RS18100at 259.647 kb on + strand, within HMPREF1058_RS18100at 259.647 kb on + strand, within HMPREF1058_RS18100at 259.648 kb on - strand, within HMPREF1058_RS18100at 259.648 kb on - strand, within HMPREF1058_RS18100at 259.650 kb on - strand, within HMPREF1058_RS18100at 259.655 kb on - strand, within HMPREF1058_RS18100at 259.701 kb on + strand, within HMPREF1058_RS18100at 259.702 kb on - strand, within HMPREF1058_RS18100at 259.702 kb on - strand, within HMPREF1058_RS18100at 259.747 kb on + strand, within HMPREF1058_RS18100at 259.747 kb on + strand, within HMPREF1058_RS18100at 259.748 kb on - strand, within HMPREF1058_RS18100at 259.748 kb on - strand, within HMPREF1058_RS18100at 259.932 kb on + strandat 259.952 kb on + strandat 259.953 kb on - strandat 259.968 kb on - strandat 259.972 kb on - strandat 259.983 kb on + strandat 260.069 kb on + strandat 260.072 kb on + strandat 260.090 kb on + strandat 260.091 kb on - strandat 260.093 kb on + strandat 260.142 kb on + strandat 260.146 kb on - strandat 260.182 kb on - strandat 260.186 kb on + strandat 260.187 kb on - strandat 260.187 kb on - strandat 260.187 kb on - strandat 260.200 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day4
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256,871 + HMPREF1058_RS18115 0.60 -0.1
256,871 + HMPREF1058_RS18115 0.60 +1.0
256,872 - HMPREF1058_RS18115 0.60 +0.5
256,872 - HMPREF1058_RS18115 0.60 -0.0
256,876 - HMPREF1058_RS18115 0.60 +1.6
256,926 - HMPREF1058_RS18115 0.67 +0.7
256,928 + HMPREF1058_RS18115 0.68 +0.6
256,939 + HMPREF1058_RS18115 0.69 -0.0
256,940 - HMPREF1058_RS18115 0.69 -0.4
256,942 - HMPREF1058_RS18115 0.70 -0.0
256,962 - HMPREF1058_RS18115 0.72 +0.6
257,009 + HMPREF1058_RS18115 0.79 +0.5
257,015 + HMPREF1058_RS18115 0.80 +1.1
257,015 + HMPREF1058_RS18115 0.80 -2.2
257,015 + HMPREF1058_RS18115 0.80 -1.0
257,018 + HMPREF1058_RS18115 0.80 -0.4
257,019 - HMPREF1058_RS18115 0.80 +1.0
257,019 - HMPREF1058_RS18115 0.80 -0.0
257,028 + HMPREF1058_RS18115 0.81 -1.9
257,028 + HMPREF1058_RS18115 0.81 +1.5
257,029 - HMPREF1058_RS18115 0.81 +0.3
257,047 + HMPREF1058_RS18115 0.84 +0.8
257,100 - +1.4
257,151 - -0.8
257,161 + +0.7
257,194 + +1.0
257,195 - +1.3
257,244 + +1.6
257,248 + -1.5
257,249 - +2.0
257,262 + +0.6
257,262 + -0.2
257,262 + +0.4
257,263 - +0.1
257,266 + +0.6
257,266 + -0.4
257,267 - -0.0
257,267 - -1.0
257,269 - -0.7
257,355 - HMPREF1058_RS18110 0.15 +1.6
257,381 + HMPREF1058_RS18110 0.20 +1.3
257,386 - HMPREF1058_RS18110 0.21 +0.2
257,395 + HMPREF1058_RS18110 0.22 -0.9
257,408 + HMPREF1058_RS18110 0.24 +1.6
257,424 - HMPREF1058_RS18110 0.27 +2.4
257,429 + HMPREF1058_RS18110 0.28 -1.1
257,460 - HMPREF1058_RS18110 0.33 +2.1
257,481 + HMPREF1058_RS18110 0.37 +1.2
257,535 + +2.0
257,535 + HMPREF1058_RS18110 0.46 -2.0
257,536 - HMPREF1058_RS18110 0.46 -0.0
257,606 + HMPREF1058_RS18110 0.58 -0.3
257,606 + HMPREF1058_RS18110 0.58 -1.8
257,607 - HMPREF1058_RS18110 0.58 +1.2
257,607 - HMPREF1058_RS18110 0.58 -1.6
257,607 - HMPREF1058_RS18110 0.58 +1.0
257,709 + HMPREF1058_RS18110 0.76 +1.2
257,729 - HMPREF1058_RS18110 0.79 +1.6
257,753 - HMPREF1058_RS18110 0.83 -1.8
257,765 + HMPREF1058_RS18110 0.85 +0.8
257,798 - -2.4
257,802 + -0.5
257,832 + -0.3
257,832 + -1.5
257,833 - +0.1
257,833 - +1.0
257,834 + +1.0
257,835 - -0.7
257,950 + -0.0
257,951 - -0.0
258,003 - HMPREF1058_RS18105 0.11 -2.3
258,142 - HMPREF1058_RS18105 0.21 -1.0
258,191 - HMPREF1058_RS18105 0.24 -0.5
258,191 - HMPREF1058_RS18105 0.24 -0.4
258,253 + HMPREF1058_RS18105 0.29 +1.4
258,270 - HMPREF1058_RS18105 0.30 -2.0
258,270 - HMPREF1058_RS18105 0.30 -2.6
258,276 - HMPREF1058_RS18105 0.31 -1.4
258,280 - HMPREF1058_RS18105 0.31 +1.0
258,291 - HMPREF1058_RS18105 0.32 +1.1
258,291 - HMPREF1058_RS18105 0.32 +0.7
258,291 - HMPREF1058_RS18105 0.32 -1.0
258,291 - HMPREF1058_RS18105 0.32 +1.8
258,291 - HMPREF1058_RS18105 0.32 +0.5
258,296 + HMPREF1058_RS18105 0.32 -1.6
258,332 + HMPREF1058_RS18105 0.35 -1.0
258,356 + HMPREF1058_RS18105 0.37 +3.1
258,359 + HMPREF1058_RS18105 0.37 -2.1
258,360 - HMPREF1058_RS18105 0.37 -1.6
258,377 + HMPREF1058_RS18105 0.38 +1.2
258,380 + HMPREF1058_RS18105 0.38 -0.8
258,381 - HMPREF1058_RS18105 0.38 -2.4
258,425 + HMPREF1058_RS18105 0.42 +1.7
258,425 + HMPREF1058_RS18105 0.42 -1.8
258,426 - HMPREF1058_RS18105 0.42 -0.0
258,426 - HMPREF1058_RS18105 0.42 +0.2
258,427 + HMPREF1058_RS18105 0.42 +4.1
258,427 + HMPREF1058_RS18105 0.42 -1.4
258,427 + HMPREF1058_RS18105 0.42 -0.5
258,432 - HMPREF1058_RS18105 0.42 -0.8
258,540 - HMPREF1058_RS18105 0.50 +1.3
258,578 + HMPREF1058_RS18105 0.53 -0.4
258,579 - HMPREF1058_RS18105 0.53 -0.1
258,582 + HMPREF1058_RS18105 0.53 -1.6
258,683 + HMPREF1058_RS18105 0.60 -1.2
258,684 - HMPREF1058_RS18105 0.61 -0.3
258,688 + HMPREF1058_RS18105 0.61 +1.3
258,692 + HMPREF1058_RS18105 0.61 +1.0
258,693 - HMPREF1058_RS18105 0.61 +1.4
258,745 - HMPREF1058_RS18105 0.65 -1.6
258,816 - HMPREF1058_RS18105 0.70 -0.3
258,816 - HMPREF1058_RS18105 0.70 +1.0
258,872 + HMPREF1058_RS18105 0.74 -1.0
258,956 + HMPREF1058_RS18105 0.80 -1.2
259,052 + HMPREF1058_RS18105 0.87 +0.6
259,053 - HMPREF1058_RS18105 0.88 -0.2
259,056 - HMPREF1058_RS18105 0.88 -0.0
259,056 - HMPREF1058_RS18105 0.88 +2.1
259,060 - HMPREF1058_RS18105 0.88 -1.0
259,060 - HMPREF1058_RS18105 0.88 -0.5
259,067 + HMPREF1058_RS18105 0.89 +0.2
259,079 + HMPREF1058_RS18105 0.89 +0.7
259,112 + -0.7
259,224 - -0.8
259,224 - +1.0
259,332 + HMPREF1058_RS18100 0.15 -0.4
259,352 - HMPREF1058_RS18100 0.18 +0.3
259,473 - HMPREF1058_RS18100 0.34 -2.6
259,475 + HMPREF1058_RS18100 0.34 -1.6
259,475 + HMPREF1058_RS18100 0.34 -1.0
259,583 - HMPREF1058_RS18100 0.49 +0.2
259,643 - HMPREF1058_RS18100 0.57 -1.6
259,643 - HMPREF1058_RS18100 0.57 -2.6
259,647 + HMPREF1058_RS18100 0.58 +0.3
259,647 + HMPREF1058_RS18100 0.58 +3.8
259,648 - HMPREF1058_RS18100 0.58 +0.8
259,648 - HMPREF1058_RS18100 0.58 -0.8
259,650 - HMPREF1058_RS18100 0.58 +0.1
259,655 - HMPREF1058_RS18100 0.59 +0.3
259,701 + HMPREF1058_RS18100 0.65 +0.9
259,702 - HMPREF1058_RS18100 0.65 -2.5
259,702 - HMPREF1058_RS18100 0.65 +1.0
259,747 + HMPREF1058_RS18100 0.71 +0.4
259,747 + HMPREF1058_RS18100 0.71 -0.4
259,748 - HMPREF1058_RS18100 0.71 -0.2
259,748 - HMPREF1058_RS18100 0.71 -1.0
259,932 + -1.2
259,952 + -0.5
259,953 - -1.7
259,968 - -2.0
259,972 - -1.0
259,983 + -1.0
260,069 + -1.6
260,072 + +0.2
260,090 + +0.7
260,091 - -1.0
260,093 + +0.1
260,142 + -0.0
260,146 - +1.2
260,182 - -0.0
260,186 + -0.6
260,187 - +1.1
260,187 - +1.6
260,187 - -0.6
260,200 - +0.2

Or see this region's nucleotide sequence