Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS18030

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; day2

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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_RS18035 and HMPREF1058_RS18030 are separated by 61 nucleotidesHMPREF1058_RS18030 and HMPREF1058_RS18025 are separated by 48 nucleotides HMPREF1058_RS18035: HMPREF1058_RS18035 - 6-phosphogluconolactonase, at 272,531 to 273,235 _RS18035 HMPREF1058_RS18030: HMPREF1058_RS18030 - glucose-6-phosphate dehydrogenase, at 273,297 to 274,805 _RS18030 HMPREF1058_RS18025: HMPREF1058_RS18025 - decarboxylating NADP(+)-dependent phosphogluconate dehydrogenase, at 274,854 to 276,290 _RS18025 Position (kb) 273 274 275Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 272.342 kb on + strandat 272.342 kb on + strandat 272.343 kb on - strandat 272.363 kb on - strandat 272.460 kb on + strandat 272.461 kb on - strandat 272.461 kb on - strandat 272.469 kb on + strandat 272.470 kb on - strandat 272.498 kb on - strandat 272.520 kb on + strandat 272.529 kb on + strandat 272.533 kb on - strandat 272.538 kb on - strandat 272.550 kb on + strandat 272.551 kb on - strandat 272.564 kb on - strandat 272.582 kb on - strandat 272.584 kb on - strandat 272.584 kb on - strandat 272.672 kb on - strand, within HMPREF1058_RS18035at 272.710 kb on + strand, within HMPREF1058_RS18035at 272.728 kb on - strand, within HMPREF1058_RS18035at 272.748 kb on + strand, within HMPREF1058_RS18035at 272.800 kb on + strand, within HMPREF1058_RS18035at 272.801 kb on - strand, within HMPREF1058_RS18035at 272.801 kb on - strand, within HMPREF1058_RS18035at 272.826 kb on - strand, within HMPREF1058_RS18035at 272.889 kb on + strand, within HMPREF1058_RS18035at 272.889 kb on + strand, within HMPREF1058_RS18035at 272.938 kb on - strand, within HMPREF1058_RS18035at 272.938 kb on - strand, within HMPREF1058_RS18035at 272.957 kb on + strand, within HMPREF1058_RS18035at 272.958 kb on - strand, within HMPREF1058_RS18035at 272.958 kb on - strand, within HMPREF1058_RS18035at 272.963 kb on - strand, within HMPREF1058_RS18035at 273.066 kb on + strand, within HMPREF1058_RS18035at 273.066 kb on + strand, within HMPREF1058_RS18035at 273.066 kb on + strand, within HMPREF1058_RS18035at 273.067 kb on - strand, within HMPREF1058_RS18035at 273.113 kb on - strand, within HMPREF1058_RS18035at 273.137 kb on - strand, within HMPREF1058_RS18035at 273.173 kb on + strandat 273.174 kb on - strandat 273.176 kb on - strandat 273.176 kb on - strandat 273.183 kb on - strandat 273.204 kb on - strandat 273.217 kb on - strandat 273.256 kb on + strandat 273.277 kb on + strandat 273.305 kb on + strandat 273.376 kb on - strandat 273.462 kb on - strand, within HMPREF1058_RS18030at 273.470 kb on - strand, within HMPREF1058_RS18030at 273.513 kb on - strand, within HMPREF1058_RS18030at 273.550 kb on + strand, within HMPREF1058_RS18030at 273.550 kb on + strand, within HMPREF1058_RS18030at 273.550 kb on + strand, within HMPREF1058_RS18030at 273.550 kb on + strand, within HMPREF1058_RS18030at 273.551 kb on - strand, within HMPREF1058_RS18030at 273.551 kb on - strand, within HMPREF1058_RS18030at 273.614 kb on - strand, within HMPREF1058_RS18030at 273.700 kb on + strand, within HMPREF1058_RS18030at 273.853 kb on + strand, within HMPREF1058_RS18030at 273.857 kb on + strand, within HMPREF1058_RS18030at 273.858 kb on - strand, within HMPREF1058_RS18030at 273.953 kb on + strand, within HMPREF1058_RS18030at 273.955 kb on + strand, within HMPREF1058_RS18030at 273.955 kb on + strand, within HMPREF1058_RS18030at 273.956 kb on - strand, within HMPREF1058_RS18030at 273.960 kb on - strand, within HMPREF1058_RS18030at 273.960 kb on - strand, within HMPREF1058_RS18030at 274.053 kb on - strand, within HMPREF1058_RS18030at 274.111 kb on + strand, within HMPREF1058_RS18030at 274.112 kb on - strand, within HMPREF1058_RS18030at 274.131 kb on + strand, within HMPREF1058_RS18030at 274.131 kb on + strand, within HMPREF1058_RS18030at 274.131 kb on + strand, within HMPREF1058_RS18030at 274.132 kb on - strand, within HMPREF1058_RS18030at 274.132 kb on - strand, within HMPREF1058_RS18030at 274.132 kb on - strand, within HMPREF1058_RS18030at 274.132 kb on - strand, within HMPREF1058_RS18030at 274.132 kb on - strand, within HMPREF1058_RS18030at 274.161 kb on + strand, within HMPREF1058_RS18030at 274.165 kb on + strand, within HMPREF1058_RS18030at 274.165 kb on + strand, within HMPREF1058_RS18030at 274.165 kb on + strand, within HMPREF1058_RS18030at 274.166 kb on - strand, within HMPREF1058_RS18030at 274.175 kb on - strand, within HMPREF1058_RS18030at 274.203 kb on - strand, within HMPREF1058_RS18030at 274.227 kb on - strand, within HMPREF1058_RS18030at 274.308 kb on - strand, within HMPREF1058_RS18030at 274.362 kb on - strand, within HMPREF1058_RS18030at 274.456 kb on + strand, within HMPREF1058_RS18030at 274.456 kb on + strand, within HMPREF1058_RS18030at 274.516 kb on + strand, within HMPREF1058_RS18030at 274.516 kb on + strand, within HMPREF1058_RS18030at 274.657 kb on + strandat 274.716 kb on + strandat 274.716 kb on + strandat 274.717 kb on - strandat 274.717 kb on - strandat 274.830 kb on + strandat 274.831 kb on - strandat 274.831 kb on - strandat 274.831 kb on - strandat 274.831 kb on - strandat 274.853 kb on - strandat 274.853 kb on - strandat 274.853 kb on - strandat 274.919 kb on + strandat 274.993 kb on + strandat 275.054 kb on - strand, within HMPREF1058_RS18025at 275.082 kb on + strand, within HMPREF1058_RS18025at 275.177 kb on + strand, within HMPREF1058_RS18025at 275.275 kb on + strand, within HMPREF1058_RS18025at 275.275 kb on + strand, within HMPREF1058_RS18025at 275.296 kb on + strandat 275.336 kb on + strand, within HMPREF1058_RS18025at 275.337 kb on - strand, within HMPREF1058_RS18025at 275.364 kb on - strand, within HMPREF1058_RS18025at 275.364 kb on - strand, within HMPREF1058_RS18025at 275.366 kb on - strand, within HMPREF1058_RS18025at 275.366 kb on - strand, within HMPREF1058_RS18025at 275.450 kb on + strand, within HMPREF1058_RS18025at 275.451 kb on - strand, within HMPREF1058_RS18025at 275.461 kb on - strand, within HMPREF1058_RS18025at 275.571 kb on - strand, within HMPREF1058_RS18025at 275.571 kb on - strand, within HMPREF1058_RS18025at 275.584 kb on + strand, within HMPREF1058_RS18025at 275.588 kb on + strand, within HMPREF1058_RS18025at 275.588 kb on + strand, within HMPREF1058_RS18025at 275.589 kb on - strand, within HMPREF1058_RS18025at 275.672 kb on - strand, within HMPREF1058_RS18025at 275.707 kb on - strand, within HMPREF1058_RS18025

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; day2
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272,342 + -0.3
272,342 + -0.7
272,343 - -3.2
272,363 - +2.1
272,460 + +0.3
272,461 - -2.5
272,461 - -1.7
272,469 + +2.0
272,470 - +2.3
272,498 - -2.1
272,520 + -3.1
272,529 + -0.5
272,533 - -0.7
272,538 - -0.7
272,550 + -1.3
272,551 - +0.9
272,564 - +0.1
272,582 - +0.3
272,584 - +0.3
272,584 - +0.9
272,672 - HMPREF1058_RS18035 0.20 -0.7
272,710 + HMPREF1058_RS18035 0.25 -0.7
272,728 - HMPREF1058_RS18035 0.28 +0.9
272,748 + HMPREF1058_RS18035 0.31 -0.9
272,800 + HMPREF1058_RS18035 0.38 +0.3
272,801 - HMPREF1058_RS18035 0.38 -2.7
272,801 - HMPREF1058_RS18035 0.38 -3.9
272,826 - HMPREF1058_RS18035 0.42 -3.2
272,889 + HMPREF1058_RS18035 0.51 +0.1
272,889 + HMPREF1058_RS18035 0.51 -0.7
272,938 - HMPREF1058_RS18035 0.58 +1.6
272,938 - HMPREF1058_RS18035 0.58 +3.4
272,957 + HMPREF1058_RS18035 0.60 -2.3
272,958 - HMPREF1058_RS18035 0.61 +1.5
272,958 - HMPREF1058_RS18035 0.61 +0.3
272,963 - HMPREF1058_RS18035 0.61 -0.1
273,066 + HMPREF1058_RS18035 0.76 +0.3
273,066 + HMPREF1058_RS18035 0.76 -2.1
273,066 + HMPREF1058_RS18035 0.76 +0.6
273,067 - HMPREF1058_RS18035 0.76 +0.1
273,113 - HMPREF1058_RS18035 0.83 +0.4
273,137 - HMPREF1058_RS18035 0.86 -0.6
273,173 + -1.1
273,174 - +2.5
273,176 - +1.3
273,176 - +1.3
273,183 - +0.8
273,204 - +1.8
273,217 - -2.7
273,256 + -2.3
273,277 + -2.9
273,305 + +2.3
273,376 - -1.3
273,462 - HMPREF1058_RS18030 0.11 -0.7
273,470 - HMPREF1058_RS18030 0.11 +0.1
273,513 - HMPREF1058_RS18030 0.14 +0.5
273,550 + HMPREF1058_RS18030 0.17 -0.7
273,550 + HMPREF1058_RS18030 0.17 -0.7
273,550 + HMPREF1058_RS18030 0.17 +3.6
273,550 + HMPREF1058_RS18030 0.17 -2.1
273,551 - HMPREF1058_RS18030 0.17 +0.3
273,551 - HMPREF1058_RS18030 0.17 +0.3
273,614 - HMPREF1058_RS18030 0.21 -2.3
273,700 + HMPREF1058_RS18030 0.27 -2.9
273,853 + HMPREF1058_RS18030 0.37 +0.0
273,857 + HMPREF1058_RS18030 0.37 -1.7
273,858 - HMPREF1058_RS18030 0.37 -1.3
273,953 + HMPREF1058_RS18030 0.43 +1.5
273,955 + HMPREF1058_RS18030 0.44 +0.3
273,955 + HMPREF1058_RS18030 0.44 -2.3
273,956 - HMPREF1058_RS18030 0.44 -1.8
273,960 - HMPREF1058_RS18030 0.44 +2.0
273,960 - HMPREF1058_RS18030 0.44 -0.9
274,053 - HMPREF1058_RS18030 0.50 -2.5
274,111 + HMPREF1058_RS18030 0.54 -0.2
274,112 - HMPREF1058_RS18030 0.54 +0.3
274,131 + HMPREF1058_RS18030 0.55 -2.1
274,131 + HMPREF1058_RS18030 0.55 -1.3
274,131 + HMPREF1058_RS18030 0.55 -2.3
274,132 - HMPREF1058_RS18030 0.55 -2.9
274,132 - HMPREF1058_RS18030 0.55 -1.3
274,132 - HMPREF1058_RS18030 0.55 +0.8
274,132 - HMPREF1058_RS18030 0.55 +0.7
274,132 - HMPREF1058_RS18030 0.55 -2.1
274,161 + HMPREF1058_RS18030 0.57 +0.3
274,165 + HMPREF1058_RS18030 0.58 -0.7
274,165 + HMPREF1058_RS18030 0.58 -0.7
274,165 + HMPREF1058_RS18030 0.58 +1.1
274,166 - HMPREF1058_RS18030 0.58 +0.5
274,175 - HMPREF1058_RS18030 0.58 +1.0
274,203 - HMPREF1058_RS18030 0.60 +1.1
274,227 - HMPREF1058_RS18030 0.62 -2.5
274,308 - HMPREF1058_RS18030 0.67 -0.2
274,362 - HMPREF1058_RS18030 0.71 +0.3
274,456 + HMPREF1058_RS18030 0.77 -0.7
274,456 + HMPREF1058_RS18030 0.77 +1.0
274,516 + HMPREF1058_RS18030 0.81 +1.0
274,516 + HMPREF1058_RS18030 0.81 +0.4
274,657 + -2.7
274,716 + +1.3
274,716 + -1.1
274,717 - -0.2
274,717 - +0.8
274,830 + +0.7
274,831 - +1.6
274,831 - -1.3
274,831 - -0.6
274,831 - +1.5
274,853 - +1.5
274,853 - +0.7
274,853 - -1.7
274,919 + -2.3
274,993 + +2.3
275,054 - HMPREF1058_RS18025 0.14 -2.1
275,082 + HMPREF1058_RS18025 0.16 +1.0
275,177 + HMPREF1058_RS18025 0.22 -3.7
275,275 + HMPREF1058_RS18025 0.29 -1.3
275,275 + HMPREF1058_RS18025 0.29 -1.3
275,296 + -1.3
275,336 + HMPREF1058_RS18025 0.34 +2.8
275,337 - HMPREF1058_RS18025 0.34 -2.9
275,364 - HMPREF1058_RS18025 0.35 -0.4
275,364 - HMPREF1058_RS18025 0.35 -3.4
275,366 - HMPREF1058_RS18025 0.36 -0.1
275,366 - HMPREF1058_RS18025 0.36 -0.4
275,450 + HMPREF1058_RS18025 0.41 +0.5
275,451 - HMPREF1058_RS18025 0.42 -4.2
275,461 - HMPREF1058_RS18025 0.42 -3.4
275,571 - HMPREF1058_RS18025 0.50 -2.2
275,571 - HMPREF1058_RS18025 0.50 -1.1
275,584 + HMPREF1058_RS18025 0.51 +0.3
275,588 + HMPREF1058_RS18025 0.51 +0.3
275,588 + HMPREF1058_RS18025 0.51 +0.9
275,589 - HMPREF1058_RS18025 0.51 -2.7
275,672 - HMPREF1058_RS18025 0.57 -2.1
275,707 - HMPREF1058_RS18025 0.59 +0.3

Or see this region's nucleotide sequence