Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS21380

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse14; day3

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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_RS19080 and HMPREF1058_RS19075 overlap by 11 nucleotidesHMPREF1058_RS19075 and HMPREF1058_RS19070 are separated by 11 nucleotidesHMPREF1058_RS19070 and HMPREF1058_RS21380 are separated by 16 nucleotidesHMPREF1058_RS21380 and HMPREF1058_RS19065 are separated by 214 nucleotidesHMPREF1058_RS19065 and HMPREF1058_RS19060 overlap by 4 nucleotidesHMPREF1058_RS19060 and HMPREF1058_RS0119250 are separated by 13 nucleotides HMPREF1058_RS19080: HMPREF1058_RS19080 - hypothetical protein, at 26,188 to 26,373 _RS19080 HMPREF1058_RS19075: HMPREF1058_RS19075 - DUF3560 domain-containing protein, at 26,363 to 27,013 _RS19075 HMPREF1058_RS19070: HMPREF1058_RS19070 - hypothetical protein, at 27,025 to 27,309 _RS19070 HMPREF1058_RS21380: HMPREF1058_RS21380 - hypothetical protein, at 27,326 to 27,499 _RS21380 HMPREF1058_RS19065: HMPREF1058_RS19065 - helix-turn-helix domain-containing protein, at 27,714 to 28,025 _RS19065 HMPREF1058_RS19060: HMPREF1058_RS19060 - type II toxin-antitoxin system RelE/ParE family toxin, at 28,022 to 28,387 _RS19060 HMPREF1058_RS0119250: HMPREF1058_RS0119250 - hypothetical protein, at 28,401 to 28,688 _RS0119250 Position (kb) 27 28Strain fitness (log2 ratio) -3 -2 -1 0 1at 26.400 kb on + strandat 26.436 kb on + strand, within HMPREF1058_RS19075at 26.441 kb on - strand, within HMPREF1058_RS19075at 26.441 kb on - strand, within HMPREF1058_RS19075at 26.448 kb on + strand, within HMPREF1058_RS19075at 26.515 kb on + strand, within HMPREF1058_RS19075at 26.516 kb on - strand, within HMPREF1058_RS19075at 26.711 kb on + strand, within HMPREF1058_RS19075at 26.728 kb on + strand, within HMPREF1058_RS19075at 26.825 kb on + strand, within HMPREF1058_RS19075at 26.825 kb on + strand, within HMPREF1058_RS19075at 26.857 kb on - strand, within HMPREF1058_RS19075at 26.857 kb on - strand, within HMPREF1058_RS19075at 26.863 kb on - strand, within HMPREF1058_RS19075at 26.863 kb on - strand, within HMPREF1058_RS19075at 26.890 kb on + strand, within HMPREF1058_RS19075at 26.920 kb on - strand, within HMPREF1058_RS19075at 26.930 kb on - strand, within HMPREF1058_RS19075at 26.938 kb on + strand, within HMPREF1058_RS19075at 27.007 kb on + strandat 27.008 kb on - strandat 27.008 kb on - strandat 27.013 kb on + strandat 27.019 kb on + strandat 27.046 kb on + strandat 27.098 kb on - strand, within HMPREF1058_RS19070at 27.251 kb on + strand, within HMPREF1058_RS19070at 27.252 kb on - strand, within HMPREF1058_RS19070at 27.255 kb on + strand, within HMPREF1058_RS19070at 27.263 kb on + strand, within HMPREF1058_RS19070at 27.264 kb on - strand, within HMPREF1058_RS19070at 27.264 kb on - strand, within HMPREF1058_RS19070at 27.264 kb on - strand, within HMPREF1058_RS19070at 27.325 kb on - strandat 27.367 kb on + strand, within HMPREF1058_RS21380at 27.368 kb on - strand, within HMPREF1058_RS21380at 27.392 kb on - strand, within HMPREF1058_RS21380at 27.392 kb on - strand, within HMPREF1058_RS21380at 27.472 kb on - strand, within HMPREF1058_RS21380at 27.481 kb on + strand, within HMPREF1058_RS21380at 27.514 kb on - strandat 27.514 kb on - strandat 27.523 kb on + strandat 27.524 kb on - strandat 27.526 kb on + strandat 27.527 kb on - strandat 27.527 kb on - strandat 28.128 kb on - strand, within HMPREF1058_RS19060at 28.204 kb on - strand, within HMPREF1058_RS19060at 28.206 kb on - strand, within HMPREF1058_RS19060at 28.230 kb on - strand, within HMPREF1058_RS19060at 28.230 kb on - strand, within HMPREF1058_RS19060at 28.232 kb on - strand, within HMPREF1058_RS19060at 28.234 kb on - strand, within HMPREF1058_RS19060at 28.234 kb on - strand, within HMPREF1058_RS19060at 28.239 kb on - strand, within HMPREF1058_RS19060at 28.252 kb on - strand, within HMPREF1058_RS19060at 28.252 kb on - strand, within HMPREF1058_RS19060at 28.252 kb on - strand, within HMPREF1058_RS19060at 28.318 kb on - strand, within HMPREF1058_RS19060at 28.356 kb on - strandat 28.411 kb on - strandat 28.413 kb on - strandat 28.439 kb on + strand, within HMPREF1058_RS0119250at 28.439 kb on + strand, within HMPREF1058_RS0119250at 28.439 kb on + strand, within HMPREF1058_RS0119250at 28.440 kb on - strand, within HMPREF1058_RS0119250at 28.479 kb on + strand, within HMPREF1058_RS0119250

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse14; day3
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26,400 + +0.7
26,436 + HMPREF1058_RS19075 0.11 -1.2
26,441 - HMPREF1058_RS19075 0.12 +0.7
26,441 - HMPREF1058_RS19075 0.12 -0.3
26,448 + HMPREF1058_RS19075 0.13 -0.1
26,515 + HMPREF1058_RS19075 0.23 -1.1
26,516 - HMPREF1058_RS19075 0.24 -0.8
26,711 + HMPREF1058_RS19075 0.53 -0.3
26,728 + HMPREF1058_RS19075 0.56 -0.8
26,825 + HMPREF1058_RS19075 0.71 +0.5
26,825 + HMPREF1058_RS19075 0.71 -0.2
26,857 - HMPREF1058_RS19075 0.76 -0.6
26,857 - HMPREF1058_RS19075 0.76 +0.1
26,863 - HMPREF1058_RS19075 0.77 -0.7
26,863 - HMPREF1058_RS19075 0.77 -2.9
26,890 + HMPREF1058_RS19075 0.81 +0.2
26,920 - HMPREF1058_RS19075 0.86 -1.3
26,930 - HMPREF1058_RS19075 0.87 +0.0
26,938 + HMPREF1058_RS19075 0.88 -1.2
27,007 + +0.0
27,008 - -1.4
27,008 - +0.4
27,013 + -0.3
27,019 + +0.5
27,046 + -0.8
27,098 - HMPREF1058_RS19070 0.26 -1.1
27,251 + HMPREF1058_RS19070 0.79 +0.1
27,252 - HMPREF1058_RS19070 0.80 -0.4
27,255 + HMPREF1058_RS19070 0.81 +0.4
27,263 + HMPREF1058_RS19070 0.84 +0.6
27,264 - HMPREF1058_RS19070 0.84 +0.2
27,264 - HMPREF1058_RS19070 0.84 +0.1
27,264 - HMPREF1058_RS19070 0.84 -3.0
27,325 - +0.4
27,367 + HMPREF1058_RS21380 0.24 +0.6
27,368 - HMPREF1058_RS21380 0.24 -0.0
27,392 - HMPREF1058_RS21380 0.38 +1.5
27,392 - HMPREF1058_RS21380 0.38 +0.4
27,472 - HMPREF1058_RS21380 0.84 +0.7
27,481 + HMPREF1058_RS21380 0.89 +1.4
27,514 - +0.1
27,514 - -1.7
27,523 + +0.4
27,524 - -2.3
27,526 + -0.4
27,527 - -1.1
27,527 - +1.3
28,128 - HMPREF1058_RS19060 0.29 -1.1
28,204 - HMPREF1058_RS19060 0.50 +0.1
28,206 - HMPREF1058_RS19060 0.50 +0.0
28,230 - HMPREF1058_RS19060 0.57 -0.4
28,230 - HMPREF1058_RS19060 0.57 -1.2
28,232 - HMPREF1058_RS19060 0.57 -0.3
28,234 - HMPREF1058_RS19060 0.58 +0.5
28,234 - HMPREF1058_RS19060 0.58 -0.5
28,239 - HMPREF1058_RS19060 0.59 +0.6
28,252 - HMPREF1058_RS19060 0.63 +0.3
28,252 - HMPREF1058_RS19060 0.63 -0.4
28,252 - HMPREF1058_RS19060 0.63 +0.3
28,318 - HMPREF1058_RS19060 0.81 +1.3
28,356 - +0.2
28,411 - -1.8
28,413 - -0.3
28,439 + HMPREF1058_RS0119250 0.13 +0.2
28,439 + HMPREF1058_RS0119250 0.13 -0.0
28,439 + HMPREF1058_RS0119250 0.13 +1.0
28,440 - HMPREF1058_RS0119250 0.14 +0.2
28,479 + HMPREF1058_RS0119250 0.27 -0.6

Or see this region's nucleotide sequence