Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS17325

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; 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_RS17335 and HMPREF1058_RS17330 are separated by 132 nucleotidesHMPREF1058_RS17330 and HMPREF1058_RS17325 are separated by 1 nucleotidesHMPREF1058_RS17325 and HMPREF1058_RS17320 are separated by 3 nucleotidesHMPREF1058_RS17320 and HMPREF1058_RS17315 are separated by 10 nucleotides HMPREF1058_RS17335: HMPREF1058_RS17335 - hydroxymethylglutaryl-CoA lyase, at 467,008 to 468,534 _RS17335 HMPREF1058_RS17330: HMPREF1058_RS17330 - acylneuraminate cytidylyltransferase family protein, at 468,667 to 469,353 _RS17330 HMPREF1058_RS17325: HMPREF1058_RS17325 - sugar kinase, at 469,355 to 470,392 _RS17325 HMPREF1058_RS17320: HMPREF1058_RS17320 - hypothetical protein, at 470,396 to 471,175 _RS17320 HMPREF1058_RS17315: HMPREF1058_RS17315 - acyltransferase family protein, at 471,186 to 472,220 _RS17315 Position (kb) 469 470 471Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 468.367 kb on + strand, within HMPREF1058_RS17335at 468.376 kb on + strand, within HMPREF1058_RS17335at 468.377 kb on - strand, within HMPREF1058_RS17335at 468.377 kb on - strand, within HMPREF1058_RS17335at 468.378 kb on + strand, within HMPREF1058_RS17335at 468.379 kb on - strand, within HMPREF1058_RS17335at 468.445 kb on + strandat 468.446 kb on + strandat 468.491 kb on + strandat 468.493 kb on + strandat 468.494 kb on - strandat 468.506 kb on + strandat 468.612 kb on - strandat 468.732 kb on + strandat 468.876 kb on + strand, within HMPREF1058_RS17330at 468.947 kb on - strand, within HMPREF1058_RS17330at 468.996 kb on + strand, within HMPREF1058_RS17330at 469.020 kb on - strand, within HMPREF1058_RS17330at 469.020 kb on - strand, within HMPREF1058_RS17330at 469.022 kb on - strand, within HMPREF1058_RS17330at 469.027 kb on - strand, within HMPREF1058_RS17330at 469.027 kb on - strand, within HMPREF1058_RS17330at 469.034 kb on + strand, within HMPREF1058_RS17330at 469.034 kb on + strand, within HMPREF1058_RS17330at 469.042 kb on + strand, within HMPREF1058_RS17330at 469.095 kb on - strand, within HMPREF1058_RS17330at 469.107 kb on - strand, within HMPREF1058_RS17330at 469.137 kb on + strand, within HMPREF1058_RS17330at 469.148 kb on + strand, within HMPREF1058_RS17330at 469.149 kb on - strand, within HMPREF1058_RS17330at 469.200 kb on + strand, within HMPREF1058_RS17330at 469.200 kb on + strand, within HMPREF1058_RS17330at 469.201 kb on - strandat 469.225 kb on + strand, within HMPREF1058_RS17330at 469.265 kb on + strand, within HMPREF1058_RS17330at 469.268 kb on - strand, within HMPREF1058_RS17330at 469.271 kb on + strand, within HMPREF1058_RS17330at 469.318 kb on - strandat 469.336 kb on + strandat 469.337 kb on - strandat 469.430 kb on - strandat 469.440 kb on + strandat 469.440 kb on + strandat 469.441 kb on - strandat 469.441 kb on - strandat 469.441 kb on - strandat 469.488 kb on - strand, within HMPREF1058_RS17325at 469.505 kb on + strand, within HMPREF1058_RS17325at 469.506 kb on - strand, within HMPREF1058_RS17325at 469.507 kb on + strand, within HMPREF1058_RS17325at 469.511 kb on - strand, within HMPREF1058_RS17325at 469.531 kb on + strandat 469.692 kb on + strand, within HMPREF1058_RS17325at 469.709 kb on - strand, within HMPREF1058_RS17325at 469.736 kb on - strand, within HMPREF1058_RS17325at 469.830 kb on + strand, within HMPREF1058_RS17325at 469.849 kb on + strand, within HMPREF1058_RS17325at 469.850 kb on - strand, within HMPREF1058_RS17325at 470.084 kb on - strand, within HMPREF1058_RS17325at 470.114 kb on - strand, within HMPREF1058_RS17325at 470.116 kb on + strand, within HMPREF1058_RS17325at 470.136 kb on - strand, within HMPREF1058_RS17325at 470.151 kb on + strand, within HMPREF1058_RS17325at 470.153 kb on + strand, within HMPREF1058_RS17325at 470.165 kb on - strand, within HMPREF1058_RS17325at 470.170 kb on + strand, within HMPREF1058_RS17325at 470.171 kb on - strand, within HMPREF1058_RS17325at 470.173 kb on + strand, within HMPREF1058_RS17325at 470.174 kb on - strand, within HMPREF1058_RS17325at 470.177 kb on - strand, within HMPREF1058_RS17325at 470.187 kb on + strand, within HMPREF1058_RS17325at 470.191 kb on + strand, within HMPREF1058_RS17325at 470.230 kb on - strand, within HMPREF1058_RS17325at 470.230 kb on - strand, within HMPREF1058_RS17325at 470.230 kb on - strand, within HMPREF1058_RS17325at 470.230 kb on - strand, within HMPREF1058_RS17325at 470.230 kb on - strand, within HMPREF1058_RS17325at 470.230 kb on - strand, within HMPREF1058_RS17325at 470.232 kb on - strand, within HMPREF1058_RS17325at 470.305 kb on + strandat 470.321 kb on + strandat 470.332 kb on - strandat 470.332 kb on - strandat 470.368 kb on + strandat 470.551 kb on + strand, within HMPREF1058_RS17320at 470.551 kb on + strand, within HMPREF1058_RS17320at 470.551 kb on + strand, within HMPREF1058_RS17320at 470.552 kb on - strand, within HMPREF1058_RS17320at 470.553 kb on + strand, within HMPREF1058_RS17320at 470.554 kb on - strand, within HMPREF1058_RS17320at 470.559 kb on + strand, within HMPREF1058_RS17320at 470.575 kb on - strand, within HMPREF1058_RS17320at 470.614 kb on + strand, within HMPREF1058_RS17320at 470.645 kb on - strand, within HMPREF1058_RS17320at 470.670 kb on - strand, within HMPREF1058_RS17320at 470.670 kb on - strandat 470.677 kb on - strand, within HMPREF1058_RS17320at 470.698 kb on + strand, within HMPREF1058_RS17320at 470.761 kb on - strand, within HMPREF1058_RS17320at 470.764 kb on - strand, within HMPREF1058_RS17320at 470.786 kb on - strand, within HMPREF1058_RS17320at 470.816 kb on - strand, within HMPREF1058_RS17320at 470.820 kb on - strand, within HMPREF1058_RS17320at 470.820 kb on - strand, within HMPREF1058_RS17320at 470.906 kb on - strand, within HMPREF1058_RS17320at 470.908 kb on - strand, within HMPREF1058_RS17320at 470.937 kb on + strand, within HMPREF1058_RS17320at 471.025 kb on - strand, within HMPREF1058_RS17320at 471.103 kb on - strandat 471.103 kb on - strandat 471.283 kb on - strandat 471.287 kb on + strandat 471.343 kb on + strand, within HMPREF1058_RS17315at 471.378 kb on + strand, within HMPREF1058_RS17315at 471.379 kb on - strand, within HMPREF1058_RS17315at 471.385 kb on + strand, within HMPREF1058_RS17315

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; day4
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468,367 + HMPREF1058_RS17335 0.89 -2.0
468,376 + HMPREF1058_RS17335 0.90 +1.2
468,377 - HMPREF1058_RS17335 0.90 -0.3
468,377 - HMPREF1058_RS17335 0.90 -1.7
468,378 + HMPREF1058_RS17335 0.90 +0.8
468,379 - HMPREF1058_RS17335 0.90 +1.5
468,445 + -0.0
468,446 + +0.7
468,491 + -0.0
468,493 + +0.7
468,494 - -1.6
468,506 + -1.6
468,612 - +0.4
468,732 + +0.1
468,876 + HMPREF1058_RS17330 0.30 -3.9
468,947 - HMPREF1058_RS17330 0.41 -2.3
468,996 + HMPREF1058_RS17330 0.48 +1.6
469,020 - HMPREF1058_RS17330 0.51 -1.2
469,020 - HMPREF1058_RS17330 0.51 -0.5
469,022 - HMPREF1058_RS17330 0.52 -3.2
469,027 - HMPREF1058_RS17330 0.52 -0.6
469,027 - HMPREF1058_RS17330 0.52 -2.3
469,034 + HMPREF1058_RS17330 0.53 +0.4
469,034 + HMPREF1058_RS17330 0.53 -0.8
469,042 + HMPREF1058_RS17330 0.55 -2.0
469,095 - HMPREF1058_RS17330 0.62 -0.3
469,107 - HMPREF1058_RS17330 0.64 -0.4
469,137 + HMPREF1058_RS17330 0.68 -0.0
469,148 + HMPREF1058_RS17330 0.70 -0.4
469,149 - HMPREF1058_RS17330 0.70 -2.6
469,200 + HMPREF1058_RS17330 0.78 -2.2
469,200 + HMPREF1058_RS17330 0.78 -2.0
469,201 - +3.6
469,225 + HMPREF1058_RS17330 0.81 +0.6
469,265 + HMPREF1058_RS17330 0.87 -1.1
469,268 - HMPREF1058_RS17330 0.87 -0.5
469,271 + HMPREF1058_RS17330 0.88 -0.0
469,318 - -0.2
469,336 + -0.0
469,337 - -2.0
469,430 - -1.0
469,440 + +0.4
469,440 + -0.6
469,441 - -0.1
469,441 - -1.0
469,441 - -0.4
469,488 - HMPREF1058_RS17325 0.13 -0.4
469,505 + HMPREF1058_RS17325 0.14 -1.6
469,506 - HMPREF1058_RS17325 0.15 -1.6
469,507 + HMPREF1058_RS17325 0.15 -2.0
469,511 - HMPREF1058_RS17325 0.15 +1.5
469,531 + +2.8
469,692 + HMPREF1058_RS17325 0.32 +0.7
469,709 - HMPREF1058_RS17325 0.34 -1.1
469,736 - HMPREF1058_RS17325 0.37 +0.4
469,830 + HMPREF1058_RS17325 0.46 -0.0
469,849 + HMPREF1058_RS17325 0.48 -0.9
469,850 - HMPREF1058_RS17325 0.48 +0.4
470,084 - HMPREF1058_RS17325 0.70 -1.0
470,114 - HMPREF1058_RS17325 0.73 +1.0
470,116 + HMPREF1058_RS17325 0.73 +0.7
470,136 - HMPREF1058_RS17325 0.75 +1.5
470,151 + HMPREF1058_RS17325 0.77 -0.0
470,153 + HMPREF1058_RS17325 0.77 +0.8
470,165 - HMPREF1058_RS17325 0.78 -1.4
470,170 + HMPREF1058_RS17325 0.79 +1.7
470,171 - HMPREF1058_RS17325 0.79 +0.5
470,173 + HMPREF1058_RS17325 0.79 +2.1
470,174 - HMPREF1058_RS17325 0.79 -0.8
470,177 - HMPREF1058_RS17325 0.79 +0.7
470,187 + HMPREF1058_RS17325 0.80 -1.0
470,191 + HMPREF1058_RS17325 0.81 +1.1
470,230 - HMPREF1058_RS17325 0.84 +0.8
470,230 - HMPREF1058_RS17325 0.84 +1.0
470,230 - HMPREF1058_RS17325 0.84 +1.7
470,230 - HMPREF1058_RS17325 0.84 -1.6
470,230 - HMPREF1058_RS17325 0.84 +1.5
470,230 - HMPREF1058_RS17325 0.84 +0.5
470,232 - HMPREF1058_RS17325 0.84 +0.6
470,305 + -1.6
470,321 + +0.1
470,332 - +1.8
470,332 - -4.3
470,368 + -2.0
470,551 + HMPREF1058_RS17320 0.20 -0.2
470,551 + HMPREF1058_RS17320 0.20 +2.4
470,551 + HMPREF1058_RS17320 0.20 +0.4
470,552 - HMPREF1058_RS17320 0.20 -1.0
470,553 + HMPREF1058_RS17320 0.20 -1.5
470,554 - HMPREF1058_RS17320 0.20 +1.9
470,559 + HMPREF1058_RS17320 0.21 -2.0
470,575 - HMPREF1058_RS17320 0.23 -0.3
470,614 + HMPREF1058_RS17320 0.28 -1.0
470,645 - HMPREF1058_RS17320 0.32 -1.6
470,670 - HMPREF1058_RS17320 0.35 +1.0
470,670 - +2.6
470,677 - HMPREF1058_RS17320 0.36 -3.7
470,698 + HMPREF1058_RS17320 0.39 +0.4
470,761 - HMPREF1058_RS17320 0.47 -1.2
470,764 - HMPREF1058_RS17320 0.47 +1.1
470,786 - HMPREF1058_RS17320 0.50 +1.4
470,816 - HMPREF1058_RS17320 0.54 +0.5
470,820 - HMPREF1058_RS17320 0.54 +2.3
470,820 - HMPREF1058_RS17320 0.54 -1.7
470,906 - HMPREF1058_RS17320 0.65 -2.3
470,908 - HMPREF1058_RS17320 0.66 +1.7
470,937 + HMPREF1058_RS17320 0.69 +1.8
471,025 - HMPREF1058_RS17320 0.81 +0.2
471,103 - +0.4
471,103 - +0.1
471,283 - -0.6
471,287 + -0.5
471,343 + HMPREF1058_RS17315 0.15 +0.1
471,378 + HMPREF1058_RS17315 0.19 -2.0
471,379 - HMPREF1058_RS17315 0.19 +1.2
471,385 + HMPREF1058_RS17315 0.19 +3.0

Or see this region's nucleotide sequence