Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS11705

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; 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_RS11710 and HMPREF1058_RS11705 are separated by 202 nucleotidesHMPREF1058_RS11705 and HMPREF1058_RS11700 are separated by 213 nucleotides HMPREF1058_RS11710: HMPREF1058_RS11710 - TonB-dependent receptor, at 307,784 to 310,987 _RS11710 HMPREF1058_RS11705: HMPREF1058_RS11705 - lactaldehyde reductase, at 311,190 to 312,344 _RS11705 HMPREF1058_RS11700: HMPREF1058_RS11700 - DUF3874 domain-containing protein, at 312,558 to 313,814 _RS11700 Position (kb) 311 312 313Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 310.197 kb on + strand, within HMPREF1058_RS11710at 310.197 kb on + strand, within HMPREF1058_RS11710at 310.198 kb on - strand, within HMPREF1058_RS11710at 310.282 kb on + strand, within HMPREF1058_RS11710at 310.283 kb on - strand, within HMPREF1058_RS11710at 310.393 kb on + strand, within HMPREF1058_RS11710at 310.393 kb on + strand, within HMPREF1058_RS11710at 310.394 kb on - strand, within HMPREF1058_RS11710at 310.394 kb on - strand, within HMPREF1058_RS11710at 310.394 kb on - strand, within HMPREF1058_RS11710at 310.394 kb on - strand, within HMPREF1058_RS11710at 310.396 kb on + strand, within HMPREF1058_RS11710at 310.426 kb on + strand, within HMPREF1058_RS11710at 310.426 kb on + strand, within HMPREF1058_RS11710at 310.438 kb on + strand, within HMPREF1058_RS11710at 310.439 kb on - strand, within HMPREF1058_RS11710at 310.483 kb on + strand, within HMPREF1058_RS11710at 310.519 kb on + strand, within HMPREF1058_RS11710at 310.520 kb on - strand, within HMPREF1058_RS11710at 310.568 kb on - strand, within HMPREF1058_RS11710at 310.619 kb on + strand, within HMPREF1058_RS11710at 310.690 kb on + strandat 310.721 kb on + strandat 310.722 kb on - strandat 310.722 kb on - strandat 310.725 kb on + strandat 310.726 kb on - strandat 310.776 kb on + strandat 310.776 kb on + strandat 310.799 kb on - strandat 310.946 kb on + strandat 310.946 kb on + strandat 310.946 kb on + strandat 310.946 kb on + strandat 311.017 kb on - strandat 311.019 kb on + strandat 311.024 kb on - strandat 311.024 kb on - strandat 311.121 kb on - strandat 311.138 kb on - strandat 311.163 kb on + strandat 311.164 kb on - strandat 311.255 kb on + strandat 311.256 kb on - strandat 311.256 kb on - strandat 311.413 kb on + strand, within HMPREF1058_RS11705at 311.414 kb on - strand, within HMPREF1058_RS11705at 311.439 kb on + strand, within HMPREF1058_RS11705at 311.439 kb on + strand, within HMPREF1058_RS11705at 311.440 kb on - strand, within HMPREF1058_RS11705at 311.443 kb on + strand, within HMPREF1058_RS11705at 311.529 kb on - strand, within HMPREF1058_RS11705at 311.571 kb on + strand, within HMPREF1058_RS11705at 311.576 kb on + strand, within HMPREF1058_RS11705at 311.576 kb on + strand, within HMPREF1058_RS11705at 311.599 kb on + strand, within HMPREF1058_RS11705at 311.600 kb on - strand, within HMPREF1058_RS11705at 311.640 kb on - strand, within HMPREF1058_RS11705at 311.801 kb on - strand, within HMPREF1058_RS11705at 311.894 kb on - strand, within HMPREF1058_RS11705at 311.894 kb on - strand, within HMPREF1058_RS11705at 311.894 kb on - strand, within HMPREF1058_RS11705at 311.901 kb on - strand, within HMPREF1058_RS11705at 312.012 kb on - strand, within HMPREF1058_RS11705at 312.014 kb on + strand, within HMPREF1058_RS11705at 312.117 kb on + strand, within HMPREF1058_RS11705at 312.117 kb on + strand, within HMPREF1058_RS11705at 312.171 kb on - strand, within HMPREF1058_RS11705at 312.237 kb on - strandat 312.311 kb on - strandat 312.311 kb on - strandat 312.315 kb on + strandat 312.328 kb on - strandat 312.361 kb on + strandat 312.419 kb on + strandat 312.420 kb on - strandat 312.420 kb on - strandat 312.421 kb on + strandat 312.580 kb on + strandat 312.790 kb on + strand, within HMPREF1058_RS11700at 312.980 kb on + strand, within HMPREF1058_RS11700at 312.980 kb on + strand, within HMPREF1058_RS11700at 312.986 kb on + strand, within HMPREF1058_RS11700at 312.997 kb on - strand, within HMPREF1058_RS11700at 313.198 kb on + strand, within HMPREF1058_RS11700at 313.248 kb on - strand, within HMPREF1058_RS11700

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4
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310,197 + HMPREF1058_RS11710 0.75 +0.4
310,197 + HMPREF1058_RS11710 0.75 +0.7
310,198 - HMPREF1058_RS11710 0.75 +0.7
310,282 + HMPREF1058_RS11710 0.78 -0.2
310,283 - HMPREF1058_RS11710 0.78 +1.3
310,393 + HMPREF1058_RS11710 0.81 +0.1
310,393 + HMPREF1058_RS11710 0.81 +2.2
310,394 - HMPREF1058_RS11710 0.81 -0.6
310,394 - HMPREF1058_RS11710 0.81 -0.9
310,394 - HMPREF1058_RS11710 0.81 -0.3
310,394 - HMPREF1058_RS11710 0.81 -0.7
310,396 + HMPREF1058_RS11710 0.82 -0.5
310,426 + HMPREF1058_RS11710 0.82 +1.1
310,426 + HMPREF1058_RS11710 0.82 -0.1
310,438 + HMPREF1058_RS11710 0.83 -0.5
310,439 - HMPREF1058_RS11710 0.83 -1.1
310,483 + HMPREF1058_RS11710 0.84 +1.8
310,519 + HMPREF1058_RS11710 0.85 -2.9
310,520 - HMPREF1058_RS11710 0.85 +1.4
310,568 - HMPREF1058_RS11710 0.87 +1.1
310,619 + HMPREF1058_RS11710 0.88 +2.5
310,690 + +0.7
310,721 + +2.1
310,722 - +1.6
310,722 - +2.8
310,725 + +0.4
310,726 - -0.3
310,776 + +2.8
310,776 + +0.5
310,799 - +0.2
310,946 + +0.3
310,946 + -0.7
310,946 + +1.6
310,946 + +0.7
311,017 - +0.4
311,019 + +1.3
311,024 - -1.3
311,024 - -3.1
311,121 - -1.1
311,138 - -4.4
311,163 + -0.7
311,164 - +0.7
311,255 + +0.2
311,256 - -1.2
311,256 - +1.8
311,413 + HMPREF1058_RS11705 0.19 -0.7
311,414 - HMPREF1058_RS11705 0.19 +1.2
311,439 + HMPREF1058_RS11705 0.22 -3.7
311,439 + HMPREF1058_RS11705 0.22 -1.3
311,440 - HMPREF1058_RS11705 0.22 -1.2
311,443 + HMPREF1058_RS11705 0.22 +0.6
311,529 - HMPREF1058_RS11705 0.29 +1.4
311,571 + HMPREF1058_RS11705 0.33 +0.7
311,576 + HMPREF1058_RS11705 0.33 +0.6
311,576 + HMPREF1058_RS11705 0.33 +1.1
311,599 + HMPREF1058_RS11705 0.35 +1.3
311,600 - HMPREF1058_RS11705 0.35 -0.2
311,640 - HMPREF1058_RS11705 0.39 -0.6
311,801 - HMPREF1058_RS11705 0.53 +1.0
311,894 - HMPREF1058_RS11705 0.61 +0.5
311,894 - HMPREF1058_RS11705 0.61 -1.3
311,894 - HMPREF1058_RS11705 0.61 +2.8
311,901 - HMPREF1058_RS11705 0.62 -1.3
312,012 - HMPREF1058_RS11705 0.71 +0.3
312,014 + HMPREF1058_RS11705 0.71 -2.6
312,117 + HMPREF1058_RS11705 0.80 +0.4
312,117 + HMPREF1058_RS11705 0.80 +0.5
312,171 - HMPREF1058_RS11705 0.85 -1.0
312,237 - -0.1
312,311 - -1.9
312,311 - +2.4
312,315 + -0.9
312,328 - +0.1
312,361 + +0.3
312,419 + -1.9
312,420 - -2.6
312,420 - +0.4
312,421 + +1.9
312,580 + -0.6
312,790 + HMPREF1058_RS11700 0.18 +0.7
312,980 + HMPREF1058_RS11700 0.34 +2.3
312,980 + HMPREF1058_RS11700 0.34 +0.6
312,986 + HMPREF1058_RS11700 0.34 -0.3
312,997 - HMPREF1058_RS11700 0.35 -2.3
313,198 + HMPREF1058_RS11700 0.51 +0.8
313,248 - HMPREF1058_RS11700 0.55 +0.3

Or see this region's nucleotide sequence