Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS13290

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; day6

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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_RS13295 and HMPREF1058_RS13290 are separated by 30 nucleotidesHMPREF1058_RS13290 and HMPREF1058_RS13285 are separated by 175 nucleotides HMPREF1058_RS13295: HMPREF1058_RS13295 - NADH-quinone oxidoreductase subunit M, at 1,534,547 to 1,536,028 _RS13295 HMPREF1058_RS13290: HMPREF1058_RS13290 - NADH-quinone oxidoreductase subunit N, at 1,536,059 to 1,537,480 _RS13290 HMPREF1058_RS13285: HMPREF1058_RS13285 - glycoside hydrolase family 88 protein, at 1,537,656 to 1,538,882 _RS13285 Position (kb) 1536 1537 1538Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1 2 3 4 5 6at 1535.153 kb on - strand, within HMPREF1058_RS13295at 1535.154 kb on + strand, within HMPREF1058_RS13295at 1535.155 kb on - strand, within HMPREF1058_RS13295at 1535.211 kb on + strand, within HMPREF1058_RS13295at 1535.233 kb on + strand, within HMPREF1058_RS13295at 1535.279 kb on - strand, within HMPREF1058_RS13295at 1535.307 kb on + strand, within HMPREF1058_RS13295at 1535.307 kb on + strand, within HMPREF1058_RS13295at 1535.335 kb on + strand, within HMPREF1058_RS13295at 1535.335 kb on + strand, within HMPREF1058_RS13295at 1535.335 kb on + strand, within HMPREF1058_RS13295at 1535.336 kb on - strand, within HMPREF1058_RS13295at 1535.339 kb on + strand, within HMPREF1058_RS13295at 1535.339 kb on + strand, within HMPREF1058_RS13295at 1535.376 kb on + strand, within HMPREF1058_RS13295at 1535.376 kb on + strand, within HMPREF1058_RS13295at 1535.376 kb on + strand, within HMPREF1058_RS13295at 1535.377 kb on - strand, within HMPREF1058_RS13295at 1535.377 kb on - strand, within HMPREF1058_RS13295at 1535.459 kb on + strand, within HMPREF1058_RS13295at 1535.591 kb on - strand, within HMPREF1058_RS13295at 1535.591 kb on - strand, within HMPREF1058_RS13295at 1535.597 kb on + strand, within HMPREF1058_RS13295at 1535.598 kb on - strand, within HMPREF1058_RS13295at 1535.606 kb on - strand, within HMPREF1058_RS13295at 1535.606 kb on - strand, within HMPREF1058_RS13295at 1535.678 kb on - strand, within HMPREF1058_RS13295at 1535.693 kb on - strand, within HMPREF1058_RS13295at 1535.693 kb on - strand, within HMPREF1058_RS13295at 1535.768 kb on - strand, within HMPREF1058_RS13295at 1535.768 kb on - strand, within HMPREF1058_RS13295at 1535.806 kb on + strand, within HMPREF1058_RS13295at 1535.806 kb on + strand, within HMPREF1058_RS13295at 1535.825 kb on + strand, within HMPREF1058_RS13295at 1535.825 kb on + strand, within HMPREF1058_RS13295at 1535.825 kb on + strand, within HMPREF1058_RS13295at 1535.826 kb on - strand, within HMPREF1058_RS13295at 1535.826 kb on - strand, within HMPREF1058_RS13295at 1535.827 kb on + strand, within HMPREF1058_RS13295at 1535.845 kb on + strand, within HMPREF1058_RS13295at 1535.943 kb on + strandat 1535.997 kb on + strandat 1536.021 kb on + strandat 1536.070 kb on - strandat 1536.188 kb on - strandat 1536.219 kb on + strand, within HMPREF1058_RS13290at 1536.254 kb on + strand, within HMPREF1058_RS13290at 1536.254 kb on + strand, within HMPREF1058_RS13290at 1536.301 kb on - strand, within HMPREF1058_RS13290at 1536.304 kb on + strand, within HMPREF1058_RS13290at 1536.304 kb on + strand, within HMPREF1058_RS13290at 1536.407 kb on - strand, within HMPREF1058_RS13290at 1536.490 kb on - strand, within HMPREF1058_RS13290at 1536.503 kb on + strand, within HMPREF1058_RS13290at 1536.504 kb on - strand, within HMPREF1058_RS13290at 1536.506 kb on - strand, within HMPREF1058_RS13290at 1536.586 kb on + strand, within HMPREF1058_RS13290at 1536.593 kb on + strand, within HMPREF1058_RS13290at 1536.607 kb on + strand, within HMPREF1058_RS13290at 1536.607 kb on + strand, within HMPREF1058_RS13290at 1536.626 kb on - strand, within HMPREF1058_RS13290at 1536.655 kb on - strand, within HMPREF1058_RS13290at 1536.736 kb on + strand, within HMPREF1058_RS13290at 1536.737 kb on - strand, within HMPREF1058_RS13290at 1536.763 kb on - strand, within HMPREF1058_RS13290at 1536.763 kb on - strand, within HMPREF1058_RS13290at 1536.775 kb on - strand, within HMPREF1058_RS13290at 1536.810 kb on + strand, within HMPREF1058_RS13290at 1536.832 kb on - strand, within HMPREF1058_RS13290at 1536.864 kb on + strand, within HMPREF1058_RS13290at 1536.867 kb on + strand, within HMPREF1058_RS13290at 1536.871 kb on + strand, within HMPREF1058_RS13290at 1536.871 kb on + strand, within HMPREF1058_RS13290at 1536.872 kb on - strand, within HMPREF1058_RS13290at 1536.872 kb on - strand, within HMPREF1058_RS13290at 1536.874 kb on + strand, within HMPREF1058_RS13290at 1536.883 kb on - strand, within HMPREF1058_RS13290at 1536.956 kb on - strand, within HMPREF1058_RS13290at 1537.023 kb on + strand, within HMPREF1058_RS13290at 1537.025 kb on + strand, within HMPREF1058_RS13290at 1537.025 kb on + strand, within HMPREF1058_RS13290at 1537.025 kb on + strand, within HMPREF1058_RS13290at 1537.028 kb on + strand, within HMPREF1058_RS13290at 1537.028 kb on + strand, within HMPREF1058_RS13290at 1537.028 kb on + strand, within HMPREF1058_RS13290at 1537.029 kb on - strand, within HMPREF1058_RS13290at 1537.030 kb on + strand, within HMPREF1058_RS13290at 1537.030 kb on + strand, within HMPREF1058_RS13290at 1537.030 kb on + strand, within HMPREF1058_RS13290at 1537.030 kb on + strand, within HMPREF1058_RS13290at 1537.031 kb on - strand, within HMPREF1058_RS13290at 1537.031 kb on - strand, within HMPREF1058_RS13290at 1537.031 kb on - strand, within HMPREF1058_RS13290at 1537.031 kb on - strand, within HMPREF1058_RS13290at 1537.032 kb on + strand, within HMPREF1058_RS13290at 1537.032 kb on + strand, within HMPREF1058_RS13290at 1537.033 kb on - strand, within HMPREF1058_RS13290at 1537.035 kb on + strand, within HMPREF1058_RS13290at 1537.035 kb on + strand, within HMPREF1058_RS13290at 1537.036 kb on - strand, within HMPREF1058_RS13290at 1537.036 kb on - strand, within HMPREF1058_RS13290at 1537.036 kb on - strand, within HMPREF1058_RS13290at 1537.040 kb on + strand, within HMPREF1058_RS13290at 1537.041 kb on - strand, within HMPREF1058_RS13290at 1537.041 kb on - strand, within HMPREF1058_RS13290at 1537.041 kb on - strand, within HMPREF1058_RS13290at 1537.078 kb on + strand, within HMPREF1058_RS13290at 1537.093 kb on + strand, within HMPREF1058_RS13290at 1537.093 kb on + strand, within HMPREF1058_RS13290at 1537.121 kb on + strand, within HMPREF1058_RS13290at 1537.133 kb on + strand, within HMPREF1058_RS13290at 1537.135 kb on + strand, within HMPREF1058_RS13290at 1537.152 kb on + strand, within HMPREF1058_RS13290at 1537.152 kb on + strand, within HMPREF1058_RS13290at 1537.156 kb on + strand, within HMPREF1058_RS13290at 1537.193 kb on - strand, within HMPREF1058_RS13290at 1537.259 kb on + strand, within HMPREF1058_RS13290at 1537.264 kb on + strand, within HMPREF1058_RS13290at 1537.264 kb on + strand, within HMPREF1058_RS13290at 1537.265 kb on - strand, within HMPREF1058_RS13290at 1537.269 kb on + strand, within HMPREF1058_RS13290at 1537.289 kb on - strand, within HMPREF1058_RS13290at 1537.305 kb on - strand, within HMPREF1058_RS13290at 1537.305 kb on - strand, within HMPREF1058_RS13290at 1537.314 kb on + strand, within HMPREF1058_RS13290at 1537.404 kb on + strandat 1537.405 kb on - strandat 1537.405 kb on - strandat 1537.435 kb on + strandat 1537.436 kb on - strandat 1537.436 kb on - strandat 1537.437 kb on + strandat 1537.437 kb on + strandat 1537.437 kb on + strandat 1537.437 kb on + strandat 1537.438 kb on - strandat 1537.438 kb on - strandat 1537.447 kb on - strandat 1537.448 kb on + strandat 1537.455 kb on + strandat 1537.473 kb on + strandat 1537.474 kb on - strandat 1537.476 kb on + strandat 1537.476 kb on + strandat 1537.478 kb on + strandat 1537.617 kb on - strandat 1537.617 kb on - strandat 1537.655 kb on + strandat 1537.671 kb on + strandat 1537.672 kb on - strandat 1537.672 kb on - strandat 1537.672 kb on - strandat 1537.672 kb on - strandat 1537.674 kb on - strandat 1537.674 kb on - strandat 1537.676 kb on + strandat 1537.681 kb on + strandat 1537.826 kb on + strand, within HMPREF1058_RS13285at 1537.867 kb on - strand, within HMPREF1058_RS13285at 1537.922 kb on - strand, within HMPREF1058_RS13285at 1537.922 kb on - strand, within HMPREF1058_RS13285at 1537.931 kb on - strand, within HMPREF1058_RS13285at 1538.017 kb on + strand, within HMPREF1058_RS13285at 1538.063 kb on + strand, within HMPREF1058_RS13285at 1538.063 kb on + strand, within HMPREF1058_RS13285at 1538.110 kb on + strand, within HMPREF1058_RS13285at 1538.111 kb on - strand, within HMPREF1058_RS13285at 1538.114 kb on + strand, within HMPREF1058_RS13285at 1538.211 kb on - strand, within HMPREF1058_RS13285at 1538.211 kb on - strand, within HMPREF1058_RS13285at 1538.213 kb on + strand, within HMPREF1058_RS13285at 1538.214 kb on - strand, within HMPREF1058_RS13285at 1538.233 kb on + strand, within HMPREF1058_RS13285at 1538.246 kb on + strand, within HMPREF1058_RS13285at 1538.246 kb on + strand, within HMPREF1058_RS13285at 1538.276 kb on + strand, within HMPREF1058_RS13285at 1538.276 kb on + strand, within HMPREF1058_RS13285at 1538.278 kb on + strand, within HMPREF1058_RS13285at 1538.352 kb on + strand, within HMPREF1058_RS13285at 1538.355 kb on - strand, within HMPREF1058_RS13285

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; day6
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1,535,153 - HMPREF1058_RS13295 0.41 +0.9
1,535,154 + HMPREF1058_RS13295 0.41 -1.3
1,535,155 - HMPREF1058_RS13295 0.41 -0.1
1,535,211 + HMPREF1058_RS13295 0.45 -0.3
1,535,233 + HMPREF1058_RS13295 0.46 +3.7
1,535,279 - HMPREF1058_RS13295 0.49 -0.4
1,535,307 + HMPREF1058_RS13295 0.51 -1.5
1,535,307 + HMPREF1058_RS13295 0.51 -0.1
1,535,335 + HMPREF1058_RS13295 0.53 +1.7
1,535,335 + HMPREF1058_RS13295 0.53 +0.1
1,535,335 + HMPREF1058_RS13295 0.53 -2.8
1,535,336 - HMPREF1058_RS13295 0.53 -0.5
1,535,339 + HMPREF1058_RS13295 0.53 -1.0
1,535,339 + HMPREF1058_RS13295 0.53 +2.0
1,535,376 + HMPREF1058_RS13295 0.56 -2.1
1,535,376 + HMPREF1058_RS13295 0.56 -0.4
1,535,376 + HMPREF1058_RS13295 0.56 -0.7
1,535,377 - HMPREF1058_RS13295 0.56 -0.2
1,535,377 - HMPREF1058_RS13295 0.56 -0.2
1,535,459 + HMPREF1058_RS13295 0.62 +1.5
1,535,591 - HMPREF1058_RS13295 0.70 +0.0
1,535,591 - HMPREF1058_RS13295 0.70 -1.0
1,535,597 + HMPREF1058_RS13295 0.71 +1.2
1,535,598 - HMPREF1058_RS13295 0.71 -0.3
1,535,606 - HMPREF1058_RS13295 0.71 +4.7
1,535,606 - HMPREF1058_RS13295 0.71 -0.5
1,535,678 - HMPREF1058_RS13295 0.76 +0.6
1,535,693 - HMPREF1058_RS13295 0.77 +1.4
1,535,693 - HMPREF1058_RS13295 0.77 -0.7
1,535,768 - HMPREF1058_RS13295 0.82 +1.5
1,535,768 - HMPREF1058_RS13295 0.82 -0.5
1,535,806 + HMPREF1058_RS13295 0.85 +0.5
1,535,806 + HMPREF1058_RS13295 0.85 +0.4
1,535,825 + HMPREF1058_RS13295 0.86 -2.3
1,535,825 + HMPREF1058_RS13295 0.86 +0.2
1,535,825 + HMPREF1058_RS13295 0.86 +0.6
1,535,826 - HMPREF1058_RS13295 0.86 +0.0
1,535,826 - HMPREF1058_RS13295 0.86 -5.6
1,535,827 + HMPREF1058_RS13295 0.86 -2.5
1,535,845 + HMPREF1058_RS13295 0.88 -0.4
1,535,943 + -0.0
1,535,997 + -1.5
1,536,021 + +1.0
1,536,070 - -3.7
1,536,188 - +0.0
1,536,219 + HMPREF1058_RS13290 0.11 +1.6
1,536,254 + HMPREF1058_RS13290 0.14 +1.1
1,536,254 + HMPREF1058_RS13290 0.14 -0.0
1,536,301 - HMPREF1058_RS13290 0.17 -2.8
1,536,304 + HMPREF1058_RS13290 0.17 +0.6
1,536,304 + HMPREF1058_RS13290 0.17 +0.1
1,536,407 - HMPREF1058_RS13290 0.24 -1.0
1,536,490 - HMPREF1058_RS13290 0.30 -1.5
1,536,503 + HMPREF1058_RS13290 0.31 -3.9
1,536,504 - HMPREF1058_RS13290 0.31 -1.2
1,536,506 - HMPREF1058_RS13290 0.31 +0.6
1,536,586 + HMPREF1058_RS13290 0.37 -2.8
1,536,593 + HMPREF1058_RS13290 0.38 +0.8
1,536,607 + HMPREF1058_RS13290 0.39 +0.0
1,536,607 + HMPREF1058_RS13290 0.39 -0.4
1,536,626 - HMPREF1058_RS13290 0.40 +0.3
1,536,655 - HMPREF1058_RS13290 0.42 -1.2
1,536,736 + HMPREF1058_RS13290 0.48 -0.2
1,536,737 - HMPREF1058_RS13290 0.48 +1.7
1,536,763 - HMPREF1058_RS13290 0.50 -0.4
1,536,763 - HMPREF1058_RS13290 0.50 -1.0
1,536,775 - HMPREF1058_RS13290 0.50 -1.8
1,536,810 + HMPREF1058_RS13290 0.53 -1.5
1,536,832 - HMPREF1058_RS13290 0.54 -1.8
1,536,864 + HMPREF1058_RS13290 0.57 -1.4
1,536,867 + HMPREF1058_RS13290 0.57 +3.2
1,536,871 + HMPREF1058_RS13290 0.57 -1.5
1,536,871 + HMPREF1058_RS13290 0.57 -2.4
1,536,872 - HMPREF1058_RS13290 0.57 -0.2
1,536,872 - HMPREF1058_RS13290 0.57 -1.0
1,536,874 + HMPREF1058_RS13290 0.57 -2.1
1,536,883 - HMPREF1058_RS13290 0.58 +0.4
1,536,956 - HMPREF1058_RS13290 0.63 -0.8
1,537,023 + HMPREF1058_RS13290 0.68 +2.0
1,537,025 + HMPREF1058_RS13290 0.68 +1.3
1,537,025 + HMPREF1058_RS13290 0.68 +1.0
1,537,025 + HMPREF1058_RS13290 0.68 -1.5
1,537,028 + HMPREF1058_RS13290 0.68 -1.0
1,537,028 + HMPREF1058_RS13290 0.68 -0.3
1,537,028 + HMPREF1058_RS13290 0.68 +0.0
1,537,029 - HMPREF1058_RS13290 0.68 +0.3
1,537,030 + HMPREF1058_RS13290 0.68 -0.5
1,537,030 + HMPREF1058_RS13290 0.68 +0.7
1,537,030 + HMPREF1058_RS13290 0.68 +0.8
1,537,030 + HMPREF1058_RS13290 0.68 -0.5
1,537,031 - HMPREF1058_RS13290 0.68 +1.6
1,537,031 - HMPREF1058_RS13290 0.68 +0.6
1,537,031 - HMPREF1058_RS13290 0.68 -1.6
1,537,031 - HMPREF1058_RS13290 0.68 +0.7
1,537,032 + HMPREF1058_RS13290 0.68 +1.4
1,537,032 + HMPREF1058_RS13290 0.68 -0.1
1,537,033 - HMPREF1058_RS13290 0.68 +0.8
1,537,035 + HMPREF1058_RS13290 0.69 -1.3
1,537,035 + HMPREF1058_RS13290 0.69 +0.5
1,537,036 - HMPREF1058_RS13290 0.69 -1.4
1,537,036 - HMPREF1058_RS13290 0.69 +0.8
1,537,036 - HMPREF1058_RS13290 0.69 -1.0
1,537,040 + HMPREF1058_RS13290 0.69 -4.4
1,537,041 - HMPREF1058_RS13290 0.69 -0.5
1,537,041 - HMPREF1058_RS13290 0.69 +0.2
1,537,041 - HMPREF1058_RS13290 0.69 -1.3
1,537,078 + HMPREF1058_RS13290 0.72 +2.6
1,537,093 + HMPREF1058_RS13290 0.73 +0.4
1,537,093 + HMPREF1058_RS13290 0.73 +2.1
1,537,121 + HMPREF1058_RS13290 0.75 +1.2
1,537,133 + HMPREF1058_RS13290 0.76 +1.6
1,537,135 + HMPREF1058_RS13290 0.76 +2.3
1,537,152 + HMPREF1058_RS13290 0.77 -0.2
1,537,152 + HMPREF1058_RS13290 0.77 +0.6
1,537,156 + HMPREF1058_RS13290 0.77 +2.6
1,537,193 - HMPREF1058_RS13290 0.80 -0.6
1,537,259 + HMPREF1058_RS13290 0.84 -2.1
1,537,264 + HMPREF1058_RS13290 0.85 +0.6
1,537,264 + HMPREF1058_RS13290 0.85 -0.3
1,537,265 - HMPREF1058_RS13290 0.85 -0.7
1,537,269 + HMPREF1058_RS13290 0.85 -1.7
1,537,289 - HMPREF1058_RS13290 0.86 +0.0
1,537,305 - HMPREF1058_RS13290 0.88 -1.6
1,537,305 - HMPREF1058_RS13290 0.88 -2.3
1,537,314 + HMPREF1058_RS13290 0.88 -0.1
1,537,404 + +0.9
1,537,405 - +0.8
1,537,405 - +0.5
1,537,435 + -0.5
1,537,436 - -0.7
1,537,436 - +0.0
1,537,437 + +0.2
1,537,437 + -1.0
1,537,437 + -1.6
1,537,437 + -0.1
1,537,438 - +1.0
1,537,438 - -2.3
1,537,447 - +0.4
1,537,448 + +0.2
1,537,455 + +0.1
1,537,473 + -0.8
1,537,474 - -0.1
1,537,476 + -0.2
1,537,476 + +0.4
1,537,478 + -0.1
1,537,617 - -0.4
1,537,617 - +0.0
1,537,655 + -0.8
1,537,671 + -0.4
1,537,672 - +0.3
1,537,672 - -1.0
1,537,672 - +2.6
1,537,672 - -1.4
1,537,674 - +0.0
1,537,674 - +1.2
1,537,676 + +1.0
1,537,681 + +1.6
1,537,826 + HMPREF1058_RS13285 0.14 +1.4
1,537,867 - HMPREF1058_RS13285 0.17 -0.9
1,537,922 - HMPREF1058_RS13285 0.22 -0.5
1,537,922 - HMPREF1058_RS13285 0.22 +1.4
1,537,931 - HMPREF1058_RS13285 0.22 +3.2
1,538,017 + HMPREF1058_RS13285 0.29 +0.5
1,538,063 + HMPREF1058_RS13285 0.33 +1.6
1,538,063 + HMPREF1058_RS13285 0.33 -1.3
1,538,110 + HMPREF1058_RS13285 0.37 -3.0
1,538,111 - HMPREF1058_RS13285 0.37 -1.0
1,538,114 + HMPREF1058_RS13285 0.37 -2.4
1,538,211 - HMPREF1058_RS13285 0.45 -0.3
1,538,211 - HMPREF1058_RS13285 0.45 +0.0
1,538,213 + HMPREF1058_RS13285 0.45 +2.7
1,538,214 - HMPREF1058_RS13285 0.45 -0.1
1,538,233 + HMPREF1058_RS13285 0.47 +1.2
1,538,246 + HMPREF1058_RS13285 0.48 -1.1
1,538,246 + HMPREF1058_RS13285 0.48 -0.4
1,538,276 + HMPREF1058_RS13285 0.51 +2.4
1,538,276 + HMPREF1058_RS13285 0.51 +2.4
1,538,278 + HMPREF1058_RS13285 0.51 +5.8
1,538,352 + HMPREF1058_RS13285 0.57 +0.0
1,538,355 - HMPREF1058_RS13285 0.57 -2.8

Or see this region's nucleotide sequence