Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS12760

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_RS12770 and HMPREF1058_RS12765 are separated by 7 nucleotidesHMPREF1058_RS12765 and HMPREF1058_RS12760 overlap by 50 nucleotidesHMPREF1058_RS12760 and HMPREF1058_RS12755 are separated by 138 nucleotides HMPREF1058_RS12770: HMPREF1058_RS12770 - polysaccharide biosynthesis protein, at 35,806 to 36,648 _RS12770 HMPREF1058_RS12765: HMPREF1058_RS12765 - NUDIX domain-containing protein, at 36,656 to 37,546 _RS12765 HMPREF1058_RS12760: HMPREF1058_RS12760 - hypothetical protein, at 37,497 to 38,153 _RS12760 HMPREF1058_RS12755: HMPREF1058_RS12755 - hypothetical protein, at 38,292 to 41,141 _RS12755 Position (kb) 37 38 39Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3 4at 36.570 kb on + strandat 36.570 kb on + strandat 36.694 kb on - strandat 36.694 kb on - strandat 36.694 kb on - strandat 36.737 kb on + strandat 36.738 kb on - strandat 36.752 kb on - strand, within HMPREF1058_RS12765at 36.829 kb on - strand, within HMPREF1058_RS12765at 36.829 kb on - strand, within HMPREF1058_RS12765at 36.851 kb on - strand, within HMPREF1058_RS12765at 36.851 kb on - strand, within HMPREF1058_RS12765at 36.865 kb on + strand, within HMPREF1058_RS12765at 36.874 kb on - strand, within HMPREF1058_RS12765at 36.940 kb on + strand, within HMPREF1058_RS12765at 36.942 kb on + strand, within HMPREF1058_RS12765at 36.942 kb on + strand, within HMPREF1058_RS12765at 36.943 kb on - strand, within HMPREF1058_RS12765at 36.943 kb on - strand, within HMPREF1058_RS12765at 36.982 kb on + strand, within HMPREF1058_RS12765at 37.124 kb on - strand, within HMPREF1058_RS12765at 37.159 kb on + strand, within HMPREF1058_RS12765at 37.160 kb on - strand, within HMPREF1058_RS12765at 37.160 kb on - strand, within HMPREF1058_RS12765at 37.160 kb on - strand, within HMPREF1058_RS12765at 37.264 kb on - strand, within HMPREF1058_RS12765at 37.267 kb on + strand, within HMPREF1058_RS12765at 37.267 kb on + strand, within HMPREF1058_RS12765at 37.276 kb on + strand, within HMPREF1058_RS12765at 37.277 kb on - strand, within HMPREF1058_RS12765at 37.277 kb on - strand, within HMPREF1058_RS12765at 37.289 kb on - strand, within HMPREF1058_RS12765at 37.293 kb on + strand, within HMPREF1058_RS12765at 37.293 kb on + strand, within HMPREF1058_RS12765at 37.293 kb on + strand, within HMPREF1058_RS12765at 37.303 kb on + strand, within HMPREF1058_RS12765at 37.320 kb on + strand, within HMPREF1058_RS12765at 37.327 kb on + strand, within HMPREF1058_RS12765at 37.327 kb on + strand, within HMPREF1058_RS12765at 37.328 kb on - strand, within HMPREF1058_RS12765at 37.398 kb on - strand, within HMPREF1058_RS12765at 37.398 kb on - strand, within HMPREF1058_RS12765at 37.441 kb on - strand, within HMPREF1058_RS12765at 37.458 kb on - strandat 37.490 kb on + strandat 37.491 kb on - strandat 37.498 kb on + strandat 37.499 kb on - strandat 37.626 kb on - strand, within HMPREF1058_RS12760at 37.632 kb on - strand, within HMPREF1058_RS12760at 37.633 kb on + strand, within HMPREF1058_RS12760at 37.638 kb on - strand, within HMPREF1058_RS12760at 37.670 kb on + strand, within HMPREF1058_RS12760at 37.748 kb on + strand, within HMPREF1058_RS12760at 37.748 kb on + strand, within HMPREF1058_RS12760at 37.777 kb on + strand, within HMPREF1058_RS12760at 37.809 kb on + strand, within HMPREF1058_RS12760at 37.810 kb on - strand, within HMPREF1058_RS12760at 37.810 kb on - strand, within HMPREF1058_RS12760at 37.815 kb on - strand, within HMPREF1058_RS12760at 37.854 kb on + strand, within HMPREF1058_RS12760at 37.854 kb on + strand, within HMPREF1058_RS12760at 37.854 kb on + strand, within HMPREF1058_RS12760at 37.858 kb on + strand, within HMPREF1058_RS12760at 37.858 kb on + strand, within HMPREF1058_RS12760at 37.991 kb on + strand, within HMPREF1058_RS12760at 38.025 kb on + strand, within HMPREF1058_RS12760at 38.026 kb on - strand, within HMPREF1058_RS12760at 38.026 kb on - strand, within HMPREF1058_RS12760at 38.026 kb on - strand, within HMPREF1058_RS12760at 38.048 kb on - strand, within HMPREF1058_RS12760at 38.048 kb on - strand, within HMPREF1058_RS12760at 38.102 kb on + strandat 38.110 kb on - strandat 38.154 kb on + strandat 38.166 kb on - strandat 38.266 kb on + strandat 38.266 kb on + strandat 38.311 kb on - strandat 38.354 kb on + strandat 38.354 kb on + strandat 38.356 kb on + strandat 38.356 kb on + strandat 38.357 kb on - strandat 38.374 kb on - strandat 38.385 kb on - strandat 38.386 kb on + strandat 38.386 kb on + strandat 38.386 kb on + strandat 38.389 kb on - strandat 38.389 kb on - strandat 38.389 kb on - strandat 38.393 kb on + strandat 38.538 kb on + strandat 38.644 kb on - strand, within HMPREF1058_RS12755at 38.700 kb on - strand, within HMPREF1058_RS12755at 38.703 kb on - strand, within HMPREF1058_RS12755at 38.703 kb on - strand, within HMPREF1058_RS12755at 38.704 kb on + strand, within HMPREF1058_RS12755at 38.705 kb on - strand, within HMPREF1058_RS12755at 38.738 kb on + strand, within HMPREF1058_RS12755at 38.945 kb on + strand, within HMPREF1058_RS12755at 38.993 kb on - strand, within HMPREF1058_RS12755at 38.993 kb on - strand, within HMPREF1058_RS12755at 39.008 kb on - strand, within HMPREF1058_RS12755at 39.011 kb on + strand, within HMPREF1058_RS12755at 39.033 kb on - strand, within HMPREF1058_RS12755at 39.034 kb on + strand, within HMPREF1058_RS12755at 39.035 kb on - strand, within HMPREF1058_RS12755at 39.060 kb on - strand, within HMPREF1058_RS12755at 39.080 kb on + strand, within HMPREF1058_RS12755at 39.081 kb on - strand, within HMPREF1058_RS12755at 39.083 kb on - strand, within HMPREF1058_RS12755at 39.112 kb on + strand, within HMPREF1058_RS12755at 39.112 kb on + strand, within HMPREF1058_RS12755at 39.112 kb on + strand, within HMPREF1058_RS12755at 39.113 kb on - strand, within HMPREF1058_RS12755

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; day6
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36,570 + +0.2
36,570 + -0.2
36,694 - +1.3
36,694 - +1.2
36,694 - +0.7
36,737 + -0.9
36,738 - +1.4
36,752 - HMPREF1058_RS12765 0.11 -2.2
36,829 - HMPREF1058_RS12765 0.19 -1.7
36,829 - HMPREF1058_RS12765 0.19 +1.1
36,851 - HMPREF1058_RS12765 0.22 -2.6
36,851 - HMPREF1058_RS12765 0.22 +0.5
36,865 + HMPREF1058_RS12765 0.23 -0.8
36,874 - HMPREF1058_RS12765 0.24 -0.4
36,940 + HMPREF1058_RS12765 0.32 -0.9
36,942 + HMPREF1058_RS12765 0.32 -0.8
36,942 + HMPREF1058_RS12765 0.32 -0.6
36,943 - HMPREF1058_RS12765 0.32 -0.2
36,943 - HMPREF1058_RS12765 0.32 +0.6
36,982 + HMPREF1058_RS12765 0.37 -0.2
37,124 - HMPREF1058_RS12765 0.53 +0.5
37,159 + HMPREF1058_RS12765 0.56 -0.1
37,160 - HMPREF1058_RS12765 0.57 +0.9
37,160 - HMPREF1058_RS12765 0.57 +0.9
37,160 - HMPREF1058_RS12765 0.57 +0.4
37,264 - HMPREF1058_RS12765 0.68 +0.3
37,267 + HMPREF1058_RS12765 0.69 +0.6
37,267 + HMPREF1058_RS12765 0.69 -1.7
37,276 + HMPREF1058_RS12765 0.70 -0.9
37,277 - HMPREF1058_RS12765 0.70 -0.7
37,277 - HMPREF1058_RS12765 0.70 +0.5
37,289 - HMPREF1058_RS12765 0.71 +0.3
37,293 + HMPREF1058_RS12765 0.71 -3.1
37,293 + HMPREF1058_RS12765 0.71 +0.9
37,293 + HMPREF1058_RS12765 0.71 -0.6
37,303 + HMPREF1058_RS12765 0.73 -0.9
37,320 + HMPREF1058_RS12765 0.75 +1.0
37,327 + HMPREF1058_RS12765 0.75 -0.3
37,327 + HMPREF1058_RS12765 0.75 -0.4
37,328 - HMPREF1058_RS12765 0.75 -0.1
37,398 - HMPREF1058_RS12765 0.83 -1.7
37,398 - HMPREF1058_RS12765 0.83 -1.1
37,441 - HMPREF1058_RS12765 0.88 +0.2
37,458 - -2.0
37,490 + +1.2
37,491 - +0.5
37,498 + -1.9
37,499 - -0.4
37,626 - HMPREF1058_RS12760 0.20 -1.1
37,632 - HMPREF1058_RS12760 0.21 -0.8
37,633 + HMPREF1058_RS12760 0.21 -0.1
37,638 - HMPREF1058_RS12760 0.21 -0.4
37,670 + HMPREF1058_RS12760 0.26 -2.4
37,748 + HMPREF1058_RS12760 0.38 -1.4
37,748 + HMPREF1058_RS12760 0.38 +0.0
37,777 + HMPREF1058_RS12760 0.43 -3.7
37,809 + HMPREF1058_RS12760 0.47 +3.3
37,810 - HMPREF1058_RS12760 0.48 +3.9
37,810 - HMPREF1058_RS12760 0.48 -0.1
37,815 - HMPREF1058_RS12760 0.48 -2.4
37,854 + HMPREF1058_RS12760 0.54 +0.5
37,854 + HMPREF1058_RS12760 0.54 +0.3
37,854 + HMPREF1058_RS12760 0.54 +4.2
37,858 + HMPREF1058_RS12760 0.55 -1.2
37,858 + HMPREF1058_RS12760 0.55 -1.1
37,991 + HMPREF1058_RS12760 0.75 -0.3
38,025 + HMPREF1058_RS12760 0.80 +1.8
38,026 - HMPREF1058_RS12760 0.81 +0.2
38,026 - HMPREF1058_RS12760 0.81 -2.7
38,026 - HMPREF1058_RS12760 0.81 -0.8
38,048 - HMPREF1058_RS12760 0.84 +2.3
38,048 - HMPREF1058_RS12760 0.84 -2.1
38,102 + +0.9
38,110 - -1.1
38,154 + -0.5
38,166 - +1.5
38,266 + +1.3
38,266 + +2.7
38,311 - +0.9
38,354 + -0.2
38,354 + -1.2
38,356 + -1.9
38,356 + +1.5
38,357 - -0.7
38,374 - -1.1
38,385 - -0.1
38,386 + +1.1
38,386 + -3.8
38,386 + +1.5
38,389 - +1.9
38,389 - -2.2
38,389 - -0.2
38,393 + +0.6
38,538 + +0.4
38,644 - HMPREF1058_RS12755 0.12 -2.1
38,700 - HMPREF1058_RS12755 0.14 +1.5
38,703 - HMPREF1058_RS12755 0.14 -2.7
38,703 - HMPREF1058_RS12755 0.14 +0.1
38,704 + HMPREF1058_RS12755 0.14 -0.1
38,705 - HMPREF1058_RS12755 0.14 -0.2
38,738 + HMPREF1058_RS12755 0.16 -1.1
38,945 + HMPREF1058_RS12755 0.23 +1.5
38,993 - HMPREF1058_RS12755 0.25 -0.2
38,993 - HMPREF1058_RS12755 0.25 +0.2
39,008 - HMPREF1058_RS12755 0.25 +0.5
39,011 + HMPREF1058_RS12755 0.25 -1.9
39,033 - HMPREF1058_RS12755 0.26 +0.2
39,034 + HMPREF1058_RS12755 0.26 -0.1
39,035 - HMPREF1058_RS12755 0.26 +0.4
39,060 - HMPREF1058_RS12755 0.27 -1.1
39,080 + HMPREF1058_RS12755 0.28 +0.3
39,081 - HMPREF1058_RS12755 0.28 -0.1
39,083 - HMPREF1058_RS12755 0.28 -3.2
39,112 + HMPREF1058_RS12755 0.29 +0.9
39,112 + HMPREF1058_RS12755 0.29 -0.3
39,112 + HMPREF1058_RS12755 0.29 -0.7
39,113 - HMPREF1058_RS12755 0.29 +1.4

Or see this region's nucleotide sequence