Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS16485

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_RS16490 and HMPREF1058_RS16485 are separated by 174 nucleotidesHMPREF1058_RS16485 and HMPREF1058_RS16480 are separated by 95 nucleotidesHMPREF1058_RS16480 and HMPREF1058_RS16475 are separated by 4 nucleotides HMPREF1058_RS16490: HMPREF1058_RS16490 - sodium ion-translocating decarboxylase subunit beta, at 657,511 to 658,671 _RS16490 HMPREF1058_RS16485: HMPREF1058_RS16485 - cyclomaltodextrinase C-terminal domain-containing protein, at 658,846 to 659,094 _RS16485 HMPREF1058_RS16480: HMPREF1058_RS16480 - SDR family oxidoreductase, at 659,190 to 659,948 _RS16480 HMPREF1058_RS16475: HMPREF1058_RS16475 - esterase, at 659,953 to 660,771 _RS16475 Position (kb) 658 659 660Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 657.908 kb on - strand, within HMPREF1058_RS16490at 658.011 kb on - strand, within HMPREF1058_RS16490at 658.048 kb on + strand, within HMPREF1058_RS16490at 658.054 kb on + strand, within HMPREF1058_RS16490at 658.054 kb on + strandat 658.055 kb on - strand, within HMPREF1058_RS16490at 658.055 kb on - strand, within HMPREF1058_RS16490at 658.055 kb on - strand, within HMPREF1058_RS16490at 658.055 kb on - strand, within HMPREF1058_RS16490at 658.055 kb on - strand, within HMPREF1058_RS16490at 658.055 kb on - strand, within HMPREF1058_RS16490at 658.086 kb on + strand, within HMPREF1058_RS16490at 658.086 kb on + strand, within HMPREF1058_RS16490at 658.166 kb on + strand, within HMPREF1058_RS16490at 658.194 kb on + strand, within HMPREF1058_RS16490at 658.195 kb on - strand, within HMPREF1058_RS16490at 658.249 kb on - strand, within HMPREF1058_RS16490at 658.329 kb on - strand, within HMPREF1058_RS16490at 658.332 kb on - strandat 658.518 kb on - strand, within HMPREF1058_RS16490at 658.543 kb on - strand, within HMPREF1058_RS16490at 658.543 kb on - strand, within HMPREF1058_RS16490at 658.543 kb on - strand, within HMPREF1058_RS16490at 658.583 kb on - strandat 658.669 kb on + strandat 658.707 kb on + strandat 658.758 kb on + strandat 658.778 kb on + strandat 658.779 kb on - strandat 658.786 kb on + strandat 658.808 kb on - strandat 658.832 kb on + strandat 658.863 kb on + strandat 658.863 kb on + strandat 658.863 kb on + strandat 658.863 kb on + strandat 658.863 kb on + strandat 658.868 kb on - strandat 658.889 kb on + strand, within HMPREF1058_RS16485at 658.890 kb on - strand, within HMPREF1058_RS16485at 658.891 kb on + strand, within HMPREF1058_RS16485at 658.891 kb on + strand, within HMPREF1058_RS16485at 658.891 kb on + strand, within HMPREF1058_RS16485at 658.892 kb on - strand, within HMPREF1058_RS16485at 658.892 kb on - strand, within HMPREF1058_RS16485at 658.892 kb on - strand, within HMPREF1058_RS16485at 658.892 kb on - strand, within HMPREF1058_RS16485at 658.893 kb on + strand, within HMPREF1058_RS16485at 658.893 kb on + strand, within HMPREF1058_RS16485at 658.894 kb on - strand, within HMPREF1058_RS16485at 658.894 kb on - strand, within HMPREF1058_RS16485at 658.894 kb on - strand, within HMPREF1058_RS16485at 658.894 kb on - strand, within HMPREF1058_RS16485at 658.894 kb on - strand, within HMPREF1058_RS16485at 658.897 kb on + strand, within HMPREF1058_RS16485at 658.898 kb on - strand, within HMPREF1058_RS16485at 658.898 kb on - strand, within HMPREF1058_RS16485at 658.898 kb on - strand, within HMPREF1058_RS16485at 658.898 kb on - strand, within HMPREF1058_RS16485at 658.908 kb on + strand, within HMPREF1058_RS16485at 659.019 kb on + strand, within HMPREF1058_RS16485at 659.110 kb on - strandat 659.117 kb on + strandat 659.117 kb on + strandat 659.118 kb on - strandat 659.167 kb on - strandat 659.170 kb on + strandat 659.170 kb on + strandat 659.170 kb on + strandat 659.170 kb on + strandat 659.171 kb on - strandat 659.330 kb on + strand, within HMPREF1058_RS16480at 659.330 kb on + strand, within HMPREF1058_RS16480at 659.332 kb on + strand, within HMPREF1058_RS16480at 659.333 kb on - strand, within HMPREF1058_RS16480at 659.334 kb on + strand, within HMPREF1058_RS16480at 659.335 kb on - strand, within HMPREF1058_RS16480at 659.335 kb on - strand, within HMPREF1058_RS16480at 659.335 kb on - strand, within HMPREF1058_RS16480at 659.335 kb on - strand, within HMPREF1058_RS16480at 659.408 kb on + strand, within HMPREF1058_RS16480at 659.528 kb on + strand, within HMPREF1058_RS16480at 659.540 kb on + strand, within HMPREF1058_RS16480at 659.541 kb on - strand, within HMPREF1058_RS16480at 659.543 kb on + strand, within HMPREF1058_RS16480at 659.544 kb on - strand, within HMPREF1058_RS16480at 659.544 kb on - strand, within HMPREF1058_RS16480at 659.546 kb on + strand, within HMPREF1058_RS16480at 659.546 kb on + strand, within HMPREF1058_RS16480at 659.547 kb on - strand, within HMPREF1058_RS16480at 659.558 kb on + strand, within HMPREF1058_RS16480at 659.558 kb on + strand, within HMPREF1058_RS16480at 659.616 kb on - strand, within HMPREF1058_RS16480at 659.622 kb on + strand, within HMPREF1058_RS16480at 659.623 kb on - strand, within HMPREF1058_RS16480at 659.623 kb on - strand, within HMPREF1058_RS16480at 659.700 kb on + strand, within HMPREF1058_RS16480at 659.856 kb on + strand, within HMPREF1058_RS16480at 659.931 kb on - strandat 660.027 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse14; day3
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657,908 - HMPREF1058_RS16490 0.34 -4.2
658,011 - HMPREF1058_RS16490 0.43 -2.2
658,048 + HMPREF1058_RS16490 0.46 -2.2
658,054 + HMPREF1058_RS16490 0.47 +0.1
658,054 + -2.7
658,055 - HMPREF1058_RS16490 0.47 -3.3
658,055 - HMPREF1058_RS16490 0.47 -0.2
658,055 - HMPREF1058_RS16490 0.47 -2.1
658,055 - HMPREF1058_RS16490 0.47 -1.6
658,055 - HMPREF1058_RS16490 0.47 -0.7
658,055 - HMPREF1058_RS16490 0.47 -0.5
658,086 + HMPREF1058_RS16490 0.50 -2.1
658,086 + HMPREF1058_RS16490 0.50 -0.6
658,166 + HMPREF1058_RS16490 0.56 -0.8
658,194 + HMPREF1058_RS16490 0.59 +0.1
658,195 - HMPREF1058_RS16490 0.59 -0.7
658,249 - HMPREF1058_RS16490 0.64 -2.8
658,329 - HMPREF1058_RS16490 0.70 +0.1
658,332 - -1.5
658,518 - HMPREF1058_RS16490 0.87 +0.3
658,543 - HMPREF1058_RS16490 0.89 -0.9
658,543 - HMPREF1058_RS16490 0.89 -1.7
658,543 - HMPREF1058_RS16490 0.89 -1.1
658,583 - -1.7
658,669 + +0.6
658,707 + +0.2
658,758 + +0.8
658,778 + -0.3
658,779 - +0.8
658,786 + +0.2
658,808 - +0.3
658,832 + +2.1
658,863 + +0.6
658,863 + -1.3
658,863 + +0.3
658,863 + +0.2
658,863 + +0.6
658,868 - +1.3
658,889 + HMPREF1058_RS16485 0.17 +0.5
658,890 - HMPREF1058_RS16485 0.18 +0.1
658,891 + HMPREF1058_RS16485 0.18 +0.6
658,891 + HMPREF1058_RS16485 0.18 +0.7
658,891 + HMPREF1058_RS16485 0.18 +0.5
658,892 - HMPREF1058_RS16485 0.18 -0.0
658,892 - HMPREF1058_RS16485 0.18 +0.5
658,892 - HMPREF1058_RS16485 0.18 +0.0
658,892 - HMPREF1058_RS16485 0.18 +0.3
658,893 + HMPREF1058_RS16485 0.19 -0.4
658,893 + HMPREF1058_RS16485 0.19 +0.4
658,894 - HMPREF1058_RS16485 0.19 +0.5
658,894 - HMPREF1058_RS16485 0.19 +0.7
658,894 - HMPREF1058_RS16485 0.19 +1.6
658,894 - HMPREF1058_RS16485 0.19 -0.5
658,894 - HMPREF1058_RS16485 0.19 +0.2
658,897 + HMPREF1058_RS16485 0.20 +0.4
658,898 - HMPREF1058_RS16485 0.21 -0.0
658,898 - HMPREF1058_RS16485 0.21 +0.8
658,898 - HMPREF1058_RS16485 0.21 +1.3
658,898 - HMPREF1058_RS16485 0.21 -0.7
658,908 + HMPREF1058_RS16485 0.25 -1.7
659,019 + HMPREF1058_RS16485 0.69 +0.9
659,110 - -2.5
659,117 + -0.3
659,117 + +0.9
659,118 - +0.4
659,167 - +0.5
659,170 + -0.4
659,170 + -0.6
659,170 + +1.2
659,170 + -1.0
659,171 - +1.1
659,330 + HMPREF1058_RS16480 0.18 +1.4
659,330 + HMPREF1058_RS16480 0.18 +0.6
659,332 + HMPREF1058_RS16480 0.19 -2.9
659,333 - HMPREF1058_RS16480 0.19 +0.3
659,334 + HMPREF1058_RS16480 0.19 +0.6
659,335 - HMPREF1058_RS16480 0.19 -1.5
659,335 - HMPREF1058_RS16480 0.19 -0.7
659,335 - HMPREF1058_RS16480 0.19 -2.2
659,335 - HMPREF1058_RS16480 0.19 -1.9
659,408 + HMPREF1058_RS16480 0.29 -0.9
659,528 + HMPREF1058_RS16480 0.45 +0.3
659,540 + HMPREF1058_RS16480 0.46 +0.1
659,541 - HMPREF1058_RS16480 0.46 +1.1
659,543 + HMPREF1058_RS16480 0.47 +0.1
659,544 - HMPREF1058_RS16480 0.47 +2.4
659,544 - HMPREF1058_RS16480 0.47 -0.2
659,546 + HMPREF1058_RS16480 0.47 -1.6
659,546 + HMPREF1058_RS16480 0.47 -1.2
659,547 - HMPREF1058_RS16480 0.47 +0.5
659,558 + HMPREF1058_RS16480 0.48 -0.3
659,558 + HMPREF1058_RS16480 0.48 +0.3
659,616 - HMPREF1058_RS16480 0.56 +0.7
659,622 + HMPREF1058_RS16480 0.57 +0.2
659,623 - HMPREF1058_RS16480 0.57 +0.5
659,623 - HMPREF1058_RS16480 0.57 +0.4
659,700 + HMPREF1058_RS16480 0.67 +0.7
659,856 + HMPREF1058_RS16480 0.88 -2.2
659,931 - +0.4
660,027 + -1.4

Or see this region's nucleotide sequence