Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS10285

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse16; day5

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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_RS0119660 and HMPREF1058_RS10295 are separated by 180 nucleotidesHMPREF1058_RS10295 and HMPREF1058_RS10290 overlap by 4 nucleotidesHMPREF1058_RS10290 and HMPREF1058_RS10285 overlap by 4 nucleotidesHMPREF1058_RS10285 and HMPREF1058_RS10275 are separated by 309 nucleotides HMPREF1058_RS0119660: HMPREF1058_RS0119660 - DNA cytosine methyltransferase, at 693,868 to 694,671 _RS0119660 HMPREF1058_RS10295: HMPREF1058_RS10295 - hypothetical protein, at 694,852 to 695,319 _RS10295 HMPREF1058_RS10290: HMPREF1058_RS10290 - hypothetical protein, at 695,316 to 695,621 _RS10290 HMPREF1058_RS10285: HMPREF1058_RS10285 - hypothetical protein, at 695,618 to 695,902 _RS10285 HMPREF1058_RS10275: HMPREF1058_RS10275 - RNA-splicing ligase RtcB, at 696,212 to 697,399 _RS10275 Position (kb) 695 696Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1at 694.642 kb on - strandat 694.646 kb on - strandat 694.668 kb on - strandat 694.682 kb on + strandat 694.683 kb on - strandat 694.725 kb on - strandat 694.725 kb on - strandat 694.745 kb on + strandat 694.847 kb on - strandat 694.848 kb on + strandat 694.849 kb on - strandat 694.849 kb on - strandat 694.892 kb on + strandat 694.902 kb on + strand, within HMPREF1058_RS10295at 694.977 kb on + strand, within HMPREF1058_RS10295at 695.166 kb on - strand, within HMPREF1058_RS10295at 695.371 kb on + strand, within HMPREF1058_RS10290at 695.395 kb on + strand, within HMPREF1058_RS10290at 695.517 kb on + strand, within HMPREF1058_RS10290at 695.517 kb on + strand, within HMPREF1058_RS10290at 695.537 kb on + strand, within HMPREF1058_RS10290at 695.537 kb on + strand, within HMPREF1058_RS10290at 695.538 kb on - strand, within HMPREF1058_RS10290at 695.547 kb on - strand, within HMPREF1058_RS10290at 695.606 kb on + strandat 695.617 kb on + strandat 695.625 kb on - strandat 695.658 kb on + strand, within HMPREF1058_RS10285at 695.663 kb on - strand, within HMPREF1058_RS10285at 695.691 kb on + strand, within HMPREF1058_RS10285at 695.767 kb on - strand, within HMPREF1058_RS10285at 695.848 kb on - strand, within HMPREF1058_RS10285at 695.858 kb on + strand, within HMPREF1058_RS10285at 695.858 kb on + strand, within HMPREF1058_RS10285at 695.859 kb on - strand, within HMPREF1058_RS10285at 695.883 kb on + strandat 695.907 kb on - strandat 695.912 kb on + strandat 695.912 kb on + strandat 695.922 kb on + strandat 695.923 kb on - strandat 695.923 kb on - strandat 695.926 kb on + strandat 695.927 kb on - strandat 695.928 kb on + strandat 695.929 kb on - strandat 695.957 kb on - strandat 696.002 kb on + strandat 696.002 kb on + strandat 696.053 kb on + strandat 696.054 kb on - strandat 696.085 kb on + strandat 696.111 kb on + strandat 696.111 kb on + strandat 696.112 kb on - strandat 696.199 kb on - strandat 696.305 kb on - strandat 696.328 kb on + strandat 696.328 kb on + strandat 696.380 kb on - strand, within HMPREF1058_RS10275at 696.380 kb on - strand, within HMPREF1058_RS10275at 696.382 kb on + strand, within HMPREF1058_RS10275at 696.383 kb on - strand, within HMPREF1058_RS10275at 696.383 kb on - strand, within HMPREF1058_RS10275at 696.449 kb on - strand, within HMPREF1058_RS10275at 696.473 kb on - strand, within HMPREF1058_RS10275at 696.529 kb on + strand, within HMPREF1058_RS10275at 696.531 kb on + strand, within HMPREF1058_RS10275at 696.531 kb on + strand, within HMPREF1058_RS10275at 696.532 kb on - strand, within HMPREF1058_RS10275at 696.532 kb on - strand, within HMPREF1058_RS10275at 696.532 kb on - strand, within HMPREF1058_RS10275at 696.570 kb on + strand, within HMPREF1058_RS10275at 696.571 kb on - strand, within HMPREF1058_RS10275at 696.594 kb on + strand, within HMPREF1058_RS10275at 696.605 kb on + strand, within HMPREF1058_RS10275at 696.605 kb on + strand, within HMPREF1058_RS10275at 696.606 kb on - strand, within HMPREF1058_RS10275at 696.673 kb on + strand, within HMPREF1058_RS10275at 696.677 kb on + strand, within HMPREF1058_RS10275at 696.677 kb on + strand, within HMPREF1058_RS10275at 696.678 kb on - strand, within HMPREF1058_RS10275at 696.680 kb on + strand, within HMPREF1058_RS10275at 696.703 kb on + strand, within HMPREF1058_RS10275at 696.755 kb on - strand, within HMPREF1058_RS10275

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse16; day5
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694,642 - +0.2
694,646 - -0.2
694,668 - -0.3
694,682 + -3.4
694,683 - -0.8
694,725 - +0.9
694,725 - +0.2
694,745 + -4.0
694,847 - +0.8
694,848 + -3.5
694,849 - -0.3
694,849 - +0.4
694,892 + -3.8
694,902 + HMPREF1058_RS10295 0.11 -4.3
694,977 + HMPREF1058_RS10295 0.27 -3.4
695,166 - HMPREF1058_RS10295 0.67 +0.8
695,371 + HMPREF1058_RS10290 0.18 -2.5
695,395 + HMPREF1058_RS10290 0.26 -3.3
695,517 + HMPREF1058_RS10290 0.66 -4.5
695,517 + HMPREF1058_RS10290 0.66 -1.5
695,537 + HMPREF1058_RS10290 0.72 -4.9
695,537 + HMPREF1058_RS10290 0.72 -2.5
695,538 - HMPREF1058_RS10290 0.73 +0.8
695,547 - HMPREF1058_RS10290 0.75 -0.8
695,606 + -2.5
695,617 + -4.9
695,625 - -0.4
695,658 + HMPREF1058_RS10285 0.14 -3.5
695,663 - HMPREF1058_RS10285 0.16 +0.6
695,691 + HMPREF1058_RS10285 0.26 -4.5
695,767 - HMPREF1058_RS10285 0.52 -1.6
695,848 - HMPREF1058_RS10285 0.81 -0.6
695,858 + HMPREF1058_RS10285 0.84 -1.8
695,858 + HMPREF1058_RS10285 0.84 -4.5
695,859 - HMPREF1058_RS10285 0.85 +1.6
695,883 + -4.3
695,907 - -1.5
695,912 + -2.0
695,912 + -2.5
695,922 + -2.0
695,923 - +0.2
695,923 - +0.2
695,926 + -0.8
695,927 - -0.4
695,928 + -3.5
695,929 - +0.2
695,957 - +0.1
696,002 + -2.5
696,002 + -2.5
696,053 + -1.2
696,054 - +1.3
696,085 + -3.3
696,111 + -5.0
696,111 + -1.7
696,112 - +0.2
696,199 - -2.6
696,305 - -5.2
696,328 + -4.1
696,328 + -1.5
696,380 - HMPREF1058_RS10275 0.14 -1.8
696,380 - HMPREF1058_RS10275 0.14 -4.3
696,382 + HMPREF1058_RS10275 0.14 -1.1
696,383 - HMPREF1058_RS10275 0.14 -3.9
696,383 - HMPREF1058_RS10275 0.14 -3.0
696,449 - HMPREF1058_RS10275 0.20 -1.5
696,473 - HMPREF1058_RS10275 0.22 -2.4
696,529 + HMPREF1058_RS10275 0.27 -1.7
696,531 + HMPREF1058_RS10275 0.27 -1.7
696,531 + HMPREF1058_RS10275 0.27 -2.9
696,532 - HMPREF1058_RS10275 0.27 -1.2
696,532 - HMPREF1058_RS10275 0.27 -1.8
696,532 - HMPREF1058_RS10275 0.27 -1.2
696,570 + HMPREF1058_RS10275 0.30 -0.8
696,571 - HMPREF1058_RS10275 0.30 -2.5
696,594 + HMPREF1058_RS10275 0.32 -1.1
696,605 + HMPREF1058_RS10275 0.33 -1.4
696,605 + HMPREF1058_RS10275 0.33 -0.7
696,606 - HMPREF1058_RS10275 0.33 -2.5
696,673 + HMPREF1058_RS10275 0.39 -2.5
696,677 + HMPREF1058_RS10275 0.39 -2.0
696,677 + HMPREF1058_RS10275 0.39 -1.5
696,678 - HMPREF1058_RS10275 0.39 -3.0
696,680 + HMPREF1058_RS10275 0.39 -2.4
696,703 + HMPREF1058_RS10275 0.41 -1.3
696,755 - HMPREF1058_RS10275 0.46 -1.5

Or see this region's nucleotide sequence