Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS10290

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse18; 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_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 1 2at 694.330 kb on + strand, within HMPREF1058_RS0119660at 694.379 kb on + strand, within HMPREF1058_RS0119660at 694.380 kb on - strand, within HMPREF1058_RS0119660at 694.380 kb on - strand, within HMPREF1058_RS0119660at 694.380 kb on - strand, within HMPREF1058_RS0119660at 694.464 kb on + strand, within HMPREF1058_RS0119660at 694.537 kb on - strand, within HMPREF1058_RS0119660at 694.537 kb on - strand, within HMPREF1058_RS0119660at 694.540 kb on - strand, within HMPREF1058_RS0119660at 694.588 kb on + strand, within HMPREF1058_RS0119660at 694.588 kb on + strand, within HMPREF1058_RS0119660at 694.589 kb on - strand, within HMPREF1058_RS0119660at 694.600 kb on - strandat 694.600 kb on - strandat 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_RS10275

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse18; day6
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694,330 + HMPREF1058_RS0119660 0.57 -0.9
694,379 + HMPREF1058_RS0119660 0.64 -0.9
694,380 - HMPREF1058_RS0119660 0.64 -0.2
694,380 - HMPREF1058_RS0119660 0.64 -0.1
694,380 - HMPREF1058_RS0119660 0.64 +1.4
694,464 + HMPREF1058_RS0119660 0.74 -3.2
694,537 - HMPREF1058_RS0119660 0.83 -1.3
694,537 - HMPREF1058_RS0119660 0.83 +0.9
694,540 - HMPREF1058_RS0119660 0.84 +0.5
694,588 + HMPREF1058_RS0119660 0.90 -0.9
694,588 + HMPREF1058_RS0119660 0.90 -1.3
694,589 - HMPREF1058_RS0119660 0.90 +0.6
694,600 - +0.3
694,600 - -1.9
694,642 - +0.1
694,646 - +0.2
694,668 - -0.0
694,682 + -3.5
694,683 - +0.7
694,725 - +0.1
694,725 - -0.1
694,745 + -4.1
694,847 - -0.9
694,848 + -4.7
694,849 - -1.2
694,849 - -0.1
694,892 + -2.9
694,902 + HMPREF1058_RS10295 0.11 -2.8
694,977 + HMPREF1058_RS10295 0.27 -3.5
695,166 - HMPREF1058_RS10295 0.67 +0.1
695,371 + HMPREF1058_RS10290 0.18 -2.7
695,395 + HMPREF1058_RS10290 0.26 -5.0
695,517 + HMPREF1058_RS10290 0.66 -4.6
695,517 + HMPREF1058_RS10290 0.66 -1.7
695,537 + HMPREF1058_RS10290 0.72 -5.0
695,537 + HMPREF1058_RS10290 0.72 -3.7
695,538 - HMPREF1058_RS10290 0.73 +1.8
695,547 - HMPREF1058_RS10290 0.75 -0.2
695,606 + -2.7
695,617 + -3.4
695,625 - +0.9
695,658 + HMPREF1058_RS10285 0.14 -4.6
695,663 - HMPREF1058_RS10285 0.16 +0.5
695,691 + HMPREF1058_RS10285 0.26 -3.6
695,767 - HMPREF1058_RS10285 0.52 -1.7
695,848 - HMPREF1058_RS10285 0.81 -0.9
695,858 + HMPREF1058_RS10285 0.84 -1.9
695,858 + HMPREF1058_RS10285 0.84 -4.6
695,859 - HMPREF1058_RS10285 0.85 +1.2
695,883 + -4.4
695,907 - -1.8
695,912 + -2.1
695,912 + -2.6
695,922 + -2.1
695,923 - +0.6
695,923 - +0.8
695,926 + -0.9
695,927 - -1.5
695,928 + -3.6
695,929 - +1.8
695,957 - +0.6
696,002 + -3.6
696,002 + -2.6
696,053 + -1.3
696,054 - -0.2
696,085 + -3.4
696,111 + -5.1
696,111 + -2.8
696,112 - +0.1
696,199 - -2.3
696,305 - -4.3
696,328 + -5.2
696,328 + -1.9
696,380 - HMPREF1058_RS10275 0.14 -1.9
696,380 - HMPREF1058_RS10275 0.14 -4.4
696,382 + HMPREF1058_RS10275 0.14 -2.1
696,383 - HMPREF1058_RS10275 0.14 -4.0
696,383 - HMPREF1058_RS10275 0.14 -2.5
696,449 - HMPREF1058_RS10275 0.20 -3.2
696,473 - HMPREF1058_RS10275 0.22 -2.5
696,529 + HMPREF1058_RS10275 0.27 -3.6
696,531 + HMPREF1058_RS10275 0.27 -1.2
696,531 + HMPREF1058_RS10275 0.27 -4.6
696,532 - HMPREF1058_RS10275 0.27 -1.3
696,532 - HMPREF1058_RS10275 0.27 -0.9
696,532 - HMPREF1058_RS10275 0.27 -1.3
696,570 + HMPREF1058_RS10275 0.30 -0.3
696,571 - HMPREF1058_RS10275 0.30 -1.6
696,594 + HMPREF1058_RS10275 0.32 -2.0
696,605 + HMPREF1058_RS10275 0.33 -2.5
696,605 + HMPREF1058_RS10275 0.33 -1.4
696,606 - HMPREF1058_RS10275 0.33 -2.6

Or see this region's nucleotide sequence