Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS16675

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse14; day3

Add experiment(s):

Zoom: Pan:

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.

download SVG
500 ntHMPREF1058_RS16685 and HMPREF1058_RS16680 are separated by 37 nucleotidesHMPREF1058_RS16680 and HMPREF1058_RS16675 overlap by 1 nucleotidesHMPREF1058_RS16675 and HMPREF1058_RS16670 are separated by 374 nucleotides HMPREF1058_RS16685: HMPREF1058_RS16685 - methionine synthase, at 617,107 to 619,860 _RS16685 HMPREF1058_RS16680: HMPREF1058_RS16680 - SsrA-binding protein, at 619,898 to 620,350 _RS16680 HMPREF1058_RS16675: HMPREF1058_RS16675 - DUF1282 family protein, at 620,350 to 620,919 _RS16675 HMPREF1058_RS16670: HMPREF1058_RS16670 - site-specific integrase, at 621,294 to 622,382 _RS16670 Position (kb) 620 621Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 619.406 kb on + strand, within HMPREF1058_RS16685at 619.468 kb on - strand, within HMPREF1058_RS16685at 619.500 kb on + strand, within HMPREF1058_RS16685at 619.518 kb on + strand, within HMPREF1058_RS16685at 619.521 kb on - strand, within HMPREF1058_RS16685at 619.627 kb on - strandat 619.639 kb on - strandat 619.641 kb on + strandat 619.641 kb on + strandat 619.642 kb on - strandat 619.661 kb on + strandat 619.661 kb on + strandat 619.666 kb on - strandat 619.783 kb on - strandat 619.783 kb on - strandat 619.840 kb on + strandat 619.849 kb on + strandat 619.860 kb on + strandat 619.860 kb on + strandat 619.860 kb on + strandat 619.861 kb on - strandat 619.861 kb on - strandat 619.861 kb on - strandat 619.861 kb on - strandat 619.899 kb on + strandat 619.912 kb on + strandat 619.912 kb on + strandat 619.912 kb on + strandat 619.912 kb on + strandat 620.436 kb on - strand, within HMPREF1058_RS16675at 620.473 kb on - strand, within HMPREF1058_RS16675at 620.591 kb on - strand, within HMPREF1058_RS16675at 620.591 kb on - strand, within HMPREF1058_RS16675at 620.606 kb on - strand, within HMPREF1058_RS16675at 620.661 kb on - strand, within HMPREF1058_RS16675at 620.693 kb on - strand, within HMPREF1058_RS16675at 620.701 kb on - strand, within HMPREF1058_RS16675at 620.701 kb on - strand, within HMPREF1058_RS16675at 620.701 kb on - strand, within HMPREF1058_RS16675at 620.764 kb on - strand, within HMPREF1058_RS16675at 620.764 kb on - strand, within HMPREF1058_RS16675at 620.768 kb on - strand, within HMPREF1058_RS16675at 620.795 kb on - strand, within HMPREF1058_RS16675at 620.795 kb on - strand, within HMPREF1058_RS16675at 620.913 kb on - strandat 620.930 kb on - strandat 621.002 kb on + strandat 621.003 kb on - strandat 621.029 kb on - strandat 621.040 kb on + strandat 621.063 kb on - strandat 621.091 kb on - strandat 621.119 kb on - strandat 621.123 kb on + strandat 621.153 kb on + strandat 621.153 kb on + strandat 621.155 kb on + strandat 621.155 kb on + strandat 621.156 kb on - strandat 621.156 kb on - strandat 621.162 kb on - strandat 621.174 kb on - strandat 621.246 kb on + strandat 621.262 kb on + strandat 621.290 kb on + strandat 621.291 kb on - strandat 621.294 kb on - strandat 621.367 kb on + strandat 621.368 kb on - strandat 621.409 kb on + strand, within HMPREF1058_RS16670at 621.413 kb on + strand, within HMPREF1058_RS16670at 621.414 kb on - strand, within HMPREF1058_RS16670at 621.414 kb on - strand, within HMPREF1058_RS16670at 621.417 kb on + strand, within HMPREF1058_RS16670at 621.417 kb on + strand, within HMPREF1058_RS16670at 621.417 kb on + strand, within HMPREF1058_RS16670at 621.417 kb on + strand, within HMPREF1058_RS16670at 621.417 kb on + strand, within HMPREF1058_RS16670at 621.418 kb on - strand, within HMPREF1058_RS16670at 621.419 kb on + strand, within HMPREF1058_RS16670at 621.419 kb on + strand, within HMPREF1058_RS16670at 621.419 kb on + strand, within HMPREF1058_RS16670at 621.419 kb on + strand, within HMPREF1058_RS16670at 621.419 kb on + strand, within HMPREF1058_RS16670at 621.419 kb on + strand, within HMPREF1058_RS16670at 621.420 kb on - strand, within HMPREF1058_RS16670at 621.420 kb on - strand, within HMPREF1058_RS16670at 621.423 kb on + strand, within HMPREF1058_RS16670at 621.506 kb on - strandat 621.651 kb on - strand, within HMPREF1058_RS16670at 621.706 kb on + strand, within HMPREF1058_RS16670at 621.706 kb on + strand, within HMPREF1058_RS16670at 621.707 kb on - strand, within HMPREF1058_RS16670at 621.719 kb on - strand, within HMPREF1058_RS16670at 621.761 kb on + strand, within HMPREF1058_RS16670at 621.767 kb on - strand, within HMPREF1058_RS16670at 621.767 kb on - strand, within HMPREF1058_RS16670at 621.829 kb on + strand, within HMPREF1058_RS16670at 621.838 kb on + strand, within HMPREF1058_RS16670at 621.900 kb on + strand, within HMPREF1058_RS16670at 621.901 kb on - strand, within HMPREF1058_RS16670at 621.907 kb on + strand, within HMPREF1058_RS16670at 621.908 kb on - strand, within HMPREF1058_RS16670at 621.908 kb on - strand, within HMPREF1058_RS16670at 621.910 kb on - strand, within HMPREF1058_RS16670at 621.912 kb on - strand, within HMPREF1058_RS16670at 621.912 kb on - strand, within HMPREF1058_RS16670at 621.912 kb on - strand, within HMPREF1058_RS16670

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse14; day3
remove
619,406 + HMPREF1058_RS16685 0.83 +0.8
619,468 - HMPREF1058_RS16685 0.86 -1.5
619,500 + HMPREF1058_RS16685 0.87 -2.0
619,518 + HMPREF1058_RS16685 0.88 -1.2
619,521 - HMPREF1058_RS16685 0.88 -4.6
619,627 - -2.2
619,639 - -4.0
619,641 + -1.3
619,641 + -2.4
619,642 - -1.2
619,661 + -1.6
619,661 + -2.5
619,666 - -1.9
619,783 - -1.9
619,783 - -1.9
619,840 + -1.1
619,849 + -0.5
619,860 + -2.0
619,860 + -3.6
619,860 + -2.6
619,861 - +1.2
619,861 - -1.3
619,861 - -2.8
619,861 - -0.2
619,899 + -1.5
619,912 + -2.2
619,912 + -2.0
619,912 + -2.5
619,912 + -2.3
620,436 - HMPREF1058_RS16675 0.15 +0.4
620,473 - HMPREF1058_RS16675 0.22 +0.2
620,591 - HMPREF1058_RS16675 0.42 +0.7
620,591 - HMPREF1058_RS16675 0.42 -0.2
620,606 - HMPREF1058_RS16675 0.45 -0.5
620,661 - HMPREF1058_RS16675 0.55 +0.7
620,693 - HMPREF1058_RS16675 0.60 +0.1
620,701 - HMPREF1058_RS16675 0.62 +0.1
620,701 - HMPREF1058_RS16675 0.62 +1.1
620,701 - HMPREF1058_RS16675 0.62 +1.4
620,764 - HMPREF1058_RS16675 0.73 -0.1
620,764 - HMPREF1058_RS16675 0.73 +1.6
620,768 - HMPREF1058_RS16675 0.73 +1.2
620,795 - HMPREF1058_RS16675 0.78 -0.4
620,795 - HMPREF1058_RS16675 0.78 +0.2
620,913 - -0.6
620,930 - +0.1
621,002 + -1.8
621,003 - -2.2
621,029 - -0.1
621,040 + -0.2
621,063 - +0.5
621,091 - -1.6
621,119 - -1.6
621,123 + -0.6
621,153 + -1.6
621,153 + -0.2
621,155 + +2.1
621,155 + +0.5
621,156 - -0.8
621,156 - -0.1
621,162 - -0.5
621,174 - +0.9
621,246 + -0.5
621,262 + -0.2
621,290 + -0.5
621,291 - +0.3
621,294 - +0.3
621,367 + -0.2
621,368 - +0.1
621,409 + HMPREF1058_RS16670 0.11 +0.3
621,413 + HMPREF1058_RS16670 0.11 +0.2
621,414 - HMPREF1058_RS16670 0.11 -0.2
621,414 - HMPREF1058_RS16670 0.11 +0.1
621,417 + HMPREF1058_RS16670 0.11 +0.6
621,417 + HMPREF1058_RS16670 0.11 +0.2
621,417 + HMPREF1058_RS16670 0.11 +0.8
621,417 + HMPREF1058_RS16670 0.11 +0.3
621,417 + HMPREF1058_RS16670 0.11 -0.2
621,418 - HMPREF1058_RS16670 0.11 -0.2
621,419 + HMPREF1058_RS16670 0.11 +0.2
621,419 + HMPREF1058_RS16670 0.11 +0.2
621,419 + HMPREF1058_RS16670 0.11 -0.1
621,419 + HMPREF1058_RS16670 0.11 +2.1
621,419 + HMPREF1058_RS16670 0.11 -0.1
621,419 + HMPREF1058_RS16670 0.11 +1.3
621,420 - HMPREF1058_RS16670 0.12 +0.5
621,420 - HMPREF1058_RS16670 0.12 +0.2
621,423 + HMPREF1058_RS16670 0.12 -0.4
621,506 - +0.1
621,651 - HMPREF1058_RS16670 0.33 +0.4
621,706 + HMPREF1058_RS16670 0.38 +0.9
621,706 + HMPREF1058_RS16670 0.38 +0.1
621,707 - HMPREF1058_RS16670 0.38 -1.2
621,719 - HMPREF1058_RS16670 0.39 +0.1
621,761 + HMPREF1058_RS16670 0.43 +0.1
621,767 - HMPREF1058_RS16670 0.43 -0.9
621,767 - HMPREF1058_RS16670 0.43 -1.5
621,829 + HMPREF1058_RS16670 0.49 +0.4
621,838 + HMPREF1058_RS16670 0.50 +0.6
621,900 + HMPREF1058_RS16670 0.56 +0.6
621,901 - HMPREF1058_RS16670 0.56 -0.3
621,907 + HMPREF1058_RS16670 0.56 -1.8
621,908 - HMPREF1058_RS16670 0.56 -0.0
621,908 - HMPREF1058_RS16670 0.56 -0.4
621,910 - HMPREF1058_RS16670 0.57 -0.1
621,912 - HMPREF1058_RS16670 0.57 -0.9
621,912 - HMPREF1058_RS16670 0.57 -1.2
621,912 - HMPREF1058_RS16670 0.57 -1.9

Or see this region's nucleotide sequence