Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; day4
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.
500 nt HMPREF1078_RS04095 and HMPREF1078_RS04100 overlap by 29 nucleotides HMPREF1078_RS04100 and HMPREF1078_RS04105 overlap by 13 nucleotides HMPREF1078_RS04105 and HMPREF1078_RS04110 are separated by 8 nucleotides
HMPREF1078_RS04095: HMPREF1078_RS04095 - cardiolipin synthase, at 33,629 to 35,068
_RS04095
HMPREF1078_RS04100: HMPREF1078_RS04100 - 16S rRNA (guanine(966)-N(2))-methyltransferase RsmD, at 35,040 to 35,597
_RS04100
HMPREF1078_RS04105: HMPREF1078_RS04105 - DUF3822 family protein, at 35,585 to 36,412
_RS04105
HMPREF1078_RS04110: HMPREF1078_RS04110 - hypothetical protein, at 36,421 to 37,050
_RS04110
Position (kb) 35
36 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2 at 34.058 kb on - strand, within HMPREF1078_RS04095 at 34.058 kb on - strand, within HMPREF1078_RS04095 at 34.143 kb on + strand, within HMPREF1078_RS04095 at 34.143 kb on + strand, within HMPREF1078_RS04095 at 34.275 kb on + strand, within HMPREF1078_RS04095 at 34.301 kb on + strand, within HMPREF1078_RS04095 at 34.308 kb on + strand, within HMPREF1078_RS04095 at 34.420 kb on - strand, within HMPREF1078_RS04095 at 34.454 kb on + strand, within HMPREF1078_RS04095 at 34.455 kb on - strand, within HMPREF1078_RS04095 at 34.455 kb on - strand, within HMPREF1078_RS04095 at 34.490 kb on + strand, within HMPREF1078_RS04095 at 34.491 kb on - strand, within HMPREF1078_RS04095 at 34.523 kb on - strand, within HMPREF1078_RS04095 at 34.567 kb on + strand, within HMPREF1078_RS04095 at 34.567 kb on + strand, within HMPREF1078_RS04095 at 34.567 kb on + strand, within HMPREF1078_RS04095 at 34.568 kb on - strand, within HMPREF1078_RS04095 at 34.613 kb on + strand, within HMPREF1078_RS04095 at 34.614 kb on - strand, within HMPREF1078_RS04095 at 34.614 kb on - strand, within HMPREF1078_RS04095 at 34.617 kb on + strand, within HMPREF1078_RS04095 at 34.617 kb on + strand, within HMPREF1078_RS04095 at 34.617 kb on + strand, within HMPREF1078_RS04095 at 34.618 kb on - strand, within HMPREF1078_RS04095 at 34.618 kb on - strand, within HMPREF1078_RS04095 at 34.794 kb on - strand, within HMPREF1078_RS04095 at 34.870 kb on + strand, within HMPREF1078_RS04095 at 34.920 kb on - strand, within HMPREF1078_RS04095 at 34.972 kb on + strand at 34.972 kb on + strand at 34.972 kb on + strand at 34.972 kb on + strand at 34.972 kb on + strand at 34.972 kb on + strand at 34.972 kb on + strand at 34.972 kb on + strand at 34.973 kb on - strand at 34.973 kb on - strand at 34.973 kb on - strand at 35.026 kb on + strand at 35.026 kb on + strand at 35.027 kb on - strand at 35.027 kb on - strand at 35.041 kb on + strand at 35.233 kb on + strand, within HMPREF1078_RS04100 at 35.373 kb on - strand, within HMPREF1078_RS04100 at 35.575 kb on + strand at 35.578 kb on - strand at 35.609 kb on + strand at 35.609 kb on + strand at 35.609 kb on + strand at 35.610 kb on - strand at 35.610 kb on - strand at 35.611 kb on + strand at 35.611 kb on + strand at 35.652 kb on + strand at 35.683 kb on + strand, within HMPREF1078_RS04105 at 35.684 kb on - strand, within HMPREF1078_RS04105 at 35.684 kb on - strand, within HMPREF1078_RS04105 at 35.684 kb on - strand, within HMPREF1078_RS04105 at 35.685 kb on + strand, within HMPREF1078_RS04105 at 35.685 kb on + strand, within HMPREF1078_RS04105 at 35.685 kb on + strand, within HMPREF1078_RS04105 at 35.686 kb on - strand, within HMPREF1078_RS04105 at 35.691 kb on - strand, within HMPREF1078_RS04105 at 35.691 kb on - strand, within HMPREF1078_RS04105 at 35.691 kb on - strand, within HMPREF1078_RS04105 at 35.694 kb on + strand, within HMPREF1078_RS04105 at 35.695 kb on - strand, within HMPREF1078_RS04105 at 35.695 kb on - strand, within HMPREF1078_RS04105 at 35.708 kb on - strand, within HMPREF1078_RS04105 at 35.708 kb on - strand, within HMPREF1078_RS04105 at 35.711 kb on - strand, within HMPREF1078_RS04105 at 35.714 kb on + strand, within HMPREF1078_RS04105 at 35.716 kb on + strand, within HMPREF1078_RS04105 at 35.716 kb on + strand, within HMPREF1078_RS04105 at 35.717 kb on - strand, within HMPREF1078_RS04105 at 35.717 kb on - strand, within HMPREF1078_RS04105 at 35.717 kb on - strand, within HMPREF1078_RS04105 at 35.789 kb on + strand, within HMPREF1078_RS04105 at 35.789 kb on + strand, within HMPREF1078_RS04105 at 35.789 kb on + strand, within HMPREF1078_RS04105 at 35.790 kb on - strand, within HMPREF1078_RS04105 at 35.793 kb on + strand, within HMPREF1078_RS04105 at 35.793 kb on + strand, within HMPREF1078_RS04105 at 35.793 kb on + strand, within HMPREF1078_RS04105 at 35.793 kb on + strand, within HMPREF1078_RS04105 at 35.794 kb on - strand, within HMPREF1078_RS04105 at 35.794 kb on - strand, within HMPREF1078_RS04105 at 35.794 kb on - strand, within HMPREF1078_RS04105 at 35.794 kb on - strand, within HMPREF1078_RS04105 at 35.794 kb on - strand, within HMPREF1078_RS04105 at 35.795 kb on + strand, within HMPREF1078_RS04105 at 35.796 kb on - strand, within HMPREF1078_RS04105 at 35.796 kb on - strand, within HMPREF1078_RS04105 at 35.796 kb on - strand, within HMPREF1078_RS04105 at 35.796 kb on - strand, within HMPREF1078_RS04105 at 35.796 kb on - strand, within HMPREF1078_RS04105 at 35.796 kb on - strand, within HMPREF1078_RS04105 at 35.796 kb on - strand, within HMPREF1078_RS04105 at 35.796 kb on - strand, within HMPREF1078_RS04105 at 35.798 kb on + strand, within HMPREF1078_RS04105 at 35.798 kb on + strand, within HMPREF1078_RS04105 at 35.798 kb on + strand, within HMPREF1078_RS04105 at 35.798 kb on + strand, within HMPREF1078_RS04105 at 35.799 kb on - strand, within HMPREF1078_RS04105 at 35.799 kb on - strand, within HMPREF1078_RS04105 at 35.799 kb on - strand, within HMPREF1078_RS04105 at 35.799 kb on - strand, within HMPREF1078_RS04105 at 35.799 kb on - strand, within HMPREF1078_RS04105 at 35.800 kb on + strand, within HMPREF1078_RS04105 at 35.800 kb on + strand, within HMPREF1078_RS04105 at 35.800 kb on + strand, within HMPREF1078_RS04105 at 35.800 kb on + strand, within HMPREF1078_RS04105 at 35.800 kb on + strand, within HMPREF1078_RS04105 at 35.800 kb on + strand, within HMPREF1078_RS04105 at 35.812 kb on + strand, within HMPREF1078_RS04105 at 35.821 kb on + strand, within HMPREF1078_RS04105 at 35.821 kb on + strand, within HMPREF1078_RS04105 at 35.821 kb on + strand, within HMPREF1078_RS04105 at 35.821 kb on + strand, within HMPREF1078_RS04105 at 35.822 kb on - strand, within HMPREF1078_RS04105 at 35.822 kb on - strand, within HMPREF1078_RS04105 at 35.868 kb on + strand, within HMPREF1078_RS04105 at 35.869 kb on - strand, within HMPREF1078_RS04105 at 35.869 kb on - strand, within HMPREF1078_RS04105 at 35.907 kb on + strand, within HMPREF1078_RS04105 at 35.907 kb on + strand, within HMPREF1078_RS04105 at 35.907 kb on + strand, within HMPREF1078_RS04105 at 35.907 kb on + strand, within HMPREF1078_RS04105 at 35.908 kb on - strand, within HMPREF1078_RS04105 at 35.908 kb on - strand, within HMPREF1078_RS04105 at 35.909 kb on + strand, within HMPREF1078_RS04105 at 35.909 kb on + strand, within HMPREF1078_RS04105 at 36.016 kb on - strand, within HMPREF1078_RS04105 at 36.016 kb on - strand, within HMPREF1078_RS04105 at 36.016 kb on - strand, within HMPREF1078_RS04105 at 36.016 kb on - strand, within HMPREF1078_RS04105 at 36.021 kb on + strand, within HMPREF1078_RS04105 at 36.160 kb on + strand, within HMPREF1078_RS04105 at 36.160 kb on + strand, within HMPREF1078_RS04105 at 36.160 kb on + strand, within HMPREF1078_RS04105 at 36.160 kb on + strand, within HMPREF1078_RS04105 at 36.161 kb on - strand, within HMPREF1078_RS04105 at 36.161 kb on - strand, within HMPREF1078_RS04105 at 36.161 kb on - strand, within HMPREF1078_RS04105 at 36.163 kb on - strand, within HMPREF1078_RS04105 at 36.252 kb on + strand, within HMPREF1078_RS04105 at 36.252 kb on + strand, within HMPREF1078_RS04105 at 36.253 kb on - strand, within HMPREF1078_RS04105 at 36.253 kb on - strand, within HMPREF1078_RS04105 at 36.253 kb on - strand, within HMPREF1078_RS04105 at 36.286 kb on - strand, within HMPREF1078_RS04105 at 36.286 kb on - strand, within HMPREF1078_RS04105 at 36.359 kb on + strand at 36.360 kb on - strand at 36.360 kb on - strand at 36.360 kb on - strand at 36.363 kb on + strand at 36.363 kb on + strand at 36.364 kb on - strand at 36.387 kb on - strand at 36.392 kb on - strand at 36.392 kb on - strand at 36.407 kb on - strand at 36.407 kb on - strand at 36.412 kb on + strand at 36.413 kb on - strand at 36.419 kb on + strand at 36.422 kb on + strand at 36.423 kb on - strand at 36.435 kb on + strand at 36.436 kb on - strand at 36.436 kb on - strand at 36.469 kb on + strand at 36.469 kb on + strand at 36.469 kb on + strand at 36.470 kb on - strand at 36.470 kb on - strand at 36.485 kb on + strand, within HMPREF1078_RS04110 at 36.485 kb on + strand, within HMPREF1078_RS04110 at 36.485 kb on + strand, within HMPREF1078_RS04110 at 36.486 kb on - strand, within HMPREF1078_RS04110 at 36.486 kb on - strand, within HMPREF1078_RS04110 at 36.508 kb on - strand, within HMPREF1078_RS04110 at 36.521 kb on + strand, within HMPREF1078_RS04110 at 36.521 kb on + strand, within HMPREF1078_RS04110 at 36.522 kb on - strand, within HMPREF1078_RS04110 at 36.522 kb on - strand, within HMPREF1078_RS04110 at 36.522 kb on - strand, within HMPREF1078_RS04110 at 36.551 kb on + strand, within HMPREF1078_RS04110 at 36.551 kb on + strand, within HMPREF1078_RS04110 at 36.552 kb on - strand, within HMPREF1078_RS04110 at 36.560 kb on + strand, within HMPREF1078_RS04110 at 36.581 kb on - strand, within HMPREF1078_RS04110 at 36.587 kb on - strand, within HMPREF1078_RS04110 at 36.591 kb on + strand, within HMPREF1078_RS04110 at 36.591 kb on + strand, within HMPREF1078_RS04110 at 36.591 kb on + strand, within HMPREF1078_RS04110 at 36.592 kb on - strand, within HMPREF1078_RS04110 at 36.592 kb on - strand, within HMPREF1078_RS04110 at 36.592 kb on - strand, within HMPREF1078_RS04110 at 36.592 kb on - strand, within HMPREF1078_RS04110 at 36.592 kb on - strand, within HMPREF1078_RS04110 at 36.593 kb on + strand, within HMPREF1078_RS04110
Per-strain Table
Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; day4 remove 34,058 - HMPREF1078_RS04095 0.30 +1.4 34,058 - HMPREF1078_RS04095 0.30 -2.1 34,143 + HMPREF1078_RS04095 0.36 +0.1 34,143 + HMPREF1078_RS04095 0.36 -3.1 34,275 + HMPREF1078_RS04095 0.45 -1.7 34,301 + HMPREF1078_RS04095 0.47 -2.9 34,308 + HMPREF1078_RS04095 0.47 -0.9 34,420 - HMPREF1078_RS04095 0.55 +0.1 34,454 + HMPREF1078_RS04095 0.57 +0.8 34,455 - HMPREF1078_RS04095 0.57 -0.5 34,455 - HMPREF1078_RS04095 0.57 -2.5 34,490 + HMPREF1078_RS04095 0.60 +1.1 34,491 - HMPREF1078_RS04095 0.60 +1.4 34,523 - HMPREF1078_RS04095 0.62 -0.9 34,567 + HMPREF1078_RS04095 0.65 -0.6 34,567 + HMPREF1078_RS04095 0.65 -0.7 34,567 + HMPREF1078_RS04095 0.65 +1.3 34,568 - HMPREF1078_RS04095 0.65 -0.9 34,613 + HMPREF1078_RS04095 0.68 +1.1 34,614 - HMPREF1078_RS04095 0.68 -0.4 34,614 - HMPREF1078_RS04095 0.68 -0.6 34,617 + HMPREF1078_RS04095 0.69 +1.1 34,617 + HMPREF1078_RS04095 0.69 -0.5 34,617 + HMPREF1078_RS04095 0.69 -2.1 34,618 - HMPREF1078_RS04095 0.69 +1.3 34,618 - HMPREF1078_RS04095 0.69 -0.9 34,794 - HMPREF1078_RS04095 0.81 -2.5 34,870 + HMPREF1078_RS04095 0.86 -2.3 34,920 - HMPREF1078_RS04095 0.90 -0.2 34,972 + +0.7 34,972 + -0.3 34,972 + +1.3 34,972 + -2.3 34,972 + +0.3 34,972 + -2.2 34,972 + -0.0 34,972 + +0.5 34,973 - +1.8 34,973 - +1.0 34,973 - +1.6 35,026 + -0.1 35,026 + +0.8 35,027 - +0.7 35,027 - -0.5 35,041 + -2.2 35,233 + HMPREF1078_RS04100 0.35 -3.3 35,373 - HMPREF1078_RS04100 0.60 -0.9 35,575 + -2.1 35,578 - -1.1 35,609 + -0.5 35,609 + +0.1 35,609 + -1.6 35,610 - -0.5 35,610 - +2.3 35,611 + +0.4 35,611 + -1.7 35,652 + -1.7 35,683 + HMPREF1078_RS04105 0.12 -1.8 35,684 - HMPREF1078_RS04105 0.12 -0.3 35,684 - HMPREF1078_RS04105 0.12 +0.1 35,684 - HMPREF1078_RS04105 0.12 -1.5 35,685 + HMPREF1078_RS04105 0.12 -1.9 35,685 + HMPREF1078_RS04105 0.12 -0.7 35,685 + HMPREF1078_RS04105 0.12 -2.5 35,686 - HMPREF1078_RS04105 0.12 -1.1 35,691 - HMPREF1078_RS04105 0.13 -1.0 35,691 - HMPREF1078_RS04105 0.13 -0.7 35,691 - HMPREF1078_RS04105 0.13 -0.1 35,694 + HMPREF1078_RS04105 0.13 +2.1 35,695 - HMPREF1078_RS04105 0.13 -0.5 35,695 - HMPREF1078_RS04105 0.13 -0.5 35,708 - HMPREF1078_RS04105 0.15 -0.7 35,708 - HMPREF1078_RS04105 0.15 -1.1 35,711 - HMPREF1078_RS04105 0.15 -2.9 35,714 + HMPREF1078_RS04105 0.16 -1.1 35,716 + HMPREF1078_RS04105 0.16 +0.1 35,716 + HMPREF1078_RS04105 0.16 +0.1 35,717 - HMPREF1078_RS04105 0.16 -1.5 35,717 - HMPREF1078_RS04105 0.16 -0.2 35,717 - HMPREF1078_RS04105 0.16 -0.5 35,789 + HMPREF1078_RS04105 0.25 +1.3 35,789 + HMPREF1078_RS04105 0.25 +1.1 35,789 + HMPREF1078_RS04105 0.25 -2.7 35,790 - HMPREF1078_RS04105 0.25 -0.7 35,793 + HMPREF1078_RS04105 0.25 +1.1 35,793 + HMPREF1078_RS04105 0.25 -0.9 35,793 + HMPREF1078_RS04105 0.25 -1.5 35,793 + HMPREF1078_RS04105 0.25 +0.1 35,794 - HMPREF1078_RS04105 0.25 +0.2 35,794 - HMPREF1078_RS04105 0.25 -2.2 35,794 - HMPREF1078_RS04105 0.25 +1.7 35,794 - HMPREF1078_RS04105 0.25 -1.7 35,794 - HMPREF1078_RS04105 0.25 -0.3 35,795 + HMPREF1078_RS04105 0.25 -0.5 35,796 - HMPREF1078_RS04105 0.25 -0.4 35,796 - HMPREF1078_RS04105 0.25 -3.0 35,796 - HMPREF1078_RS04105 0.25 +1.5 35,796 - HMPREF1078_RS04105 0.25 -2.1 35,796 - HMPREF1078_RS04105 0.25 -0.5 35,796 - HMPREF1078_RS04105 0.25 -3.5 35,796 - HMPREF1078_RS04105 0.25 +1.5 35,796 - HMPREF1078_RS04105 0.25 -1.9 35,798 + HMPREF1078_RS04105 0.26 +1.1 35,798 + HMPREF1078_RS04105 0.26 +1.1 35,798 + HMPREF1078_RS04105 0.26 -1.6 35,798 + HMPREF1078_RS04105 0.26 -2.0 35,799 - HMPREF1078_RS04105 0.26 +0.1 35,799 - HMPREF1078_RS04105 0.26 +0.8 35,799 - HMPREF1078_RS04105 0.26 -0.0 35,799 - HMPREF1078_RS04105 0.26 +0.5 35,799 - HMPREF1078_RS04105 0.26 -1.9 35,800 + HMPREF1078_RS04105 0.26 -0.8 35,800 + HMPREF1078_RS04105 0.26 +1.1 35,800 + HMPREF1078_RS04105 0.26 -0.5 35,800 + HMPREF1078_RS04105 0.26 -1.2 35,800 + HMPREF1078_RS04105 0.26 -1.9 35,800 + HMPREF1078_RS04105 0.26 -0.5 35,812 + HMPREF1078_RS04105 0.27 -0.9 35,821 + HMPREF1078_RS04105 0.29 -1.4 35,821 + HMPREF1078_RS04105 0.29 -1.3 35,821 + HMPREF1078_RS04105 0.29 -1.8 35,821 + HMPREF1078_RS04105 0.29 -0.6 35,822 - HMPREF1078_RS04105 0.29 -2.1 35,822 - HMPREF1078_RS04105 0.29 -2.1 35,868 + HMPREF1078_RS04105 0.34 -2.2 35,869 - HMPREF1078_RS04105 0.34 -0.2 35,869 - HMPREF1078_RS04105 0.34 -0.7 35,907 + HMPREF1078_RS04105 0.39 -1.5 35,907 + HMPREF1078_RS04105 0.39 -1.2 35,907 + HMPREF1078_RS04105 0.39 -0.4 35,907 + HMPREF1078_RS04105 0.39 -1.2 35,908 - HMPREF1078_RS04105 0.39 -1.9 35,908 - HMPREF1078_RS04105 0.39 -0.3 35,909 + HMPREF1078_RS04105 0.39 +1.3 35,909 + HMPREF1078_RS04105 0.39 +0.4 36,016 - HMPREF1078_RS04105 0.52 +1.1 36,016 - HMPREF1078_RS04105 0.52 -0.6 36,016 - HMPREF1078_RS04105 0.52 -1.5 36,016 - HMPREF1078_RS04105 0.52 -1.7 36,021 + HMPREF1078_RS04105 0.53 +0.1 36,160 + HMPREF1078_RS04105 0.69 -0.7 36,160 + HMPREF1078_RS04105 0.69 -0.2 36,160 + HMPREF1078_RS04105 0.69 -3.2 36,160 + HMPREF1078_RS04105 0.69 +1.7 36,161 - HMPREF1078_RS04105 0.70 +0.0 36,161 - HMPREF1078_RS04105 0.70 -0.6 36,161 - HMPREF1078_RS04105 0.70 -1.8 36,163 - HMPREF1078_RS04105 0.70 -0.4 36,252 + HMPREF1078_RS04105 0.81 -0.7 36,252 + HMPREF1078_RS04105 0.81 +0.3 36,253 - HMPREF1078_RS04105 0.81 -2.3 36,253 - HMPREF1078_RS04105 0.81 -1.0 36,253 - HMPREF1078_RS04105 0.81 -1.4 36,286 - HMPREF1078_RS04105 0.85 +0.0 36,286 - HMPREF1078_RS04105 0.85 +0.4 36,359 + -0.5 36,360 - +0.5 36,360 - -2.2 36,360 - -2.1 36,363 + +1.0 36,363 + -2.7 36,364 - -1.2 36,387 - -1.2 36,392 - +0.0 36,392 - +0.1 36,407 - -1.4 36,407 - -0.6 36,412 + +0.1 36,413 - +1.0 36,419 + -1.9 36,422 + +0.1 36,423 - +1.1 36,435 + -0.9 36,436 - -3.4 36,436 - -3.6 36,469 + -3.8 36,469 + -4.1 36,469 + -1.5 36,470 - -3.0 36,470 - -3.6 36,485 + HMPREF1078_RS04110 0.10 -1.7 36,485 + HMPREF1078_RS04110 0.10 -0.5 36,485 + HMPREF1078_RS04110 0.10 -3.6 36,486 - HMPREF1078_RS04110 0.10 -3.7 36,486 - HMPREF1078_RS04110 0.10 -3.1 36,508 - HMPREF1078_RS04110 0.14 -2.5 36,521 + HMPREF1078_RS04110 0.16 -2.1 36,521 + HMPREF1078_RS04110 0.16 -3.2 36,522 - HMPREF1078_RS04110 0.16 -0.9 36,522 - HMPREF1078_RS04110 0.16 -1.5 36,522 - HMPREF1078_RS04110 0.16 -2.8 36,551 + HMPREF1078_RS04110 0.21 -3.1 36,551 + HMPREF1078_RS04110 0.21 -2.6 36,552 - HMPREF1078_RS04110 0.21 -2.9 36,560 + HMPREF1078_RS04110 0.22 +1.1 36,581 - HMPREF1078_RS04110 0.25 -2.7 36,587 - HMPREF1078_RS04110 0.26 -3.7 36,591 + HMPREF1078_RS04110 0.27 -1.9 36,591 + HMPREF1078_RS04110 0.27 -2.8 36,591 + HMPREF1078_RS04110 0.27 -2.6 36,592 - HMPREF1078_RS04110 0.27 -3.5 36,592 - HMPREF1078_RS04110 0.27 -4.7 36,592 - HMPREF1078_RS04110 0.27 -3.1 36,592 - HMPREF1078_RS04110 0.27 +0.1 36,592 - HMPREF1078_RS04110 0.27 -0.5 36,593 + HMPREF1078_RS04110 0.27 -2.1
Or see this region's nucleotide sequence