Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse9; day5
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 HMPREF1058_RS08180 and HMPREF1058_RS08175 are separated by 200 nucleotides HMPREF1058_RS08175 and HMPREF1058_RS08170 are separated by 43 nucleotides HMPREF1058_RS08170 and HMPREF1058_RS08165 are separated by 25 nucleotides
HMPREF1058_RS08180: HMPREF1058_RS08180 - helix-turn-helix domain-containing protein, at 22,919 to 25,732
_RS08180
HMPREF1058_RS08175: HMPREF1058_RS08175 - sigma-70 family RNA polymerase sigma factor, at 25,933 to 26,448
_RS08175
HMPREF1058_RS08170: HMPREF1058_RS08170 - TonB-dependent receptor, at 26,492 to 29,839
_RS08170
HMPREF1058_RS08165: HMPREF1058_RS08165 - RagB/SusD family nutrient uptake outer membrane protein, at 29,865 to 31,805
_RS08165
Position (kb) 26
27
28
29
30 Strain fitness (log2 ratio) -5
-4
-3
-2
-1
0
1
2
3
4 at 25.541 kb on + strand at 25.542 kb on - strand at 25.604 kb on + strand at 25.768 kb on + strand at 25.768 kb on + strand at 25.894 kb on - strand at 25.896 kb on - strand at 25.907 kb on + strand at 25.988 kb on - strand, within HMPREF1058_RS08175 at 26.032 kb on - strand, within HMPREF1058_RS08175 at 26.065 kb on + strand, within HMPREF1058_RS08175 at 26.066 kb on - strand, within HMPREF1058_RS08175 at 26.172 kb on + strand, within HMPREF1058_RS08175 at 26.194 kb on + strand, within HMPREF1058_RS08175 at 26.195 kb on - strand, within HMPREF1058_RS08175 at 26.201 kb on - strand, within HMPREF1058_RS08175 at 26.219 kb on - strand at 26.220 kb on + strand, within HMPREF1058_RS08175 at 26.310 kb on + strand, within HMPREF1058_RS08175 at 26.443 kb on - strand at 26.443 kb on - strand at 26.443 kb on - strand at 26.443 kb on - strand at 26.444 kb on + strand at 26.445 kb on - strand at 26.447 kb on - strand at 26.447 kb on - strand at 26.541 kb on - strand at 26.584 kb on - strand at 26.614 kb on + strand at 26.631 kb on + strand at 26.689 kb on - strand at 26.698 kb on + strand at 26.699 kb on - strand at 26.707 kb on + strand at 26.735 kb on - strand at 26.774 kb on + strand at 26.822 kb on - strand at 26.830 kb on + strand, within HMPREF1058_RS08170 at 26.875 kb on - strand, within HMPREF1058_RS08170 at 26.960 kb on - strand, within HMPREF1058_RS08170 at 26.963 kb on - strand, within HMPREF1058_RS08170 at 27.091 kb on + strand, within HMPREF1058_RS08170 at 27.194 kb on + strand, within HMPREF1058_RS08170 at 27.195 kb on - strand, within HMPREF1058_RS08170 at 27.226 kb on - strand, within HMPREF1058_RS08170 at 27.267 kb on + strand at 27.272 kb on + strand, within HMPREF1058_RS08170 at 27.273 kb on - strand, within HMPREF1058_RS08170 at 27.273 kb on - strand, within HMPREF1058_RS08170 at 27.273 kb on - strand, within HMPREF1058_RS08170 at 27.293 kb on - strand, within HMPREF1058_RS08170 at 27.372 kb on - strand, within HMPREF1058_RS08170 at 27.419 kb on - strand, within HMPREF1058_RS08170 at 27.442 kb on + strand, within HMPREF1058_RS08170 at 27.448 kb on - strand, within HMPREF1058_RS08170 at 27.450 kb on + strand, within HMPREF1058_RS08170 at 27.494 kb on - strand, within HMPREF1058_RS08170 at 27.547 kb on - strand, within HMPREF1058_RS08170 at 27.584 kb on - strand, within HMPREF1058_RS08170 at 27.689 kb on - strand, within HMPREF1058_RS08170 at 27.787 kb on + strand, within HMPREF1058_RS08170 at 27.790 kb on + strand, within HMPREF1058_RS08170 at 27.793 kb on + strand, within HMPREF1058_RS08170 at 27.793 kb on + strand, within HMPREF1058_RS08170 at 27.801 kb on - strand, within HMPREF1058_RS08170 at 27.847 kb on + strand, within HMPREF1058_RS08170 at 27.848 kb on - strand, within HMPREF1058_RS08170 at 27.861 kb on - strand, within HMPREF1058_RS08170 at 27.884 kb on + strand, within HMPREF1058_RS08170 at 27.886 kb on + strand, within HMPREF1058_RS08170 at 27.886 kb on + strand, within HMPREF1058_RS08170 at 27.912 kb on + strand, within HMPREF1058_RS08170 at 27.914 kb on + strand, within HMPREF1058_RS08170 at 27.914 kb on + strand, within HMPREF1058_RS08170 at 27.916 kb on + strand, within HMPREF1058_RS08170 at 27.917 kb on - strand, within HMPREF1058_RS08170 at 27.917 kb on - strand, within HMPREF1058_RS08170 at 27.922 kb on - strand, within HMPREF1058_RS08170 at 28.042 kb on + strand, within HMPREF1058_RS08170 at 28.051 kb on + strand, within HMPREF1058_RS08170 at 28.092 kb on - strand, within HMPREF1058_RS08170 at 28.092 kb on - strand, within HMPREF1058_RS08170 at 28.094 kb on + strand, within HMPREF1058_RS08170 at 28.095 kb on - strand, within HMPREF1058_RS08170 at 28.098 kb on + strand, within HMPREF1058_RS08170 at 28.099 kb on - strand, within HMPREF1058_RS08170 at 28.109 kb on + strand, within HMPREF1058_RS08170 at 28.123 kb on + strand, within HMPREF1058_RS08170 at 28.144 kb on + strand, within HMPREF1058_RS08170 at 28.145 kb on - strand, within HMPREF1058_RS08170 at 28.147 kb on - strand, within HMPREF1058_RS08170 at 28.147 kb on - strand, within HMPREF1058_RS08170 at 28.187 kb on + strand, within HMPREF1058_RS08170 at 28.188 kb on - strand, within HMPREF1058_RS08170 at 28.192 kb on - strand, within HMPREF1058_RS08170 at 28.211 kb on - strand, within HMPREF1058_RS08170 at 28.218 kb on - strand, within HMPREF1058_RS08170 at 28.270 kb on + strand, within HMPREF1058_RS08170 at 28.271 kb on - strand, within HMPREF1058_RS08170 at 28.271 kb on - strand, within HMPREF1058_RS08170 at 28.271 kb on - strand, within HMPREF1058_RS08170 at 28.271 kb on - strand, within HMPREF1058_RS08170 at 28.275 kb on + strand, within HMPREF1058_RS08170 at 28.276 kb on - strand, within HMPREF1058_RS08170 at 28.314 kb on - strand, within HMPREF1058_RS08170 at 28.323 kb on + strand, within HMPREF1058_RS08170 at 28.345 kb on - strand, within HMPREF1058_RS08170 at 28.350 kb on - strand, within HMPREF1058_RS08170 at 28.402 kb on + strand, within HMPREF1058_RS08170 at 28.430 kb on + strand, within HMPREF1058_RS08170 at 28.475 kb on + strand, within HMPREF1058_RS08170 at 28.478 kb on - strand, within HMPREF1058_RS08170 at 28.514 kb on - strand, within HMPREF1058_RS08170 at 28.514 kb on - strand, within HMPREF1058_RS08170 at 28.590 kb on + strand, within HMPREF1058_RS08170 at 28.677 kb on - strand, within HMPREF1058_RS08170 at 28.677 kb on - strand, within HMPREF1058_RS08170 at 28.682 kb on + strand, within HMPREF1058_RS08170 at 28.766 kb on - strand, within HMPREF1058_RS08170 at 28.771 kb on + strand, within HMPREF1058_RS08170 at 28.772 kb on - strand, within HMPREF1058_RS08170 at 28.871 kb on - strand, within HMPREF1058_RS08170 at 28.874 kb on - strand, within HMPREF1058_RS08170 at 28.878 kb on + strand, within HMPREF1058_RS08170 at 28.879 kb on - strand, within HMPREF1058_RS08170 at 28.995 kb on + strand, within HMPREF1058_RS08170 at 29.049 kb on - strand, within HMPREF1058_RS08170 at 29.089 kb on - strand, within HMPREF1058_RS08170 at 29.089 kb on - strand, within HMPREF1058_RS08170 at 29.183 kb on - strand, within HMPREF1058_RS08170 at 29.228 kb on - strand, within HMPREF1058_RS08170 at 29.288 kb on - strand, within HMPREF1058_RS08170 at 29.324 kb on + strand, within HMPREF1058_RS08170 at 29.419 kb on - strand, within HMPREF1058_RS08170 at 29.506 kb on + strand at 29.616 kb on - strand at 29.663 kb on - strand at 29.713 kb on + strand at 29.717 kb on - strand at 29.780 kb on - strand at 29.782 kb on + strand at 29.902 kb on + strand at 29.902 kb on + strand at 29.902 kb on + strand at 29.902 kb on + strand at 29.903 kb on - strand at 30.017 kb on + strand at 30.017 kb on + strand at 30.017 kb on + strand at 30.018 kb on - strand at 30.018 kb on - strand at 30.021 kb on + strand at 30.021 kb on + strand at 30.022 kb on - strand at 30.024 kb on - strand at 30.065 kb on + strand, within HMPREF1058_RS08165 at 30.066 kb on - strand, within HMPREF1058_RS08165 at 30.069 kb on - strand, within HMPREF1058_RS08165 at 30.072 kb on + strand, within HMPREF1058_RS08165 at 30.072 kb on + strand, within HMPREF1058_RS08165 at 30.085 kb on - strand, within HMPREF1058_RS08165 at 30.088 kb on - strand, within HMPREF1058_RS08165 at 30.092 kb on + strand, within HMPREF1058_RS08165 at 30.113 kb on + strand, within HMPREF1058_RS08165 at 30.119 kb on - strand, within HMPREF1058_RS08165 at 30.119 kb on - strand, within HMPREF1058_RS08165 at 30.146 kb on + strand, within HMPREF1058_RS08165 at 30.151 kb on + strand, within HMPREF1058_RS08165 at 30.171 kb on - strand, within HMPREF1058_RS08165 at 30.175 kb on - strand, within HMPREF1058_RS08165 at 30.237 kb on + strand, within HMPREF1058_RS08165 at 30.238 kb on - strand at 30.238 kb on - strand, within HMPREF1058_RS08165 at 30.246 kb on - strand, within HMPREF1058_RS08165 at 30.354 kb on - strand, within HMPREF1058_RS08165 at 30.375 kb on + strand, within HMPREF1058_RS08165 at 30.376 kb on - strand, within HMPREF1058_RS08165 at 30.512 kb on + strand, within HMPREF1058_RS08165 at 30.512 kb on + strand, within HMPREF1058_RS08165 at 30.512 kb on + strand, within HMPREF1058_RS08165 at 30.513 kb on - strand, within HMPREF1058_RS08165 at 30.513 kb on - strand, within HMPREF1058_RS08165 at 30.543 kb on + strand, within HMPREF1058_RS08165 at 30.544 kb on - strand, within HMPREF1058_RS08165 at 30.554 kb on + strand, within HMPREF1058_RS08165 at 30.627 kb on - strand, within HMPREF1058_RS08165 at 30.679 kb on - strand, within HMPREF1058_RS08165 at 30.704 kb on + strand, within HMPREF1058_RS08165 at 30.706 kb on + strand, within HMPREF1058_RS08165 at 30.706 kb on + strand, within HMPREF1058_RS08165 at 30.707 kb on - strand, within HMPREF1058_RS08165 at 30.707 kb on - strand, within HMPREF1058_RS08165 at 30.708 kb on + strand, within HMPREF1058_RS08165 at 30.719 kb on - strand, within HMPREF1058_RS08165 at 30.730 kb on - strand, within HMPREF1058_RS08165 at 30.774 kb on - strand, within HMPREF1058_RS08165 at 30.777 kb on - strand, within HMPREF1058_RS08165 at 30.798 kb on - strand, within HMPREF1058_RS08165 at 30.815 kb on + strand, within HMPREF1058_RS08165 at 30.821 kb on + strand, within HMPREF1058_RS08165 at 30.822 kb on - strand, within HMPREF1058_RS08165
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse9; day5 remove 25,541 + -0.2 25,542 - -0.5 25,604 + -1.6 25,768 + -1.1 25,768 + +1.0 25,894 - -1.1 25,896 - -1.5 25,907 + -2.7 25,988 - HMPREF1058_RS08175 0.11 -1.1 26,032 - HMPREF1058_RS08175 0.19 +2.1 26,065 + HMPREF1058_RS08175 0.26 -2.1 26,066 - HMPREF1058_RS08175 0.26 +1.0 26,172 + HMPREF1058_RS08175 0.46 -2.4 26,194 + HMPREF1058_RS08175 0.51 -1.7 26,195 - HMPREF1058_RS08175 0.51 +0.5 26,201 - HMPREF1058_RS08175 0.52 +1.6 26,219 - -0.1 26,220 + HMPREF1058_RS08175 0.56 -0.8 26,310 + HMPREF1058_RS08175 0.73 +0.7 26,443 - -1.4 26,443 - +0.8 26,443 - -1.4 26,443 - +1.4 26,444 + +0.5 26,445 - -0.6 26,447 - -0.0 26,447 - +1.9 26,541 - +0.8 26,584 - +0.6 26,614 + -0.7 26,631 + +1.2 26,689 - +0.3 26,698 + +0.6 26,699 - +3.1 26,707 + -0.7 26,735 - -2.4 26,774 + -0.2 26,822 - -1.1 26,830 + HMPREF1058_RS08170 0.10 -1.1 26,875 - HMPREF1058_RS08170 0.11 -0.1 26,960 - HMPREF1058_RS08170 0.14 -1.4 26,963 - HMPREF1058_RS08170 0.14 +0.0 27,091 + HMPREF1058_RS08170 0.18 +1.6 27,194 + HMPREF1058_RS08170 0.21 -3.1 27,195 - HMPREF1058_RS08170 0.21 -0.1 27,226 - HMPREF1058_RS08170 0.22 -0.6 27,267 + -0.1 27,272 + HMPREF1058_RS08170 0.23 +0.1 27,273 - HMPREF1058_RS08170 0.23 +0.1 27,273 - HMPREF1058_RS08170 0.23 +0.2 27,273 - HMPREF1058_RS08170 0.23 +0.5 27,293 - HMPREF1058_RS08170 0.24 -0.1 27,372 - HMPREF1058_RS08170 0.26 +3.2 27,419 - HMPREF1058_RS08170 0.28 -1.1 27,442 + HMPREF1058_RS08170 0.28 -1.7 27,448 - HMPREF1058_RS08170 0.29 -1.8 27,450 + HMPREF1058_RS08170 0.29 -2.1 27,494 - HMPREF1058_RS08170 0.30 +0.7 27,547 - HMPREF1058_RS08170 0.32 -1.2 27,584 - HMPREF1058_RS08170 0.33 +1.8 27,689 - HMPREF1058_RS08170 0.36 +1.7 27,787 + HMPREF1058_RS08170 0.39 -0.8 27,790 + HMPREF1058_RS08170 0.39 +0.6 27,793 + HMPREF1058_RS08170 0.39 -2.1 27,793 + HMPREF1058_RS08170 0.39 -0.8 27,801 - HMPREF1058_RS08170 0.39 -1.1 27,847 + HMPREF1058_RS08170 0.40 -0.1 27,848 - HMPREF1058_RS08170 0.41 -1.3 27,861 - HMPREF1058_RS08170 0.41 +0.6 27,884 + HMPREF1058_RS08170 0.42 +0.5 27,886 + HMPREF1058_RS08170 0.42 -2.4 27,886 + HMPREF1058_RS08170 0.42 -2.1 27,912 + HMPREF1058_RS08170 0.42 -3.1 27,914 + HMPREF1058_RS08170 0.42 +1.5 27,914 + HMPREF1058_RS08170 0.42 -1.4 27,916 + HMPREF1058_RS08170 0.43 -0.4 27,917 - HMPREF1058_RS08170 0.43 -0.9 27,917 - HMPREF1058_RS08170 0.43 +1.3 27,922 - HMPREF1058_RS08170 0.43 +1.3 28,042 + HMPREF1058_RS08170 0.46 +2.4 28,051 + HMPREF1058_RS08170 0.47 +0.4 28,092 - HMPREF1058_RS08170 0.48 -1.7 28,092 - HMPREF1058_RS08170 0.48 +0.2 28,094 + HMPREF1058_RS08170 0.48 +4.7 28,095 - HMPREF1058_RS08170 0.48 -1.7 28,098 + HMPREF1058_RS08170 0.48 -0.2 28,099 - HMPREF1058_RS08170 0.48 +2.4 28,109 + HMPREF1058_RS08170 0.48 -0.5 28,123 + HMPREF1058_RS08170 0.49 -0.4 28,144 + HMPREF1058_RS08170 0.49 -1.3 28,145 - HMPREF1058_RS08170 0.49 -0.4 28,147 - HMPREF1058_RS08170 0.49 -4.9 28,147 - HMPREF1058_RS08170 0.49 +1.5 28,187 + HMPREF1058_RS08170 0.51 +0.7 28,188 - HMPREF1058_RS08170 0.51 +0.4 28,192 - HMPREF1058_RS08170 0.51 +2.8 28,211 - HMPREF1058_RS08170 0.51 -0.2 28,218 - HMPREF1058_RS08170 0.52 +0.5 28,270 + HMPREF1058_RS08170 0.53 +0.4 28,271 - HMPREF1058_RS08170 0.53 -0.8 28,271 - HMPREF1058_RS08170 0.53 +1.1 28,271 - HMPREF1058_RS08170 0.53 +0.9 28,271 - HMPREF1058_RS08170 0.53 +1.8 28,275 + HMPREF1058_RS08170 0.53 +0.3 28,276 - HMPREF1058_RS08170 0.53 +0.7 28,314 - HMPREF1058_RS08170 0.54 +1.5 28,323 + HMPREF1058_RS08170 0.55 -0.6 28,345 - HMPREF1058_RS08170 0.55 -0.1 28,350 - HMPREF1058_RS08170 0.55 -1.7 28,402 + HMPREF1058_RS08170 0.57 +1.3 28,430 + HMPREF1058_RS08170 0.58 -0.8 28,475 + HMPREF1058_RS08170 0.59 +1.5 28,478 - HMPREF1058_RS08170 0.59 -0.0 28,514 - HMPREF1058_RS08170 0.60 +0.8 28,514 - HMPREF1058_RS08170 0.60 +0.2 28,590 + HMPREF1058_RS08170 0.63 +0.4 28,677 - HMPREF1058_RS08170 0.65 -0.6 28,677 - HMPREF1058_RS08170 0.65 -1.0 28,682 + HMPREF1058_RS08170 0.65 -1.8 28,766 - HMPREF1058_RS08170 0.68 +1.9 28,771 + HMPREF1058_RS08170 0.68 +0.6 28,772 - HMPREF1058_RS08170 0.68 -0.9 28,871 - HMPREF1058_RS08170 0.71 -0.7 28,874 - HMPREF1058_RS08170 0.71 +1.7 28,878 + HMPREF1058_RS08170 0.71 -2.1 28,879 - HMPREF1058_RS08170 0.71 +3.1 28,995 + HMPREF1058_RS08170 0.75 -0.1 29,049 - HMPREF1058_RS08170 0.76 -0.3 29,089 - HMPREF1058_RS08170 0.78 -1.7 29,089 - HMPREF1058_RS08170 0.78 -0.2 29,183 - HMPREF1058_RS08170 0.80 +0.3 29,228 - HMPREF1058_RS08170 0.82 +0.5 29,288 - HMPREF1058_RS08170 0.84 -0.7 29,324 + HMPREF1058_RS08170 0.85 +1.3 29,419 - HMPREF1058_RS08170 0.87 -0.7 29,506 + -0.9 29,616 - +0.5 29,663 - +1.7 29,713 + +0.7 29,717 - -0.2 29,780 - +0.9 29,782 + -1.7 29,902 + -0.4 29,902 + +1.2 29,902 + +0.1 29,902 + -0.5 29,903 - -0.1 30,017 + +1.5 30,017 + +2.9 30,017 + -0.2 30,018 - -0.7 30,018 - +1.8 30,021 + -2.1 30,021 + -1.8 30,022 - -1.7 30,024 - -1.7 30,065 + HMPREF1058_RS08165 0.10 +1.3 30,066 - HMPREF1058_RS08165 0.10 +0.3 30,069 - HMPREF1058_RS08165 0.11 +0.5 30,072 + HMPREF1058_RS08165 0.11 +1.5 30,072 + HMPREF1058_RS08165 0.11 +1.6 30,085 - HMPREF1058_RS08165 0.11 -1.2 30,088 - HMPREF1058_RS08165 0.11 +2.5 30,092 + HMPREF1058_RS08165 0.12 +0.9 30,113 + HMPREF1058_RS08165 0.13 -1.2 30,119 - HMPREF1058_RS08165 0.13 +0.8 30,119 - HMPREF1058_RS08165 0.13 -0.4 30,146 + HMPREF1058_RS08165 0.14 -1.7 30,151 + HMPREF1058_RS08165 0.15 -0.9 30,171 - HMPREF1058_RS08165 0.16 -1.1 30,175 - HMPREF1058_RS08165 0.16 +0.4 30,237 + HMPREF1058_RS08165 0.19 -0.1 30,238 - -1.7 30,238 - HMPREF1058_RS08165 0.19 -3.5 30,246 - HMPREF1058_RS08165 0.20 -0.1 30,354 - HMPREF1058_RS08165 0.25 +0.5 30,375 + HMPREF1058_RS08165 0.26 -1.4 30,376 - HMPREF1058_RS08165 0.26 +0.4 30,512 + HMPREF1058_RS08165 0.33 -1.0 30,512 + HMPREF1058_RS08165 0.33 +1.9 30,512 + HMPREF1058_RS08165 0.33 +0.9 30,513 - HMPREF1058_RS08165 0.33 +1.1 30,513 - HMPREF1058_RS08165 0.33 +0.7 30,543 + HMPREF1058_RS08165 0.35 -0.3 30,544 - HMPREF1058_RS08165 0.35 -1.7 30,554 + HMPREF1058_RS08165 0.35 +1.5 30,627 - HMPREF1058_RS08165 0.39 +0.3 30,679 - HMPREF1058_RS08165 0.42 +1.5 30,704 + HMPREF1058_RS08165 0.43 -0.0 30,706 + HMPREF1058_RS08165 0.43 +1.1 30,706 + HMPREF1058_RS08165 0.43 +0.5 30,707 - HMPREF1058_RS08165 0.43 +0.1 30,707 - HMPREF1058_RS08165 0.43 -1.1 30,708 + HMPREF1058_RS08165 0.43 +0.7 30,719 - HMPREF1058_RS08165 0.44 -0.4 30,730 - HMPREF1058_RS08165 0.45 -0.4 30,774 - HMPREF1058_RS08165 0.47 -0.1 30,777 - HMPREF1058_RS08165 0.47 +0.5 30,798 - HMPREF1058_RS08165 0.48 -0.1 30,815 + HMPREF1058_RS08165 0.49 -2.1 30,821 + HMPREF1058_RS08165 0.49 -0.7 30,822 - HMPREF1058_RS08165 0.49 +0.1
Or see this region's nucleotide sequence