Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse5; day3
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_RS04890 and HMPREF1058_RS04885 are separated by 92 nucleotides HMPREF1058_RS04885 and HMPREF1058_RS04880 are separated by 88 nucleotides HMPREF1058_RS04880 and HMPREF1058_RS04875 are separated by 65 nucleotides HMPREF1058_RS04875 and HMPREF1058_RS04870 are separated by 104 nucleotides
HMPREF1058_RS04890: HMPREF1058_RS04890 - hypothetical protein, at 296,568 to 297,089
_RS04890
HMPREF1058_RS04885: HMPREF1058_RS04885 - hypothetical protein, at 297,182 to 297,715
_RS04885
HMPREF1058_RS04880: HMPREF1058_RS04880 - SMI1/KNR4 family protein, at 297,804 to 298,472
_RS04880
HMPREF1058_RS04875: HMPREF1058_RS04875 - hypothetical protein, at 298,538 to 299,233
_RS04875
HMPREF1058_RS04870: HMPREF1058_RS04870 - RhsIA family immunity protein, at 299,338 to 300,315
_RS04870
Position (kb) 297
298
299 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3
4 at 296.806 kb on - strand, within HMPREF1058_RS04890 at 296.806 kb on - strand, within HMPREF1058_RS04890 at 296.900 kb on - strand, within HMPREF1058_RS04890 at 296.919 kb on - strand, within HMPREF1058_RS04890 at 296.933 kb on - strand, within HMPREF1058_RS04890 at 297.064 kb on + strand at 297.082 kb on - strand at 297.093 kb on - strand at 297.155 kb on - strand at 297.172 kb on - strand at 297.194 kb on + strand at 297.194 kb on + strand at 297.197 kb on + strand at 297.209 kb on - strand at 297.218 kb on + strand at 297.225 kb on + strand at 297.256 kb on + strand, within HMPREF1058_RS04885 at 297.257 kb on - strand, within HMPREF1058_RS04885 at 297.268 kb on + strand, within HMPREF1058_RS04885 at 297.268 kb on + strand, within HMPREF1058_RS04885 at 297.268 kb on + strand, within HMPREF1058_RS04885 at 297.269 kb on - strand, within HMPREF1058_RS04885 at 297.269 kb on - strand, within HMPREF1058_RS04885 at 297.275 kb on - strand, within HMPREF1058_RS04885 at 297.336 kb on - strand, within HMPREF1058_RS04885 at 297.392 kb on - strand, within HMPREF1058_RS04885 at 297.412 kb on + strand, within HMPREF1058_RS04885 at 297.435 kb on + strand, within HMPREF1058_RS04885 at 297.504 kb on + strand, within HMPREF1058_RS04885 at 297.519 kb on + strand, within HMPREF1058_RS04885 at 297.539 kb on - strand, within HMPREF1058_RS04885 at 297.539 kb on - strand, within HMPREF1058_RS04885 at 297.541 kb on + strand, within HMPREF1058_RS04885 at 297.545 kb on + strand, within HMPREF1058_RS04885 at 297.546 kb on - strand, within HMPREF1058_RS04885 at 297.565 kb on + strand, within HMPREF1058_RS04885 at 297.572 kb on - strand, within HMPREF1058_RS04885 at 297.584 kb on + strand, within HMPREF1058_RS04885 at 297.584 kb on + strand, within HMPREF1058_RS04885 at 297.585 kb on - strand, within HMPREF1058_RS04885 at 297.585 kb on - strand, within HMPREF1058_RS04885 at 297.585 kb on - strand, within HMPREF1058_RS04885 at 297.594 kb on - strand, within HMPREF1058_RS04885 at 297.634 kb on + strand, within HMPREF1058_RS04885 at 297.653 kb on + strand, within HMPREF1058_RS04885 at 297.653 kb on + strand, within HMPREF1058_RS04885 at 297.667 kb on - strand at 297.776 kb on + strand at 297.798 kb on + strand at 297.799 kb on - strand at 297.804 kb on - strand at 297.829 kb on + strand at 297.829 kb on + strand at 297.829 kb on + strand at 297.830 kb on - strand at 297.868 kb on - strand at 297.873 kb on - strand, within HMPREF1058_RS04880 at 297.876 kb on + strand, within HMPREF1058_RS04880 at 297.876 kb on + strand, within HMPREF1058_RS04880 at 297.877 kb on - strand, within HMPREF1058_RS04880 at 297.877 kb on - strand, within HMPREF1058_RS04880 at 297.877 kb on - strand, within HMPREF1058_RS04880 at 297.877 kb on - strand, within HMPREF1058_RS04880 at 297.901 kb on + strand, within HMPREF1058_RS04880 at 297.964 kb on - strand, within HMPREF1058_RS04880 at 297.968 kb on + strand, within HMPREF1058_RS04880 at 297.984 kb on - strand, within HMPREF1058_RS04880 at 297.990 kb on + strand, within HMPREF1058_RS04880 at 297.991 kb on - strand, within HMPREF1058_RS04880 at 298.005 kb on - strand, within HMPREF1058_RS04880 at 298.025 kb on - strand, within HMPREF1058_RS04880 at 298.061 kb on + strand, within HMPREF1058_RS04880 at 298.107 kb on + strand, within HMPREF1058_RS04880 at 298.126 kb on - strand, within HMPREF1058_RS04880 at 298.156 kb on + strand, within HMPREF1058_RS04880 at 298.169 kb on - strand, within HMPREF1058_RS04880 at 298.196 kb on + strand, within HMPREF1058_RS04880 at 298.289 kb on - strand, within HMPREF1058_RS04880 at 298.334 kb on - strand, within HMPREF1058_RS04880 at 298.366 kb on + strand, within HMPREF1058_RS04880 at 298.376 kb on + strand, within HMPREF1058_RS04880 at 298.556 kb on + strand at 298.579 kb on + strand at 298.579 kb on + strand at 298.580 kb on - strand at 298.642 kb on + strand, within HMPREF1058_RS04875 at 298.643 kb on - strand, within HMPREF1058_RS04875 at 298.731 kb on + strand, within HMPREF1058_RS04875 at 298.732 kb on - strand, within HMPREF1058_RS04875 at 298.851 kb on - strand, within HMPREF1058_RS04875 at 298.911 kb on - strand, within HMPREF1058_RS04875 at 298.913 kb on + strand, within HMPREF1058_RS04875 at 298.914 kb on - strand, within HMPREF1058_RS04875 at 298.927 kb on - strand, within HMPREF1058_RS04875 at 298.998 kb on + strand, within HMPREF1058_RS04875 at 299.011 kb on + strand, within HMPREF1058_RS04875 at 299.016 kb on + strand, within HMPREF1058_RS04875 at 299.074 kb on + strand, within HMPREF1058_RS04875 at 299.079 kb on + strand, within HMPREF1058_RS04875 at 299.079 kb on + strand, within HMPREF1058_RS04875 at 299.080 kb on - strand, within HMPREF1058_RS04875 at 299.080 kb on - strand, within HMPREF1058_RS04875 at 299.080 kb on - strand, within HMPREF1058_RS04875 at 299.080 kb on - strand, within HMPREF1058_RS04875 at 299.100 kb on + strand, within HMPREF1058_RS04875 at 299.184 kb on + strand at 299.219 kb on - strand at 299.322 kb on + strand at 299.352 kb on + strand at 299.377 kb on - strand at 299.418 kb on + strand
Per-strain Table
Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse5; day3 remove 296,806 - HMPREF1058_RS04890 0.46 -3.1 296,806 - HMPREF1058_RS04890 0.46 +1.2 296,900 - HMPREF1058_RS04890 0.64 -1.5 296,919 - HMPREF1058_RS04890 0.67 +4.0 296,933 - HMPREF1058_RS04890 0.70 -2.2 297,064 + -1.1 297,082 - +0.3 297,093 - +1.8 297,155 - -0.1 297,172 - +0.4 297,194 + -1.9 297,194 + +0.8 297,197 + +0.6 297,209 - -3.4 297,218 + +0.7 297,225 + +1.9 297,256 + HMPREF1058_RS04885 0.14 -1.6 297,257 - HMPREF1058_RS04885 0.14 -2.5 297,268 + HMPREF1058_RS04885 0.16 -2.2 297,268 + HMPREF1058_RS04885 0.16 +0.1 297,268 + HMPREF1058_RS04885 0.16 -0.9 297,269 - HMPREF1058_RS04885 0.16 +3.5 297,269 - HMPREF1058_RS04885 0.16 +0.1 297,275 - HMPREF1058_RS04885 0.17 +1.1 297,336 - HMPREF1058_RS04885 0.29 +0.8 297,392 - HMPREF1058_RS04885 0.39 -2.7 297,412 + HMPREF1058_RS04885 0.43 -1.9 297,435 + HMPREF1058_RS04885 0.47 -0.9 297,504 + HMPREF1058_RS04885 0.60 -1.5 297,519 + HMPREF1058_RS04885 0.63 -0.9 297,539 - HMPREF1058_RS04885 0.67 +1.8 297,539 - HMPREF1058_RS04885 0.67 -1.7 297,541 + HMPREF1058_RS04885 0.67 -2.7 297,545 + HMPREF1058_RS04885 0.68 -2.2 297,546 - HMPREF1058_RS04885 0.68 -1.5 297,565 + HMPREF1058_RS04885 0.72 -0.4 297,572 - HMPREF1058_RS04885 0.73 -0.5 297,584 + HMPREF1058_RS04885 0.75 +0.1 297,584 + HMPREF1058_RS04885 0.75 -0.9 297,585 - HMPREF1058_RS04885 0.75 +0.7 297,585 - HMPREF1058_RS04885 0.75 -0.0 297,585 - HMPREF1058_RS04885 0.75 -0.8 297,594 - HMPREF1058_RS04885 0.77 +0.1 297,634 + HMPREF1058_RS04885 0.85 +0.1 297,653 + HMPREF1058_RS04885 0.88 -0.9 297,653 + HMPREF1058_RS04885 0.88 -0.8 297,667 - -3.1 297,776 + -2.5 297,798 + -1.1 297,799 - -0.2 297,804 - +0.9 297,829 + +0.1 297,829 + -1.3 297,829 + +0.3 297,830 - -0.2 297,868 - -0.2 297,873 - HMPREF1058_RS04880 0.10 -2.9 297,876 + HMPREF1058_RS04880 0.11 -0.3 297,876 + HMPREF1058_RS04880 0.11 -0.9 297,877 - HMPREF1058_RS04880 0.11 +2.4 297,877 - HMPREF1058_RS04880 0.11 +1.1 297,877 - HMPREF1058_RS04880 0.11 +0.3 297,877 - HMPREF1058_RS04880 0.11 +0.1 297,901 + HMPREF1058_RS04880 0.14 -0.5 297,964 - HMPREF1058_RS04880 0.24 +0.1 297,968 + HMPREF1058_RS04880 0.25 -3.2 297,984 - HMPREF1058_RS04880 0.27 +1.8 297,990 + HMPREF1058_RS04880 0.28 -0.1 297,991 - HMPREF1058_RS04880 0.28 -2.9 298,005 - HMPREF1058_RS04880 0.30 -1.5 298,025 - HMPREF1058_RS04880 0.33 +2.8 298,061 + HMPREF1058_RS04880 0.38 -1.5 298,107 + HMPREF1058_RS04880 0.45 +0.1 298,126 - HMPREF1058_RS04880 0.48 +0.3 298,156 + HMPREF1058_RS04880 0.53 +1.7 298,169 - HMPREF1058_RS04880 0.55 -0.3 298,196 + HMPREF1058_RS04880 0.59 +1.5 298,289 - HMPREF1058_RS04880 0.72 +4.6 298,334 - HMPREF1058_RS04880 0.79 -0.5 298,366 + HMPREF1058_RS04880 0.84 -3.8 298,376 + HMPREF1058_RS04880 0.86 -0.6 298,556 + +1.8 298,579 + -0.7 298,579 + +0.3 298,580 - +0.4 298,642 + HMPREF1058_RS04875 0.15 -1.5 298,643 - HMPREF1058_RS04875 0.15 +1.8 298,731 + HMPREF1058_RS04875 0.28 -1.1 298,732 - HMPREF1058_RS04875 0.28 -2.2 298,851 - HMPREF1058_RS04875 0.45 -1.5 298,911 - HMPREF1058_RS04875 0.54 +0.1 298,913 + HMPREF1058_RS04875 0.54 -1.5 298,914 - HMPREF1058_RS04875 0.54 +0.1 298,927 - HMPREF1058_RS04875 0.56 +0.3 298,998 + HMPREF1058_RS04875 0.66 -0.5 299,011 + HMPREF1058_RS04875 0.68 -0.9 299,016 + HMPREF1058_RS04875 0.69 -1.5 299,074 + HMPREF1058_RS04875 0.77 +0.8 299,079 + HMPREF1058_RS04875 0.78 -1.5 299,079 + HMPREF1058_RS04875 0.78 -0.4 299,080 - HMPREF1058_RS04875 0.78 -0.1 299,080 - HMPREF1058_RS04875 0.78 -1.5 299,080 - HMPREF1058_RS04875 0.78 -0.5 299,080 - HMPREF1058_RS04875 0.78 -2.7 299,100 + HMPREF1058_RS04875 0.81 -0.9 299,184 + +0.1 299,219 - -0.9 299,322 + +1.2 299,352 + +0.9 299,377 - -0.9 299,418 + -1.5
Or see this region's nucleotide sequence