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_RS04695 and HMPREF1078_RS04700 are separated by 140 nucleotides HMPREF1078_RS04700 and HMPREF1078_RS04705 are separated by 216 nucleotides HMPREF1078_RS04705 and HMPREF1078_RS04710 overlap by 4 nucleotides
HMPREF1078_RS04695: HMPREF1078_RS04695 - pyruvate kinase, at 182,832 to 184,283
_RS04695
HMPREF1078_RS04700: HMPREF1078_RS04700 - type II 3-dehydroquinate dehydratase, at 184,424 to 184,858
_RS04700
HMPREF1078_RS04705: HMPREF1078_RS04705 - site-specific tyrosine recombinase XerD, at 185,075 to 185,980
_RS04705
HMPREF1078_RS04710: HMPREF1078_RS04710 - DUF4954 family protein, at 185,977 to 187,971
_RS04710
Position (kb) 185
186 Strain fitness (log2 ratio) -5
-4
-3
-2
-1
0
1
2 at 184.091 kb on + strand, within HMPREF1078_RS04695 at 184.091 kb on + strand, within HMPREF1078_RS04695 at 184.095 kb on - strand, within HMPREF1078_RS04695 at 184.095 kb on - strand, within HMPREF1078_RS04695 at 184.127 kb on + strand, within HMPREF1078_RS04695 at 184.137 kb on - strand, within HMPREF1078_RS04695 at 184.179 kb on - strand at 184.210 kb on + strand at 184.211 kb on - strand at 184.212 kb on + strand at 184.257 kb on - strand at 184.257 kb on - strand at 184.271 kb on + strand at 184.272 kb on - strand at 184.279 kb on - strand at 184.283 kb on + strand at 184.284 kb on - strand at 184.284 kb on - strand at 184.284 kb on - strand at 184.284 kb on - strand at 184.284 kb on - strand at 184.286 kb on - strand at 184.380 kb on + strand at 184.381 kb on - strand at 184.381 kb on - strand at 184.393 kb on - strand at 184.409 kb on - strand at 184.419 kb on - strand at 184.419 kb on - strand at 184.471 kb on - strand, within HMPREF1078_RS04700 at 184.554 kb on - strand, within HMPREF1078_RS04700 at 184.564 kb on + strand, within HMPREF1078_RS04700 at 184.564 kb on + strand, within HMPREF1078_RS04700 at 184.564 kb on + strand, within HMPREF1078_RS04700 at 184.564 kb on + strand, within HMPREF1078_RS04700 at 184.565 kb on - strand, within HMPREF1078_RS04700 at 184.565 kb on - strand, within HMPREF1078_RS04700 at 184.569 kb on - strand, within HMPREF1078_RS04700 at 184.599 kb on - strand, within HMPREF1078_RS04700 at 184.624 kb on + strand, within HMPREF1078_RS04700 at 184.624 kb on + strand, within HMPREF1078_RS04700 at 184.624 kb on + strand, within HMPREF1078_RS04700 at 184.624 kb on + strand, within HMPREF1078_RS04700 at 184.624 kb on + strand, within HMPREF1078_RS04700 at 184.624 kb on + strand, within HMPREF1078_RS04700 at 184.624 kb on + strand, within HMPREF1078_RS04700 at 184.625 kb on - strand, within HMPREF1078_RS04700 at 184.625 kb on - strand, within HMPREF1078_RS04700 at 184.625 kb on - strand, within HMPREF1078_RS04700 at 184.630 kb on + strand, within HMPREF1078_RS04700 at 184.630 kb on + strand, within HMPREF1078_RS04700 at 184.630 kb on + strand, within HMPREF1078_RS04700 at 184.630 kb on + strand, within HMPREF1078_RS04700 at 184.631 kb on - strand, within HMPREF1078_RS04700 at 184.631 kb on - strand, within HMPREF1078_RS04700 at 184.631 kb on - strand, within HMPREF1078_RS04700 at 184.631 kb on - strand, within HMPREF1078_RS04700 at 184.743 kb on + strand, within HMPREF1078_RS04700 at 184.744 kb on - strand, within HMPREF1078_RS04700 at 184.744 kb on - strand, within HMPREF1078_RS04700 at 184.767 kb on + strand, within HMPREF1078_RS04700 at 184.767 kb on + strand, within HMPREF1078_RS04700 at 184.768 kb on - strand, within HMPREF1078_RS04700 at 184.867 kb on - strand at 184.871 kb on + strand at 184.872 kb on - strand at 184.874 kb on + strand at 184.874 kb on + strand at 184.919 kb on - strand at 184.944 kb on - strand at 184.950 kb on + strand at 184.972 kb on - strand at 184.990 kb on + strand at 184.991 kb on - strand at 185.051 kb on - strand at 185.057 kb on + strand at 185.097 kb on + strand at 185.106 kb on - strand at 185.106 kb on - strand at 185.114 kb on + strand at 185.149 kb on + strand at 185.228 kb on + strand, within HMPREF1078_RS04705 at 185.228 kb on + strand, within HMPREF1078_RS04705 at 185.229 kb on - strand, within HMPREF1078_RS04705 at 185.229 kb on - strand, within HMPREF1078_RS04705 at 185.345 kb on + strand, within HMPREF1078_RS04705 at 185.345 kb on + strand, within HMPREF1078_RS04705 at 185.347 kb on + strand, within HMPREF1078_RS04705 at 185.348 kb on - strand, within HMPREF1078_RS04705 at 185.348 kb on - strand, within HMPREF1078_RS04705 at 185.348 kb on - strand, within HMPREF1078_RS04705 at 185.348 kb on - strand, within HMPREF1078_RS04705 at 185.349 kb on + strand, within HMPREF1078_RS04705 at 185.350 kb on - strand, within HMPREF1078_RS04705 at 185.373 kb on + strand, within HMPREF1078_RS04705 at 185.429 kb on - strand, within HMPREF1078_RS04705 at 185.501 kb on + strand, within HMPREF1078_RS04705 at 185.501 kb on + strand, within HMPREF1078_RS04705 at 185.556 kb on - strand, within HMPREF1078_RS04705 at 185.654 kb on + strand, within HMPREF1078_RS04705 at 185.749 kb on + strand, within HMPREF1078_RS04705 at 185.749 kb on + strand, within HMPREF1078_RS04705 at 185.804 kb on - strand, within HMPREF1078_RS04705 at 185.861 kb on - strand, within HMPREF1078_RS04705 at 185.906 kb on + strand at 185.944 kb on - strand at 185.944 kb on - strand at 185.962 kb on + strand at 185.979 kb on - strand at 186.036 kb on + strand at 186.036 kb on + strand at 186.036 kb on + strand at 186.036 kb on + strand at 186.036 kb on + strand at 186.151 kb on - strand at 186.177 kb on + strand, within HMPREF1078_RS04710 at 186.178 kb on - strand, within HMPREF1078_RS04710 at 186.179 kb on + strand, within HMPREF1078_RS04710 at 186.180 kb on - strand, within HMPREF1078_RS04710 at 186.272 kb on + strand, within HMPREF1078_RS04710 at 186.273 kb on - strand, within HMPREF1078_RS04710 at 186.273 kb on - strand, within HMPREF1078_RS04710 at 186.276 kb on - strand, within HMPREF1078_RS04710 at 186.276 kb on - strand, within HMPREF1078_RS04710 at 186.289 kb on - strand, within HMPREF1078_RS04710 at 186.294 kb on - strand, within HMPREF1078_RS04710 at 186.294 kb on - strand, within HMPREF1078_RS04710 at 186.317 kb on + strand, within HMPREF1078_RS04710 at 186.572 kb on + strand, within HMPREF1078_RS04710 at 186.626 kb on + strand, within HMPREF1078_RS04710 at 186.627 kb on - strand, within HMPREF1078_RS04710 at 186.698 kb on + strand, within HMPREF1078_RS04710 at 186.706 kb on - strand, within HMPREF1078_RS04710 at 186.707 kb on + strand, within HMPREF1078_RS04710 at 186.798 kb on + strand, within HMPREF1078_RS04710 at 186.817 kb on + strand, within HMPREF1078_RS04710 at 186.833 kb on + strand, within HMPREF1078_RS04710 at 186.833 kb on + strand, within HMPREF1078_RS04710 at 186.834 kb on - strand, within HMPREF1078_RS04710 at 186.834 kb on - strand, within HMPREF1078_RS04710 at 186.834 kb on - strand, within HMPREF1078_RS04710 at 186.862 kb on - strand, within HMPREF1078_RS04710 at 186.888 kb on + strand, within HMPREF1078_RS04710 at 186.950 kb on + strand, within HMPREF1078_RS04710 at 186.950 kb on + strand, within HMPREF1078_RS04710 at 186.951 kb on - strand, within HMPREF1078_RS04710
Per-strain Table
Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; day4 remove 184,091 + HMPREF1078_RS04695 0.87 +0.5 184,091 + HMPREF1078_RS04695 0.87 -0.5 184,095 - HMPREF1078_RS04695 0.87 -2.0 184,095 - HMPREF1078_RS04695 0.87 +0.3 184,127 + HMPREF1078_RS04695 0.89 -1.9 184,137 - HMPREF1078_RS04695 0.90 -1.2 184,179 - +0.3 184,210 + -0.3 184,211 - -1.5 184,212 + -0.3 184,257 - -3.7 184,257 - -1.9 184,271 + -0.4 184,272 - +0.3 184,279 - -2.8 184,283 + -3.8 184,284 - -0.3 184,284 - -1.5 184,284 - -2.1 184,284 - +0.1 184,284 - -0.5 184,286 - +0.5 184,380 + +0.4 184,381 - +0.3 184,381 - +1.7 184,393 - -2.9 184,409 - -1.1 184,419 - +0.7 184,419 - +0.7 184,471 - HMPREF1078_RS04700 0.11 -1.5 184,554 - HMPREF1078_RS04700 0.30 +1.1 184,564 + HMPREF1078_RS04700 0.32 +1.1 184,564 + HMPREF1078_RS04700 0.32 -2.2 184,564 + HMPREF1078_RS04700 0.32 -1.9 184,564 + HMPREF1078_RS04700 0.32 -1.9 184,565 - HMPREF1078_RS04700 0.32 -3.6 184,565 - HMPREF1078_RS04700 0.32 -2.2 184,569 - HMPREF1078_RS04700 0.33 -1.2 184,599 - HMPREF1078_RS04700 0.40 -0.8 184,624 + HMPREF1078_RS04700 0.46 -0.5 184,624 + HMPREF1078_RS04700 0.46 -0.9 184,624 + HMPREF1078_RS04700 0.46 -1.2 184,624 + HMPREF1078_RS04700 0.46 -0.5 184,624 + HMPREF1078_RS04700 0.46 -1.6 184,624 + HMPREF1078_RS04700 0.46 -0.5 184,624 + HMPREF1078_RS04700 0.46 -1.4 184,625 - HMPREF1078_RS04700 0.46 -1.4 184,625 - HMPREF1078_RS04700 0.46 -0.7 184,625 - HMPREF1078_RS04700 0.46 +0.1 184,630 + HMPREF1078_RS04700 0.47 +1.1 184,630 + HMPREF1078_RS04700 0.47 -3.0 184,630 + HMPREF1078_RS04700 0.47 -2.1 184,630 + HMPREF1078_RS04700 0.47 -1.5 184,631 - HMPREF1078_RS04700 0.48 -0.8 184,631 - HMPREF1078_RS04700 0.48 -1.5 184,631 - HMPREF1078_RS04700 0.48 -3.3 184,631 - HMPREF1078_RS04700 0.48 -2.1 184,743 + HMPREF1078_RS04700 0.73 -0.5 184,744 - HMPREF1078_RS04700 0.74 -1.5 184,744 - HMPREF1078_RS04700 0.74 -1.3 184,767 + HMPREF1078_RS04700 0.79 -2.5 184,767 + HMPREF1078_RS04700 0.79 -1.9 184,768 - HMPREF1078_RS04700 0.79 -1.9 184,867 - +1.9 184,871 + +1.7 184,872 - -1.5 184,874 + +0.1 184,874 + -3.7 184,919 - +0.1 184,944 - -3.6 184,950 + -1.0 184,972 - -0.9 184,990 + +0.1 184,991 - -1.7 185,051 - +0.1 185,057 + +0.3 185,097 + -1.7 185,106 - -1.2 185,106 - -2.8 185,114 + +0.1 185,149 + -0.5 185,228 + HMPREF1078_RS04705 0.17 -1.7 185,228 + HMPREF1078_RS04705 0.17 -2.5 185,229 - HMPREF1078_RS04705 0.17 -1.7 185,229 - HMPREF1078_RS04705 0.17 -3.2 185,345 + HMPREF1078_RS04705 0.30 -1.5 185,345 + HMPREF1078_RS04705 0.30 -0.1 185,347 + HMPREF1078_RS04705 0.30 -1.5 185,348 - HMPREF1078_RS04705 0.30 +1.1 185,348 - HMPREF1078_RS04705 0.30 -1.7 185,348 - HMPREF1078_RS04705 0.30 -1.7 185,348 - HMPREF1078_RS04705 0.30 +1.1 185,349 + HMPREF1078_RS04705 0.30 -1.7 185,350 - HMPREF1078_RS04705 0.30 -1.7 185,373 + HMPREF1078_RS04705 0.33 -1.2 185,429 - HMPREF1078_RS04705 0.39 +1.1 185,501 + HMPREF1078_RS04705 0.47 +1.1 185,501 + HMPREF1078_RS04705 0.47 -1.1 185,556 - HMPREF1078_RS04705 0.53 -2.9 185,654 + HMPREF1078_RS04705 0.64 +0.1 185,749 + HMPREF1078_RS04705 0.74 -1.7 185,749 + HMPREF1078_RS04705 0.74 -1.9 185,804 - HMPREF1078_RS04705 0.80 +0.1 185,861 - HMPREF1078_RS04705 0.87 +1.1 185,906 + -0.9 185,944 - -0.5 185,944 - -2.3 185,962 + +0.3 185,979 - +0.2 186,036 + -3.0 186,036 + -3.7 186,036 + -1.3 186,036 + -4.2 186,036 + -0.9 186,151 - -1.8 186,177 + HMPREF1078_RS04710 0.10 -1.9 186,178 - HMPREF1078_RS04710 0.10 -2.0 186,179 + HMPREF1078_RS04710 0.10 +0.1 186,180 - HMPREF1078_RS04710 0.10 -2.5 186,272 + HMPREF1078_RS04710 0.15 -2.5 186,273 - HMPREF1078_RS04710 0.15 -1.2 186,273 - HMPREF1078_RS04710 0.15 -3.3 186,276 - HMPREF1078_RS04710 0.15 +0.1 186,276 - HMPREF1078_RS04710 0.15 -3.9 186,289 - HMPREF1078_RS04710 0.16 -0.8 186,294 - HMPREF1078_RS04710 0.16 -1.9 186,294 - HMPREF1078_RS04710 0.16 -0.5 186,317 + HMPREF1078_RS04710 0.17 -1.9 186,572 + HMPREF1078_RS04710 0.30 -2.3 186,626 + HMPREF1078_RS04710 0.33 -4.1 186,627 - HMPREF1078_RS04710 0.33 -1.8 186,698 + HMPREF1078_RS04710 0.36 -4.3 186,706 - HMPREF1078_RS04710 0.37 -2.9 186,707 + HMPREF1078_RS04710 0.37 -2.7 186,798 + HMPREF1078_RS04710 0.41 +0.1 186,817 + HMPREF1078_RS04710 0.42 -5.2 186,833 + HMPREF1078_RS04710 0.43 -3.5 186,833 + HMPREF1078_RS04710 0.43 -2.3 186,834 - HMPREF1078_RS04710 0.43 -1.2 186,834 - HMPREF1078_RS04710 0.43 -4.1 186,834 - HMPREF1078_RS04710 0.43 -2.3 186,862 - HMPREF1078_RS04710 0.44 -1.7 186,888 + HMPREF1078_RS04710 0.46 -2.5 186,950 + HMPREF1078_RS04710 0.49 -2.7 186,950 + HMPREF1078_RS04710 0.49 -3.7 186,951 - HMPREF1078_RS04710 0.49 -2.5
Or see this region's nucleotide sequence