Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse3; day1
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_RS21715 and HMPREF1058_RS01820 are separated by 296 nucleotides HMPREF1058_RS01820 and HMPREF1058_RS01815 are separated by 12 nucleotides HMPREF1058_RS01815 and HMPREF1058_RS01810 are separated by 162 nucleotides HMPREF1058_RS01810 and HMPREF1058_RS01805 are separated by 62 nucleotides HMPREF1058_RS01805 and HMPREF1058_RS01800 overlap by 4 nucleotides
HMPREF1058_RS21715: HMPREF1058_RS21715 - hypothetical protein, at 35,635 to 36,171
_RS21715
HMPREF1058_RS01820: HMPREF1058_RS01820 - hypothetical protein, at 36,468 to 36,710
_RS01820
HMPREF1058_RS01815: HMPREF1058_RS01815 - phage integrase SAM-like domain-containing protein, at 36,723 to 37,964
_RS01815
HMPREF1058_RS01810: HMPREF1058_RS01810 - tRNA-Ala, at 38,127 to 38,200
_RS01810
HMPREF1058_RS01805: HMPREF1058_RS01805 - DUF4286 family protein, at 38,263 to 38,568
_RS01805
HMPREF1058_RS01800: HMPREF1058_RS01800 - crossover junction endodeoxyribonuclease RuvC, at 38,565 to 39,134
_RS01800
Position (kb) 36
37
38 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3
4 at 35.760 kb on - strand, within HMPREF1058_RS21715 at 35.799 kb on - strand, within HMPREF1058_RS21715 at 35.848 kb on + strand, within HMPREF1058_RS21715 at 35.848 kb on + strand, within HMPREF1058_RS21715 at 35.849 kb on - strand at 35.849 kb on - strand, within HMPREF1058_RS21715 at 35.852 kb on + strand, within HMPREF1058_RS21715 at 35.852 kb on + strand, within HMPREF1058_RS21715 at 35.869 kb on + strand, within HMPREF1058_RS21715 at 35.870 kb on - strand, within HMPREF1058_RS21715 at 35.940 kb on + strand, within HMPREF1058_RS21715 at 36.128 kb on + strand at 36.128 kb on + strand at 36.129 kb on - strand at 36.169 kb on + strand at 36.183 kb on + strand at 36.341 kb on + strand at 36.371 kb on - strand at 36.391 kb on - strand at 36.446 kb on + strand at 36.464 kb on + strand at 36.465 kb on - strand at 36.487 kb on - strand at 36.517 kb on + strand, within HMPREF1058_RS01820 at 36.642 kb on + strand, within HMPREF1058_RS01820 at 36.643 kb on - strand, within HMPREF1058_RS01820 at 36.768 kb on - strand at 36.783 kb on - strand at 36.804 kb on + strand at 36.808 kb on + strand at 36.810 kb on + strand at 36.864 kb on - strand, within HMPREF1058_RS01815 at 36.973 kb on - strand, within HMPREF1058_RS01815 at 37.017 kb on - strand, within HMPREF1058_RS01815 at 37.018 kb on + strand, within HMPREF1058_RS01815 at 37.054 kb on + strand, within HMPREF1058_RS01815 at 37.064 kb on - strand, within HMPREF1058_RS01815 at 37.064 kb on - strand, within HMPREF1058_RS01815 at 37.066 kb on - strand, within HMPREF1058_RS01815 at 37.099 kb on - strand, within HMPREF1058_RS01815 at 37.144 kb on + strand, within HMPREF1058_RS01815 at 37.144 kb on + strand, within HMPREF1058_RS01815 at 37.177 kb on - strand, within HMPREF1058_RS01815 at 37.177 kb on - strand, within HMPREF1058_RS01815 at 37.233 kb on + strand, within HMPREF1058_RS01815 at 37.234 kb on - strand, within HMPREF1058_RS01815 at 37.235 kb on + strand, within HMPREF1058_RS01815 at 37.235 kb on + strand, within HMPREF1058_RS01815 at 37.235 kb on + strand, within HMPREF1058_RS01815 at 37.235 kb on + strand, within HMPREF1058_RS01815 at 37.242 kb on - strand, within HMPREF1058_RS01815 at 37.242 kb on - strand, within HMPREF1058_RS01815 at 37.242 kb on - strand, within HMPREF1058_RS01815 at 37.296 kb on - strand, within HMPREF1058_RS01815 at 37.296 kb on - strand, within HMPREF1058_RS01815 at 37.297 kb on + strand, within HMPREF1058_RS01815 at 37.309 kb on + strand, within HMPREF1058_RS01815 at 37.309 kb on + strand, within HMPREF1058_RS01815 at 37.309 kb on + strand at 37.310 kb on - strand, within HMPREF1058_RS01815 at 37.311 kb on + strand, within HMPREF1058_RS01815 at 37.325 kb on + strand, within HMPREF1058_RS01815 at 37.326 kb on - strand, within HMPREF1058_RS01815 at 37.326 kb on - strand, within HMPREF1058_RS01815 at 37.326 kb on - strand, within HMPREF1058_RS01815 at 37.353 kb on - strand, within HMPREF1058_RS01815 at 37.356 kb on + strand, within HMPREF1058_RS01815 at 37.357 kb on - strand, within HMPREF1058_RS01815 at 37.359 kb on + strand, within HMPREF1058_RS01815 at 37.359 kb on + strand, within HMPREF1058_RS01815 at 37.360 kb on - strand, within HMPREF1058_RS01815 at 37.362 kb on - strand, within HMPREF1058_RS01815 at 37.362 kb on - strand, within HMPREF1058_RS01815 at 37.365 kb on - strand, within HMPREF1058_RS01815 at 37.365 kb on - strand, within HMPREF1058_RS01815 at 37.370 kb on + strand, within HMPREF1058_RS01815 at 37.371 kb on - strand, within HMPREF1058_RS01815 at 37.399 kb on - strand, within HMPREF1058_RS01815 at 37.399 kb on - strand, within HMPREF1058_RS01815 at 37.405 kb on - strand, within HMPREF1058_RS01815 at 37.428 kb on - strand, within HMPREF1058_RS01815 at 37.430 kb on - strand, within HMPREF1058_RS01815 at 37.474 kb on + strand, within HMPREF1058_RS01815 at 37.525 kb on - strand, within HMPREF1058_RS01815 at 37.588 kb on - strand, within HMPREF1058_RS01815 at 37.636 kb on - strand, within HMPREF1058_RS01815 at 37.697 kb on + strand, within HMPREF1058_RS01815 at 37.697 kb on + strand, within HMPREF1058_RS01815 at 37.697 kb on + strand, within HMPREF1058_RS01815 at 37.697 kb on + strand, within HMPREF1058_RS01815 at 37.698 kb on - strand, within HMPREF1058_RS01815 at 37.698 kb on - strand, within HMPREF1058_RS01815 at 37.718 kb on + strand, within HMPREF1058_RS01815 at 37.767 kb on + strand, within HMPREF1058_RS01815 at 37.774 kb on - strand, within HMPREF1058_RS01815 at 37.785 kb on + strand, within HMPREF1058_RS01815 at 37.786 kb on - strand, within HMPREF1058_RS01815 at 37.830 kb on + strand, within HMPREF1058_RS01815 at 37.831 kb on - strand, within HMPREF1058_RS01815 at 37.831 kb on - strand, within HMPREF1058_RS01815 at 37.849 kb on + strand at 37.849 kb on + strand at 37.849 kb on + strand at 37.849 kb on + strand at 37.871 kb on + strand at 37.920 kb on + strand at 37.948 kb on + strand at 37.972 kb on + strand at 37.977 kb on - strand at 37.988 kb on - strand at 38.213 kb on + strand at 38.249 kb on + strand at 38.259 kb on - strand at 38.262 kb on + strand at 38.262 kb on + strand at 38.338 kb on + strand, within HMPREF1058_RS01805 at 38.339 kb on - strand, within HMPREF1058_RS01805 at 38.398 kb on - strand, within HMPREF1058_RS01805 at 38.451 kb on + strand, within HMPREF1058_RS01805 at 38.516 kb on + strand, within HMPREF1058_RS01805 at 38.645 kb on - strand, within HMPREF1058_RS01800 at 38.693 kb on + strand, within HMPREF1058_RS01800 at 38.713 kb on + strand, within HMPREF1058_RS01800 at 38.747 kb on + strand, within HMPREF1058_RS01800 at 38.761 kb on - strand, within HMPREF1058_RS01800 at 38.761 kb on - strand, within HMPREF1058_RS01800 at 38.880 kb on - strand, within HMPREF1058_RS01800 at 38.890 kb on - strand, within HMPREF1058_RS01800
Per-strain Table
Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse3; day1 remove 35,760 - HMPREF1058_RS21715 0.23 +0.8 35,799 - HMPREF1058_RS21715 0.31 -0.8 35,848 + HMPREF1058_RS21715 0.40 +1.5 35,848 + HMPREF1058_RS21715 0.40 +2.3 35,849 - +3.6 35,849 - HMPREF1058_RS21715 0.40 +1.8 35,852 + HMPREF1058_RS21715 0.40 +2.2 35,852 + HMPREF1058_RS21715 0.40 +1.4 35,869 + HMPREF1058_RS21715 0.44 +2.7 35,870 - HMPREF1058_RS21715 0.44 +2.2 35,940 + HMPREF1058_RS21715 0.57 -0.2 36,128 + +3.5 36,128 + +3.2 36,129 - -2.9 36,169 + +0.8 36,183 + +1.7 36,341 + +1.9 36,371 - +1.8 36,391 - +0.9 36,446 + -0.2 36,464 + -0.2 36,465 - -0.8 36,487 - +0.2 36,517 + HMPREF1058_RS01820 0.20 +0.8 36,642 + HMPREF1058_RS01820 0.72 +0.1 36,643 - HMPREF1058_RS01820 0.72 +1.1 36,768 - +0.1 36,783 - -0.4 36,804 + +1.5 36,808 + -1.2 36,810 + +0.8 36,864 - HMPREF1058_RS01815 0.11 -0.9 36,973 - HMPREF1058_RS01815 0.20 -0.2 37,017 - HMPREF1058_RS01815 0.24 +3.3 37,018 + HMPREF1058_RS01815 0.24 -1.4 37,054 + HMPREF1058_RS01815 0.27 -1.5 37,064 - HMPREF1058_RS01815 0.27 +0.0 37,064 - HMPREF1058_RS01815 0.27 -2.6 37,066 - HMPREF1058_RS01815 0.28 +2.0 37,099 - HMPREF1058_RS01815 0.30 -1.6 37,144 + HMPREF1058_RS01815 0.34 -2.5 37,144 + HMPREF1058_RS01815 0.34 -0.8 37,177 - HMPREF1058_RS01815 0.37 -0.3 37,177 - HMPREF1058_RS01815 0.37 +1.6 37,233 + HMPREF1058_RS01815 0.41 -0.2 37,234 - HMPREF1058_RS01815 0.41 -1.2 37,235 + HMPREF1058_RS01815 0.41 +1.5 37,235 + HMPREF1058_RS01815 0.41 +0.8 37,235 + HMPREF1058_RS01815 0.41 -1.5 37,235 + HMPREF1058_RS01815 0.41 +1.1 37,242 - HMPREF1058_RS01815 0.42 -1.5 37,242 - HMPREF1058_RS01815 0.42 +0.8 37,242 - HMPREF1058_RS01815 0.42 -0.4 37,296 - HMPREF1058_RS01815 0.46 +1.0 37,296 - HMPREF1058_RS01815 0.46 -1.2 37,297 + HMPREF1058_RS01815 0.46 +1.8 37,309 + HMPREF1058_RS01815 0.47 +1.7 37,309 + HMPREF1058_RS01815 0.47 -2.8 37,309 + +0.8 37,310 - HMPREF1058_RS01815 0.47 +1.7 37,311 + HMPREF1058_RS01815 0.47 +0.1 37,325 + HMPREF1058_RS01815 0.48 -1.5 37,326 - HMPREF1058_RS01815 0.49 -2.6 37,326 - HMPREF1058_RS01815 0.49 +3.1 37,326 - HMPREF1058_RS01815 0.49 +3.9 37,353 - HMPREF1058_RS01815 0.51 -1.8 37,356 + HMPREF1058_RS01815 0.51 -0.7 37,357 - HMPREF1058_RS01815 0.51 +1.3 37,359 + HMPREF1058_RS01815 0.51 -0.3 37,359 + HMPREF1058_RS01815 0.51 +2.2 37,360 - HMPREF1058_RS01815 0.51 -2.5 37,362 - HMPREF1058_RS01815 0.51 +2.1 37,362 - HMPREF1058_RS01815 0.51 -1.5 37,365 - HMPREF1058_RS01815 0.52 -0.8 37,365 - HMPREF1058_RS01815 0.52 +0.4 37,370 + HMPREF1058_RS01815 0.52 +1.4 37,371 - HMPREF1058_RS01815 0.52 +1.9 37,399 - HMPREF1058_RS01815 0.54 -1.2 37,399 - HMPREF1058_RS01815 0.54 -0.2 37,405 - HMPREF1058_RS01815 0.55 -2.2 37,428 - HMPREF1058_RS01815 0.57 +0.9 37,430 - HMPREF1058_RS01815 0.57 +1.7 37,474 + HMPREF1058_RS01815 0.60 -1.8 37,525 - HMPREF1058_RS01815 0.65 -1.2 37,588 - HMPREF1058_RS01815 0.70 +0.0 37,636 - HMPREF1058_RS01815 0.74 -0.2 37,697 + HMPREF1058_RS01815 0.78 +1.2 37,697 + HMPREF1058_RS01815 0.78 -2.0 37,697 + HMPREF1058_RS01815 0.78 -2.8 37,697 + HMPREF1058_RS01815 0.78 +1.5 37,698 - HMPREF1058_RS01815 0.79 -1.8 37,698 - HMPREF1058_RS01815 0.79 +1.9 37,718 + HMPREF1058_RS01815 0.80 -0.2 37,767 + HMPREF1058_RS01815 0.84 +1.8 37,774 - HMPREF1058_RS01815 0.85 -1.5 37,785 + HMPREF1058_RS01815 0.86 +1.5 37,786 - HMPREF1058_RS01815 0.86 -1.7 37,830 + HMPREF1058_RS01815 0.89 -2.4 37,831 - HMPREF1058_RS01815 0.89 +0.2 37,831 - HMPREF1058_RS01815 0.89 -1.8 37,849 + +2.0 37,849 + -0.6 37,849 + +0.1 37,849 + -1.2 37,871 + +0.4 37,920 + -2.0 37,948 + +1.7 37,972 + +0.1 37,977 - +0.8 37,988 - +1.9 38,213 + +0.8 38,249 + +2.0 38,259 - -2.4 38,262 + -0.2 38,262 + -2.6 38,338 + HMPREF1058_RS01805 0.25 +2.4 38,339 - HMPREF1058_RS01805 0.25 -2.0 38,398 - HMPREF1058_RS01805 0.44 -0.8 38,451 + HMPREF1058_RS01805 0.61 -0.8 38,516 + HMPREF1058_RS01805 0.83 +0.8 38,645 - HMPREF1058_RS01800 0.14 -1.2 38,693 + HMPREF1058_RS01800 0.22 -0.2 38,713 + HMPREF1058_RS01800 0.26 -0.8 38,747 + HMPREF1058_RS01800 0.32 -2.5 38,761 - HMPREF1058_RS01800 0.34 -0.8 38,761 - HMPREF1058_RS01800 0.34 -1.8 38,880 - HMPREF1058_RS01800 0.55 -0.8 38,890 - HMPREF1058_RS01800 0.57 -1.8
Or see this region's nucleotide sequence