Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; day7
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_RS12190 and HMPREF1058_RS12185 are separated by 2 nucleotides HMPREF1058_RS12185 and HMPREF1058_RS12180 are separated by 138 nucleotides HMPREF1058_RS12180 and HMPREF1058_RS12175 overlap by 40 nucleotides HMPREF1058_RS12175 and HMPREF1058_RS12170 are separated by 213 nucleotides HMPREF1058_RS12170 and HMPREF1058_RS12165 are separated by 20 nucleotides
HMPREF1058_RS12190: HMPREF1058_RS12190 - transcription termination/antitermination protein NusA, at 181,874 to 183,130
_RS12190
HMPREF1058_RS12185: HMPREF1058_RS12185 - ribosome assembly cofactor RimP, at 183,133 to 183,600
_RS12185
HMPREF1058_RS12180: HMPREF1058_RS12180 - hypothetical protein, at 183,739 to 184,158
_RS12180
HMPREF1058_RS12175: HMPREF1058_RS12175 - MFS transporter AraJ, at 184,119 to 185,279
_RS12175
HMPREF1058_RS12170: HMPREF1058_RS12170 - hypothetical protein, at 185,493 to 185,741
_RS12170
HMPREF1058_RS12165: HMPREF1058_RS12165 - radical SAM protein, at 185,762 to 186,832
_RS12165
Position (kb) 184
185
186 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3
4
5
6 at 183.377 kb on - strand, within HMPREF1058_RS12185 at 183.677 kb on - strand at 183.702 kb on - strand at 183.731 kb on - strand at 183.732 kb on + strand at 183.744 kb on + strand at 183.779 kb on + strand at 183.780 kb on - strand at 183.789 kb on + strand, within HMPREF1058_RS12180 at 183.817 kb on - strand, within HMPREF1058_RS12180 at 183.834 kb on + strand, within HMPREF1058_RS12180 at 183.869 kb on + strand, within HMPREF1058_RS12180 at 183.877 kb on + strand, within HMPREF1058_RS12180 at 183.877 kb on + strand, within HMPREF1058_RS12180 at 183.877 kb on + strand, within HMPREF1058_RS12180 at 183.896 kb on + strand, within HMPREF1058_RS12180 at 183.927 kb on + strand, within HMPREF1058_RS12180 at 183.930 kb on - strand, within HMPREF1058_RS12180 at 183.930 kb on - strand, within HMPREF1058_RS12180 at 184.018 kb on - strand, within HMPREF1058_RS12180 at 184.023 kb on - strand, within HMPREF1058_RS12180 at 184.120 kb on + strand at 184.123 kb on - strand at 184.186 kb on - strand at 184.236 kb on + strand, within HMPREF1058_RS12175 at 184.237 kb on - strand, within HMPREF1058_RS12175 at 184.344 kb on + strand, within HMPREF1058_RS12175 at 184.345 kb on - strand, within HMPREF1058_RS12175 at 184.382 kb on + strand, within HMPREF1058_RS12175 at 184.383 kb on - strand, within HMPREF1058_RS12175 at 184.383 kb on - strand, within HMPREF1058_RS12175 at 184.386 kb on + strand, within HMPREF1058_RS12175 at 184.386 kb on + strand, within HMPREF1058_RS12175 at 184.387 kb on - strand, within HMPREF1058_RS12175 at 184.387 kb on - strand, within HMPREF1058_RS12175 at 184.387 kb on - strand, within HMPREF1058_RS12175 at 184.387 kb on - strand, within HMPREF1058_RS12175 at 184.388 kb on + strand, within HMPREF1058_RS12175 at 184.388 kb on + strand, within HMPREF1058_RS12175 at 184.571 kb on + strand, within HMPREF1058_RS12175 at 184.571 kb on + strand, within HMPREF1058_RS12175 at 184.618 kb on + strand, within HMPREF1058_RS12175 at 184.619 kb on - strand, within HMPREF1058_RS12175 at 184.619 kb on - strand, within HMPREF1058_RS12175 at 184.619 kb on - strand, within HMPREF1058_RS12175 at 184.655 kb on + strand, within HMPREF1058_RS12175 at 184.721 kb on + strand, within HMPREF1058_RS12175 at 184.763 kb on - strand, within HMPREF1058_RS12175 at 184.794 kb on - strand, within HMPREF1058_RS12175 at 184.821 kb on + strand, within HMPREF1058_RS12175 at 184.821 kb on + strand, within HMPREF1058_RS12175 at 184.823 kb on + strand, within HMPREF1058_RS12175 at 184.823 kb on + strand, within HMPREF1058_RS12175 at 184.823 kb on + strand, within HMPREF1058_RS12175 at 184.824 kb on - strand, within HMPREF1058_RS12175 at 184.824 kb on - strand, within HMPREF1058_RS12175 at 185.045 kb on + strand, within HMPREF1058_RS12175 at 185.048 kb on - strand, within HMPREF1058_RS12175 at 185.052 kb on - strand, within HMPREF1058_RS12175 at 185.072 kb on + strand, within HMPREF1058_RS12175 at 185.072 kb on + strand, within HMPREF1058_RS12175 at 185.133 kb on + strand, within HMPREF1058_RS12175 at 185.172 kb on - strand at 185.175 kb on + strand at 185.176 kb on - strand at 185.176 kb on - strand at 185.177 kb on + strand at 185.217 kb on + strand at 185.322 kb on + strand at 185.383 kb on - strand at 185.436 kb on - strand at 185.659 kb on - strand, within HMPREF1058_RS12170 at 185.660 kb on + strand, within HMPREF1058_RS12170 at 185.661 kb on - strand, within HMPREF1058_RS12170 at 185.769 kb on - strand at 185.799 kb on + strand at 185.840 kb on + strand at 185.842 kb on + strand at 185.843 kb on - strand at 185.867 kb on - strand at 185.874 kb on + strand, within HMPREF1058_RS12165 at 185.878 kb on + strand, within HMPREF1058_RS12165 at 185.878 kb on + strand, within HMPREF1058_RS12165 at 185.879 kb on - strand, within HMPREF1058_RS12165 at 185.906 kb on - strand, within HMPREF1058_RS12165 at 185.906 kb on - strand, within HMPREF1058_RS12165 at 185.906 kb on - strand, within HMPREF1058_RS12165 at 185.968 kb on + strand, within HMPREF1058_RS12165 at 185.968 kb on + strand, within HMPREF1058_RS12165 at 185.983 kb on + strand, within HMPREF1058_RS12165 at 185.998 kb on - strand, within HMPREF1058_RS12165 at 186.019 kb on - strand, within HMPREF1058_RS12165 at 186.021 kb on - strand, within HMPREF1058_RS12165 at 186.023 kb on - strand, within HMPREF1058_RS12165 at 186.023 kb on - strand, within HMPREF1058_RS12165 at 186.024 kb on + strand, within HMPREF1058_RS12165 at 186.024 kb on + strand, within HMPREF1058_RS12165 at 186.072 kb on + strand, within HMPREF1058_RS12165 at 186.073 kb on - strand, within HMPREF1058_RS12165 at 186.104 kb on - strand, within HMPREF1058_RS12165 at 186.104 kb on - strand, within HMPREF1058_RS12165 at 186.216 kb on + strand, within HMPREF1058_RS12165 at 186.219 kb on + strand, within HMPREF1058_RS12165 at 186.219 kb on + strand, within HMPREF1058_RS12165 at 186.219 kb on + strand, within HMPREF1058_RS12165 at 186.227 kb on - strand, within HMPREF1058_RS12165 at 186.254 kb on + strand, within HMPREF1058_RS12165
Per-strain Table
Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; day7 remove 183,377 - HMPREF1058_RS12185 0.52 -2.3 183,677 - -2.1 183,702 - -2.0 183,731 - -0.5 183,732 + +0.7 183,744 + -1.5 183,779 + -1.2 183,780 - +1.7 183,789 + HMPREF1058_RS12180 0.12 -0.4 183,817 - HMPREF1058_RS12180 0.19 +2.0 183,834 + HMPREF1058_RS12180 0.23 +0.4 183,869 + HMPREF1058_RS12180 0.31 +0.2 183,877 + HMPREF1058_RS12180 0.33 -0.5 183,877 + HMPREF1058_RS12180 0.33 -0.6 183,877 + HMPREF1058_RS12180 0.33 -2.1 183,896 + HMPREF1058_RS12180 0.37 -0.1 183,927 + HMPREF1058_RS12180 0.45 +0.9 183,930 - HMPREF1058_RS12180 0.45 +0.5 183,930 - HMPREF1058_RS12180 0.45 +1.8 184,018 - HMPREF1058_RS12180 0.66 -1.5 184,023 - HMPREF1058_RS12180 0.68 +1.0 184,120 + -0.5 184,123 - -0.5 184,186 - -0.4 184,236 + HMPREF1058_RS12175 0.10 +0.3 184,237 - HMPREF1058_RS12175 0.10 +1.5 184,344 + HMPREF1058_RS12175 0.19 -0.5 184,345 - HMPREF1058_RS12175 0.19 +0.3 184,382 + HMPREF1058_RS12175 0.23 -0.9 184,383 - HMPREF1058_RS12175 0.23 +0.5 184,383 - HMPREF1058_RS12175 0.23 -0.1 184,386 + HMPREF1058_RS12175 0.23 -1.5 184,386 + HMPREF1058_RS12175 0.23 -0.9 184,387 - HMPREF1058_RS12175 0.23 +3.7 184,387 - HMPREF1058_RS12175 0.23 +0.5 184,387 - HMPREF1058_RS12175 0.23 +3.3 184,387 - HMPREF1058_RS12175 0.23 -1.7 184,388 + HMPREF1058_RS12175 0.23 +0.9 184,388 + HMPREF1058_RS12175 0.23 +2.5 184,571 + HMPREF1058_RS12175 0.39 -0.7 184,571 + HMPREF1058_RS12175 0.39 +0.5 184,618 + HMPREF1058_RS12175 0.43 -0.9 184,619 - HMPREF1058_RS12175 0.43 +2.5 184,619 - HMPREF1058_RS12175 0.43 +1.3 184,619 - HMPREF1058_RS12175 0.43 +5.6 184,655 + HMPREF1058_RS12175 0.46 +1.1 184,721 + HMPREF1058_RS12175 0.52 +0.9 184,763 - HMPREF1058_RS12175 0.55 +0.4 184,794 - HMPREF1058_RS12175 0.58 -1.3 184,821 + HMPREF1058_RS12175 0.60 +1.6 184,821 + HMPREF1058_RS12175 0.60 -3.1 184,823 + HMPREF1058_RS12175 0.61 -1.9 184,823 + HMPREF1058_RS12175 0.61 +0.2 184,823 + HMPREF1058_RS12175 0.61 +0.6 184,824 - HMPREF1058_RS12175 0.61 +0.7 184,824 - HMPREF1058_RS12175 0.61 +0.5 185,045 + HMPREF1058_RS12175 0.80 +1.3 185,048 - HMPREF1058_RS12175 0.80 +1.6 185,052 - HMPREF1058_RS12175 0.80 +1.1 185,072 + HMPREF1058_RS12175 0.82 +2.1 185,072 + HMPREF1058_RS12175 0.82 +0.2 185,133 + HMPREF1058_RS12175 0.87 +6.2 185,172 - +0.1 185,175 + +0.6 185,176 - -0.9 185,176 - +1.8 185,177 + +1.5 185,217 + -0.3 185,322 + +2.0 185,383 - +0.7 185,436 - -2.6 185,659 - HMPREF1058_RS12170 0.67 -0.7 185,660 + HMPREF1058_RS12170 0.67 -0.9 185,661 - HMPREF1058_RS12170 0.67 -0.3 185,769 - +1.0 185,799 + +2.1 185,840 + +2.0 185,842 + +1.6 185,843 - +1.0 185,867 - +0.9 185,874 + HMPREF1058_RS12165 0.10 +1.5 185,878 + HMPREF1058_RS12165 0.11 +1.0 185,878 + HMPREF1058_RS12165 0.11 -3.4 185,879 - HMPREF1058_RS12165 0.11 -2.4 185,906 - HMPREF1058_RS12165 0.13 +0.7 185,906 - HMPREF1058_RS12165 0.13 +0.7 185,906 - HMPREF1058_RS12165 0.13 -2.3 185,968 + HMPREF1058_RS12165 0.19 -0.5 185,968 + HMPREF1058_RS12165 0.19 +0.8 185,983 + HMPREF1058_RS12165 0.21 +0.9 185,998 - HMPREF1058_RS12165 0.22 +0.4 186,019 - HMPREF1058_RS12165 0.24 -0.9 186,021 - HMPREF1058_RS12165 0.24 +1.6 186,023 - HMPREF1058_RS12165 0.24 -2.5 186,023 - HMPREF1058_RS12165 0.24 -0.0 186,024 + HMPREF1058_RS12165 0.24 -0.4 186,024 + HMPREF1058_RS12165 0.24 +0.6 186,072 + HMPREF1058_RS12165 0.29 -1.8 186,073 - HMPREF1058_RS12165 0.29 +5.0 186,104 - HMPREF1058_RS12165 0.32 +0.0 186,104 - HMPREF1058_RS12165 0.32 +0.7 186,216 + HMPREF1058_RS12165 0.42 -3.4 186,219 + HMPREF1058_RS12165 0.43 -1.6 186,219 + HMPREF1058_RS12165 0.43 -0.9 186,219 + HMPREF1058_RS12165 0.43 +4.0 186,227 - HMPREF1058_RS12165 0.43 -0.5 186,254 + HMPREF1058_RS12165 0.46 +0.9
Or see this region's nucleotide sequence