Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; 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 HMPREF1058_RS10500 and HMPREF1058_RS10495 are separated by 210 nucleotides HMPREF1058_RS10495 and HMPREF1058_RS10490 overlap by 20 nucleotides HMPREF1058_RS10490 and HMPREF1058_RS10485 are separated by 3 nucleotides
HMPREF1058_RS10500: HMPREF1058_RS10500 - HU family DNA-binding protein, at 654,037 to 654,309
_RS10500
HMPREF1058_RS10495: HMPREF1058_RS10495 - rhomboid family intramembrane serine protease, at 654,520 to 655,197
_RS10495
HMPREF1058_RS10490: HMPREF1058_RS10490 - rhomboid family intramembrane serine protease, at 655,178 to 656,071
_RS10490
HMPREF1058_RS10485: HMPREF1058_RS10485 - endonuclease/exonuclease/phosphatase family protein, at 656,075 to 657,154
_RS10485
Position (kb) 655
656
657 Strain fitness (log2 ratio) -5
-4
-3
-2
-1
0
1
2
3 at 654.215 kb on - strand, within HMPREF1058_RS10500 at 654.322 kb on + strand at 654.330 kb on - strand at 654.335 kb on + strand at 654.368 kb on + strand at 654.369 kb on - strand at 654.515 kb on + strand at 654.601 kb on + strand, within HMPREF1058_RS10495 at 654.681 kb on + strand, within HMPREF1058_RS10495 at 654.792 kb on + strand, within HMPREF1058_RS10495 at 654.796 kb on + strand, within HMPREF1058_RS10495 at 655.145 kb on + strand at 655.173 kb on + strand at 655.190 kb on - strand at 655.190 kb on - strand at 655.228 kb on - strand at 655.229 kb on + strand at 655.229 kb on + strand at 655.230 kb on - strand at 655.230 kb on - strand at 655.231 kb on + strand at 655.242 kb on + strand at 655.242 kb on + strand at 655.244 kb on + strand at 655.246 kb on + strand at 655.246 kb on + strand at 655.246 kb on + strand at 655.247 kb on - strand at 655.247 kb on - strand at 655.261 kb on - strand at 655.270 kb on - strand, within HMPREF1058_RS10490 at 655.331 kb on + strand, within HMPREF1058_RS10490 at 655.331 kb on + strand, within HMPREF1058_RS10490 at 655.390 kb on + strand, within HMPREF1058_RS10490 at 655.391 kb on + strand, within HMPREF1058_RS10490 at 655.391 kb on + strand, within HMPREF1058_RS10490 at 655.392 kb on - strand, within HMPREF1058_RS10490 at 655.393 kb on + strand, within HMPREF1058_RS10490 at 655.432 kb on + strand, within HMPREF1058_RS10490 at 655.503 kb on - strand, within HMPREF1058_RS10490 at 655.516 kb on + strand, within HMPREF1058_RS10490 at 655.537 kb on + strand, within HMPREF1058_RS10490 at 655.547 kb on + strand, within HMPREF1058_RS10490 at 655.581 kb on - strand, within HMPREF1058_RS10490 at 655.589 kb on + strand, within HMPREF1058_RS10490 at 655.589 kb on + strand, within HMPREF1058_RS10490 at 655.656 kb on - strand, within HMPREF1058_RS10490 at 655.657 kb on + strand, within HMPREF1058_RS10490 at 655.669 kb on + strand, within HMPREF1058_RS10490 at 655.698 kb on - strand, within HMPREF1058_RS10490 at 655.698 kb on - strand, within HMPREF1058_RS10490 at 655.831 kb on + strand, within HMPREF1058_RS10490 at 655.831 kb on + strand, within HMPREF1058_RS10490 at 655.831 kb on + strand, within HMPREF1058_RS10490 at 655.832 kb on - strand, within HMPREF1058_RS10490 at 655.832 kb on - strand, within HMPREF1058_RS10490 at 655.832 kb on - strand, within HMPREF1058_RS10490 at 655.946 kb on + strand, within HMPREF1058_RS10490 at 655.947 kb on - strand, within HMPREF1058_RS10490 at 655.949 kb on - strand, within HMPREF1058_RS10490 at 655.949 kb on - strand, within HMPREF1058_RS10490 at 655.981 kb on - strand, within HMPREF1058_RS10490 at 655.987 kb on + strand at 655.987 kb on + strand at 656.017 kb on + strand at 656.072 kb on + strand at 656.073 kb on - strand at 656.074 kb on + strand at 656.081 kb on + strand at 656.081 kb on + strand at 656.082 kb on - strand at 656.084 kb on - strand at 656.107 kb on - strand at 656.109 kb on + strand at 656.119 kb on - strand at 656.129 kb on - strand at 656.129 kb on - strand at 656.149 kb on - strand at 656.149 kb on - strand at 656.165 kb on + strand at 656.165 kb on + strand at 656.165 kb on + strand at 656.166 kb on - strand at 656.166 kb on - strand at 656.167 kb on + strand at 656.167 kb on + strand at 656.168 kb on - strand at 656.168 kb on - strand at 656.191 kb on - strand, within HMPREF1058_RS10485 at 656.273 kb on - strand, within HMPREF1058_RS10485 at 656.327 kb on - strand, within HMPREF1058_RS10485 at 656.346 kb on + strand, within HMPREF1058_RS10485 at 656.346 kb on + strand, within HMPREF1058_RS10485 at 656.346 kb on + strand, within HMPREF1058_RS10485 at 656.347 kb on - strand, within HMPREF1058_RS10485 at 656.352 kb on + strand, within HMPREF1058_RS10485 at 656.390 kb on + strand, within HMPREF1058_RS10485 at 656.390 kb on + strand, within HMPREF1058_RS10485 at 656.391 kb on - strand, within HMPREF1058_RS10485 at 656.460 kb on + strand, within HMPREF1058_RS10485 at 656.479 kb on + strand, within HMPREF1058_RS10485 at 656.481 kb on + strand, within HMPREF1058_RS10485 at 656.481 kb on + strand, within HMPREF1058_RS10485 at 656.498 kb on + strand, within HMPREF1058_RS10485 at 656.498 kb on + strand, within HMPREF1058_RS10485 at 656.500 kb on + strand, within HMPREF1058_RS10485 at 656.500 kb on + strand, within HMPREF1058_RS10485 at 656.558 kb on + strand, within HMPREF1058_RS10485 at 656.559 kb on - strand, within HMPREF1058_RS10485 at 656.559 kb on - strand, within HMPREF1058_RS10485 at 656.572 kb on + strand, within HMPREF1058_RS10485 at 656.572 kb on + strand, within HMPREF1058_RS10485 at 656.573 kb on - strand, within HMPREF1058_RS10485 at 656.573 kb on - strand at 656.573 kb on - strand, within HMPREF1058_RS10485 at 656.617 kb on + strand, within HMPREF1058_RS10485 at 656.642 kb on + strand, within HMPREF1058_RS10485 at 656.673 kb on - strand, within HMPREF1058_RS10485 at 656.675 kb on - strand, within HMPREF1058_RS10485 at 656.711 kb on - strand, within HMPREF1058_RS10485 at 656.713 kb on + strand, within HMPREF1058_RS10485 at 656.847 kb on + strand, within HMPREF1058_RS10485 at 656.847 kb on + strand, within HMPREF1058_RS10485 at 656.847 kb on + strand, within HMPREF1058_RS10485 at 656.848 kb on - strand, within HMPREF1058_RS10485 at 656.907 kb on + strand, within HMPREF1058_RS10485 at 656.913 kb on + strand, within HMPREF1058_RS10485 at 656.914 kb on - strand, within HMPREF1058_RS10485 at 656.939 kb on - strand, within HMPREF1058_RS10485 at 656.939 kb on - strand, within HMPREF1058_RS10485 at 656.945 kb on + strand, within HMPREF1058_RS10485 at 656.945 kb on + strand, within HMPREF1058_RS10485 at 656.946 kb on - strand, within HMPREF1058_RS10485 at 656.946 kb on - strand, within HMPREF1058_RS10485 at 656.946 kb on - strand, within HMPREF1058_RS10485 at 657.017 kb on + strand, within HMPREF1058_RS10485 at 657.017 kb on + strand, within HMPREF1058_RS10485 at 657.018 kb on - strand, within HMPREF1058_RS10485 at 657.019 kb on + strand, within HMPREF1058_RS10485 at 657.019 kb on + strand, within HMPREF1058_RS10485 at 657.020 kb on - strand, within HMPREF1058_RS10485 at 657.052 kb on + strand
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4 remove 654,215 - HMPREF1058_RS10500 0.65 -1.9 654,322 + -1.3 654,330 - +0.7 654,335 + -1.9 654,368 + -0.2 654,369 - -0.0 654,515 + -1.9 654,601 + HMPREF1058_RS10495 0.12 -1.8 654,681 + HMPREF1058_RS10495 0.24 +0.4 654,792 + HMPREF1058_RS10495 0.40 -1.9 654,796 + HMPREF1058_RS10495 0.41 +2.4 655,145 + +2.2 655,173 + +0.7 655,190 - -3.2 655,190 - -0.4 655,228 - -0.4 655,229 + -2.9 655,229 + -2.4 655,230 - -0.4 655,230 - -0.4 655,231 + -2.9 655,242 + -3.7 655,242 + -3.8 655,244 + -3.9 655,246 + -1.9 655,246 + -4.6 655,246 + -2.3 655,247 - -1.3 655,247 - -1.9 655,261 - -4.1 655,270 - HMPREF1058_RS10490 0.10 -2.3 655,331 + HMPREF1058_RS10490 0.17 -1.3 655,331 + HMPREF1058_RS10490 0.17 -4.0 655,390 + HMPREF1058_RS10490 0.24 -2.9 655,391 + HMPREF1058_RS10490 0.24 -1.9 655,391 + HMPREF1058_RS10490 0.24 -2.1 655,392 - HMPREF1058_RS10490 0.24 -1.9 655,393 + HMPREF1058_RS10490 0.24 -3.1 655,432 + HMPREF1058_RS10490 0.28 -2.3 655,503 - HMPREF1058_RS10490 0.36 -2.5 655,516 + HMPREF1058_RS10490 0.38 -1.9 655,537 + HMPREF1058_RS10490 0.40 -1.3 655,547 + HMPREF1058_RS10490 0.41 -1.9 655,581 - HMPREF1058_RS10490 0.45 -4.1 655,589 + HMPREF1058_RS10490 0.46 -1.3 655,589 + HMPREF1058_RS10490 0.46 -2.2 655,656 - HMPREF1058_RS10490 0.53 -2.8 655,657 + HMPREF1058_RS10490 0.54 -2.3 655,669 + HMPREF1058_RS10490 0.55 -3.4 655,698 - HMPREF1058_RS10490 0.58 -1.3 655,698 - HMPREF1058_RS10490 0.58 -3.7 655,831 + HMPREF1058_RS10490 0.73 -4.9 655,831 + HMPREF1058_RS10490 0.73 -3.5 655,831 + HMPREF1058_RS10490 0.73 -3.0 655,832 - HMPREF1058_RS10490 0.73 -4.0 655,832 - HMPREF1058_RS10490 0.73 -4.1 655,832 - HMPREF1058_RS10490 0.73 -2.0 655,946 + HMPREF1058_RS10490 0.86 -1.9 655,947 - HMPREF1058_RS10490 0.86 -3.1 655,949 - HMPREF1058_RS10490 0.86 -3.1 655,949 - HMPREF1058_RS10490 0.86 -1.7 655,981 - HMPREF1058_RS10490 0.90 -1.9 655,987 + -3.3 655,987 + -4.0 656,017 + -4.5 656,072 + +0.2 656,073 - +0.2 656,074 + +0.6 656,081 + +1.3 656,081 + -0.1 656,082 - +0.6 656,084 - +0.2 656,107 - +0.4 656,109 + +1.0 656,119 - +0.5 656,129 - +1.1 656,129 - -1.7 656,149 - -1.1 656,149 - +1.0 656,165 + +0.4 656,165 + -1.2 656,165 + +1.4 656,166 - -0.3 656,166 - -0.1 656,167 + -0.1 656,167 + -0.9 656,168 - -2.7 656,168 - -0.1 656,191 - HMPREF1058_RS10485 0.11 -1.9 656,273 - HMPREF1058_RS10485 0.18 -1.3 656,327 - HMPREF1058_RS10485 0.23 -0.1 656,346 + HMPREF1058_RS10485 0.25 +1.1 656,346 + HMPREF1058_RS10485 0.25 +0.3 656,346 + HMPREF1058_RS10485 0.25 +0.6 656,347 - HMPREF1058_RS10485 0.25 +0.5 656,352 + HMPREF1058_RS10485 0.26 -2.4 656,390 + HMPREF1058_RS10485 0.29 +1.8 656,390 + HMPREF1058_RS10485 0.29 +0.4 656,391 - HMPREF1058_RS10485 0.29 +0.2 656,460 + HMPREF1058_RS10485 0.36 +1.5 656,479 + HMPREF1058_RS10485 0.37 +0.5 656,481 + HMPREF1058_RS10485 0.38 +1.3 656,481 + HMPREF1058_RS10485 0.38 +3.2 656,498 + HMPREF1058_RS10485 0.39 +1.7 656,498 + HMPREF1058_RS10485 0.39 +0.4 656,500 + HMPREF1058_RS10485 0.39 -0.4 656,500 + HMPREF1058_RS10485 0.39 +2.2 656,558 + HMPREF1058_RS10485 0.45 +0.0 656,559 - HMPREF1058_RS10485 0.45 -0.9 656,559 - HMPREF1058_RS10485 0.45 -2.7 656,572 + HMPREF1058_RS10485 0.46 +0.6 656,572 + HMPREF1058_RS10485 0.46 +1.4 656,573 - HMPREF1058_RS10485 0.46 -1.7 656,573 - -1.3 656,573 - HMPREF1058_RS10485 0.46 -0.3 656,617 + HMPREF1058_RS10485 0.50 -0.0 656,642 + HMPREF1058_RS10485 0.53 +0.4 656,673 - HMPREF1058_RS10485 0.55 -1.1 656,675 - HMPREF1058_RS10485 0.56 +1.1 656,711 - HMPREF1058_RS10485 0.59 +0.5 656,713 + HMPREF1058_RS10485 0.59 +0.1 656,847 + HMPREF1058_RS10485 0.71 +2.5 656,847 + HMPREF1058_RS10485 0.71 +0.9 656,847 + HMPREF1058_RS10485 0.71 +0.9 656,848 - HMPREF1058_RS10485 0.72 +0.2 656,907 + HMPREF1058_RS10485 0.77 -0.7 656,913 + HMPREF1058_RS10485 0.78 -0.7 656,914 - HMPREF1058_RS10485 0.78 -2.2 656,939 - HMPREF1058_RS10485 0.80 +1.0 656,939 - HMPREF1058_RS10485 0.80 +1.0 656,945 + HMPREF1058_RS10485 0.81 -0.4 656,945 + HMPREF1058_RS10485 0.81 +1.7 656,946 - HMPREF1058_RS10485 0.81 +1.5 656,946 - HMPREF1058_RS10485 0.81 -1.1 656,946 - HMPREF1058_RS10485 0.81 +0.0 657,017 + HMPREF1058_RS10485 0.87 -1.1 657,017 + HMPREF1058_RS10485 0.87 +1.8 657,018 - HMPREF1058_RS10485 0.87 -0.1 657,019 + HMPREF1058_RS10485 0.87 -1.0 657,019 + HMPREF1058_RS10485 0.87 +0.0 657,020 - HMPREF1058_RS10485 0.88 -0.8 657,052 + -2.3
Or see this region's nucleotide sequence