Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse20; day9
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_RS00405 and HMPREF1058_RS00400 are separated by 97 nucleotides HMPREF1058_RS00400 and HMPREF1058_RS00395 overlap by 4 nucleotides HMPREF1058_RS00395 and HMPREF1058_RS00390 are separated by 14 nucleotides
HMPREF1058_RS00405: HMPREF1058_RS00405 - M28 family peptidase, at 80,004 to 81,497
_RS00405
HMPREF1058_RS00400: HMPREF1058_RS00400 - GntR family transcriptional regulator, at 81,595 to 81,960
_RS00400
HMPREF1058_RS00395: HMPREF1058_RS00395 - hypothetical protein, at 81,957 to 82,850
_RS00395
HMPREF1058_RS00390: HMPREF1058_RS00390 - ATP-binding cassette domain-containing protein, at 82,865 to 83,707
_RS00390
Position (kb) 81
82 Strain fitness (log2 ratio) -3
-2
-1
0
1
2 at 80.599 kb on - strand, within HMPREF1058_RS00405 at 80.606 kb on + strand, within HMPREF1058_RS00405 at 80.606 kb on + strand, within HMPREF1058_RS00405 at 80.607 kb on - strand, within HMPREF1058_RS00405 at 80.664 kb on + strand, within HMPREF1058_RS00405 at 80.665 kb on - strand, within HMPREF1058_RS00405 at 80.665 kb on - strand, within HMPREF1058_RS00405 at 80.769 kb on + strand, within HMPREF1058_RS00405 at 80.770 kb on - strand, within HMPREF1058_RS00405 at 80.794 kb on - strand, within HMPREF1058_RS00405 at 80.859 kb on + strand, within HMPREF1058_RS00405 at 80.859 kb on + strand, within HMPREF1058_RS00405 at 80.861 kb on + strand, within HMPREF1058_RS00405 at 80.915 kb on + strand, within HMPREF1058_RS00405 at 80.920 kb on + strand, within HMPREF1058_RS00405 at 80.920 kb on + strand, within HMPREF1058_RS00405 at 80.921 kb on - strand, within HMPREF1058_RS00405 at 80.921 kb on - strand, within HMPREF1058_RS00405 at 80.921 kb on - strand, within HMPREF1058_RS00405 at 80.931 kb on + strand, within HMPREF1058_RS00405 at 80.932 kb on - strand, within HMPREF1058_RS00405 at 80.932 kb on - strand, within HMPREF1058_RS00405 at 80.935 kb on + strand, within HMPREF1058_RS00405 at 81.084 kb on - strand, within HMPREF1058_RS00405 at 81.123 kb on - strand, within HMPREF1058_RS00405 at 81.126 kb on + strand, within HMPREF1058_RS00405 at 81.127 kb on - strand, within HMPREF1058_RS00405 at 81.166 kb on + strand, within HMPREF1058_RS00405 at 81.196 kb on + strand at 81.197 kb on - strand, within HMPREF1058_RS00405 at 81.209 kb on - strand, within HMPREF1058_RS00405 at 81.209 kb on - strand, within HMPREF1058_RS00405 at 81.209 kb on - strand, within HMPREF1058_RS00405 at 81.219 kb on + strand, within HMPREF1058_RS00405 at 81.220 kb on - strand, within HMPREF1058_RS00405 at 81.225 kb on + strand, within HMPREF1058_RS00405 at 81.227 kb on + strand, within HMPREF1058_RS00405 at 81.227 kb on + strand, within HMPREF1058_RS00405 at 81.227 kb on + strand, within HMPREF1058_RS00405 at 81.251 kb on - strand, within HMPREF1058_RS00405 at 81.251 kb on - strand, within HMPREF1058_RS00405 at 81.269 kb on + strand, within HMPREF1058_RS00405 at 81.269 kb on + strand, within HMPREF1058_RS00405 at 81.269 kb on + strand, within HMPREF1058_RS00405 at 81.273 kb on + strand, within HMPREF1058_RS00405 at 81.273 kb on + strand, within HMPREF1058_RS00405 at 81.273 kb on + strand, within HMPREF1058_RS00405 at 81.273 kb on + strand at 81.274 kb on - strand, within HMPREF1058_RS00405 at 81.274 kb on - strand, within HMPREF1058_RS00405 at 81.277 kb on + strand, within HMPREF1058_RS00405 at 81.277 kb on + strand, within HMPREF1058_RS00405 at 81.277 kb on + strand, within HMPREF1058_RS00405 at 81.278 kb on - strand, within HMPREF1058_RS00405 at 81.278 kb on - strand, within HMPREF1058_RS00405 at 81.365 kb on + strand at 81.365 kb on + strand at 81.366 kb on - strand at 81.366 kb on - strand at 81.368 kb on - strand at 81.368 kb on - strand at 81.393 kb on + strand at 81.414 kb on - strand at 81.414 kb on - strand at 81.425 kb on + strand at 81.505 kb on + strand at 81.563 kb on + strand at 81.563 kb on + strand at 81.564 kb on - strand at 81.564 kb on - strand at 81.621 kb on - strand at 81.703 kb on - strand, within HMPREF1058_RS00400 at 81.777 kb on + strand, within HMPREF1058_RS00400 at 81.797 kb on + strand, within HMPREF1058_RS00400 at 81.798 kb on - strand, within HMPREF1058_RS00400 at 81.798 kb on - strand, within HMPREF1058_RS00400 at 81.804 kb on - strand, within HMPREF1058_RS00400 at 81.883 kb on - strand, within HMPREF1058_RS00400 at 81.884 kb on + strand, within HMPREF1058_RS00400 at 81.885 kb on - strand, within HMPREF1058_RS00400 at 81.923 kb on - strand, within HMPREF1058_RS00400 at 81.933 kb on - strand at 81.961 kb on - strand at 82.077 kb on + strand, within HMPREF1058_RS00395 at 82.121 kb on + strand, within HMPREF1058_RS00395 at 82.121 kb on + strand, within HMPREF1058_RS00395 at 82.150 kb on - strand, within HMPREF1058_RS00395 at 82.155 kb on - strand, within HMPREF1058_RS00395 at 82.155 kb on - strand, within HMPREF1058_RS00395 at 82.159 kb on - strand, within HMPREF1058_RS00395 at 82.181 kb on + strand, within HMPREF1058_RS00395 at 82.182 kb on - strand, within HMPREF1058_RS00395 at 82.187 kb on + strand, within HMPREF1058_RS00395 at 82.187 kb on + strand, within HMPREF1058_RS00395 at 82.238 kb on + strand, within HMPREF1058_RS00395 at 82.238 kb on + strand, within HMPREF1058_RS00395 at 82.239 kb on - strand, within HMPREF1058_RS00395 at 82.246 kb on - strand, within HMPREF1058_RS00395 at 82.250 kb on + strand, within HMPREF1058_RS00395 at 82.250 kb on + strand, within HMPREF1058_RS00395 at 82.250 kb on + strand, within HMPREF1058_RS00395 at 82.253 kb on - strand, within HMPREF1058_RS00395 at 82.253 kb on - strand, within HMPREF1058_RS00395 at 82.345 kb on + strand, within HMPREF1058_RS00395 at 82.345 kb on + strand, within HMPREF1058_RS00395 at 82.347 kb on + strand, within HMPREF1058_RS00395 at 82.348 kb on - strand, within HMPREF1058_RS00395 at 82.348 kb on - strand, within HMPREF1058_RS00395 at 82.385 kb on + strand, within HMPREF1058_RS00395 at 82.386 kb on - strand, within HMPREF1058_RS00395 at 82.389 kb on + strand, within HMPREF1058_RS00395 at 82.390 kb on - strand, within HMPREF1058_RS00395 at 82.417 kb on - strand, within HMPREF1058_RS00395 at 82.417 kb on - strand, within HMPREF1058_RS00395 at 82.506 kb on + strand, within HMPREF1058_RS00395 at 82.632 kb on - strand, within HMPREF1058_RS00395 at 82.664 kb on - strand, within HMPREF1058_RS00395 at 82.692 kb on - strand, within HMPREF1058_RS00395 at 82.694 kb on - strand, within HMPREF1058_RS00395 at 82.748 kb on - strand, within HMPREF1058_RS00395 at 82.861 kb on + strand at 82.861 kb on + strand at 82.867 kb on - strand at 82.867 kb on - strand at 82.867 kb on - strand at 82.922 kb on + strand at 82.922 kb on + strand at 82.923 kb on - strand
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse20; day9 remove 80,599 - HMPREF1058_RS00405 0.40 +1.3 80,606 + HMPREF1058_RS00405 0.40 -1.3 80,606 + HMPREF1058_RS00405 0.40 +0.4 80,607 - HMPREF1058_RS00405 0.40 +0.2 80,664 + HMPREF1058_RS00405 0.44 -0.4 80,665 - HMPREF1058_RS00405 0.44 -1.5 80,665 - HMPREF1058_RS00405 0.44 -0.2 80,769 + HMPREF1058_RS00405 0.51 -0.9 80,770 - HMPREF1058_RS00405 0.51 +0.3 80,794 - HMPREF1058_RS00405 0.53 -0.0 80,859 + HMPREF1058_RS00405 0.57 -1.6 80,859 + HMPREF1058_RS00405 0.57 +0.2 80,861 + HMPREF1058_RS00405 0.57 +0.0 80,915 + HMPREF1058_RS00405 0.61 -1.5 80,920 + HMPREF1058_RS00405 0.61 +0.8 80,920 + HMPREF1058_RS00405 0.61 +0.4 80,921 - HMPREF1058_RS00405 0.61 -1.6 80,921 - HMPREF1058_RS00405 0.61 -2.4 80,921 - HMPREF1058_RS00405 0.61 -2.4 80,931 + HMPREF1058_RS00405 0.62 +0.9 80,932 - HMPREF1058_RS00405 0.62 -0.8 80,932 - HMPREF1058_RS00405 0.62 +1.8 80,935 + HMPREF1058_RS00405 0.62 +0.4 81,084 - HMPREF1058_RS00405 0.72 +0.5 81,123 - HMPREF1058_RS00405 0.75 -1.2 81,126 + HMPREF1058_RS00405 0.75 +0.8 81,127 - HMPREF1058_RS00405 0.75 +0.4 81,166 + HMPREF1058_RS00405 0.78 +1.6 81,196 + +0.8 81,197 - HMPREF1058_RS00405 0.80 +0.7 81,209 - HMPREF1058_RS00405 0.81 -1.8 81,209 - HMPREF1058_RS00405 0.81 -1.4 81,209 - HMPREF1058_RS00405 0.81 -2.4 81,219 + HMPREF1058_RS00405 0.81 -0.5 81,220 - HMPREF1058_RS00405 0.81 +2.4 81,225 + HMPREF1058_RS00405 0.82 -0.5 81,227 + HMPREF1058_RS00405 0.82 +0.4 81,227 + HMPREF1058_RS00405 0.82 +0.2 81,227 + HMPREF1058_RS00405 0.82 +1.1 81,251 - HMPREF1058_RS00405 0.83 +0.8 81,251 - HMPREF1058_RS00405 0.83 -2.5 81,269 + HMPREF1058_RS00405 0.85 +0.1 81,269 + HMPREF1058_RS00405 0.85 -2.0 81,269 + HMPREF1058_RS00405 0.85 -1.2 81,273 + HMPREF1058_RS00405 0.85 +0.8 81,273 + HMPREF1058_RS00405 0.85 +0.2 81,273 + HMPREF1058_RS00405 0.85 -2.1 81,273 + +0.8 81,274 - HMPREF1058_RS00405 0.85 -0.8 81,274 - HMPREF1058_RS00405 0.85 +0.8 81,277 + HMPREF1058_RS00405 0.85 +0.2 81,277 + HMPREF1058_RS00405 0.85 +0.5 81,277 + HMPREF1058_RS00405 0.85 -0.1 81,278 - HMPREF1058_RS00405 0.85 -1.9 81,278 - HMPREF1058_RS00405 0.85 -2.0 81,365 + -0.3 81,365 + -1.4 81,366 - +0.1 81,366 - +1.4 81,368 - +0.5 81,368 - -1.8 81,393 + +0.4 81,414 - -0.5 81,414 - -0.3 81,425 + +0.2 81,505 + -0.8 81,563 + +0.6 81,563 + -0.2 81,564 - -1.0 81,564 - -2.8 81,621 - -0.5 81,703 - HMPREF1058_RS00400 0.30 -3.7 81,777 + HMPREF1058_RS00400 0.50 -0.3 81,797 + HMPREF1058_RS00400 0.55 -1.6 81,798 - HMPREF1058_RS00400 0.55 -1.3 81,798 - HMPREF1058_RS00400 0.55 -1.2 81,804 - HMPREF1058_RS00400 0.57 -1.8 81,883 - HMPREF1058_RS00400 0.79 -1.4 81,884 + HMPREF1058_RS00400 0.79 +0.1 81,885 - HMPREF1058_RS00400 0.79 -1.0 81,923 - HMPREF1058_RS00400 0.90 -1.9 81,933 - -1.5 81,961 - +1.1 82,077 + HMPREF1058_RS00395 0.13 -0.4 82,121 + HMPREF1058_RS00395 0.18 -0.8 82,121 + HMPREF1058_RS00395 0.18 +0.1 82,150 - HMPREF1058_RS00395 0.22 +0.2 82,155 - HMPREF1058_RS00395 0.22 +0.3 82,155 - HMPREF1058_RS00395 0.22 -1.8 82,159 - HMPREF1058_RS00395 0.23 -2.1 82,181 + HMPREF1058_RS00395 0.25 +0.9 82,182 - HMPREF1058_RS00395 0.25 -3.2 82,187 + HMPREF1058_RS00395 0.26 -0.7 82,187 + HMPREF1058_RS00395 0.26 +1.1 82,238 + HMPREF1058_RS00395 0.31 -0.0 82,238 + HMPREF1058_RS00395 0.31 +0.3 82,239 - HMPREF1058_RS00395 0.32 +0.9 82,246 - HMPREF1058_RS00395 0.32 +0.5 82,250 + HMPREF1058_RS00395 0.33 +1.1 82,250 + HMPREF1058_RS00395 0.33 +0.1 82,250 + HMPREF1058_RS00395 0.33 -0.3 82,253 - HMPREF1058_RS00395 0.33 +0.7 82,253 - HMPREF1058_RS00395 0.33 +0.5 82,345 + HMPREF1058_RS00395 0.43 -0.2 82,345 + HMPREF1058_RS00395 0.43 -1.0 82,347 + HMPREF1058_RS00395 0.44 -1.2 82,348 - HMPREF1058_RS00395 0.44 +1.0 82,348 - HMPREF1058_RS00395 0.44 -1.8 82,385 + HMPREF1058_RS00395 0.48 -0.9 82,386 - HMPREF1058_RS00395 0.48 +2.1 82,389 + HMPREF1058_RS00395 0.48 +0.3 82,390 - HMPREF1058_RS00395 0.48 -1.2 82,417 - HMPREF1058_RS00395 0.51 +0.9 82,417 - HMPREF1058_RS00395 0.51 +0.8 82,506 + HMPREF1058_RS00395 0.61 +0.1 82,632 - HMPREF1058_RS00395 0.76 -1.5 82,664 - HMPREF1058_RS00395 0.79 +1.8 82,692 - HMPREF1058_RS00395 0.82 +0.9 82,694 - HMPREF1058_RS00395 0.82 -1.8 82,748 - HMPREF1058_RS00395 0.88 -2.8 82,861 + -0.1 82,861 + +1.3 82,867 - -2.6 82,867 - +0.4 82,867 - +0.6 82,922 + +0.5 82,922 + +0.9 82,923 - -0.3
Or see this region's nucleotide sequence