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_RS09190 and HMPREF1058_RS09185 are separated by 254 nucleotides HMPREF1058_RS09185 and HMPREF1058_RS09180 overlap by 4 nucleotides HMPREF1058_RS09180 and HMPREF1058_RS09175 overlap by 14 nucleotides
HMPREF1058_RS09190: HMPREF1058_RS09190 - hypothetical protein, at 918,743 to 919,414
_RS09190
HMPREF1058_RS09185: HMPREF1058_RS09185 - DUF4252 domain-containing protein, at 919,669 to 920,127
_RS09185
HMPREF1058_RS09180: HMPREF1058_RS09180 - hypothetical protein, at 920,124 to 920,654
_RS09180
HMPREF1058_RS09175: HMPREF1058_RS09175 - RNA polymerase sigma factor, at 920,641 to 921,153
_RS09175
Position (kb) 919
920
921 Strain fitness (log2 ratio) -5
-4
-3
-2
-1
0
1
2 at 918.705 kb on - strand at 918.729 kb on - strand at 918.733 kb on + strand at 918.961 kb on + strand, within HMPREF1058_RS09190 at 918.962 kb on - strand, within HMPREF1058_RS09190 at 918.962 kb on - strand, within HMPREF1058_RS09190 at 918.981 kb on - strand, within HMPREF1058_RS09190 at 918.999 kb on - strand, within HMPREF1058_RS09190 at 919.112 kb on - strand, within HMPREF1058_RS09190 at 919.219 kb on + strand, within HMPREF1058_RS09190 at 919.252 kb on + strand, within HMPREF1058_RS09190 at 919.252 kb on + strand, within HMPREF1058_RS09190 at 919.253 kb on - strand, within HMPREF1058_RS09190 at 919.253 kb on - strand, within HMPREF1058_RS09190 at 919.253 kb on - strand, within HMPREF1058_RS09190 at 919.273 kb on - strand, within HMPREF1058_RS09190 at 919.469 kb on + strand at 919.469 kb on + strand at 919.470 kb on - strand at 919.486 kb on - strand at 919.516 kb on + strand at 919.516 kb on + strand at 919.559 kb on - strand at 919.602 kb on - strand at 919.604 kb on + strand at 919.604 kb on + strand at 919.605 kb on - strand at 919.605 kb on - strand at 919.606 kb on + strand at 919.606 kb on + strand at 919.606 kb on + strand at 919.606 kb on + strand at 919.606 kb on + strand at 919.607 kb on - strand at 919.607 kb on - strand at 919.627 kb on - strand at 919.693 kb on + strand at 919.948 kb on + strand, within HMPREF1058_RS09185 at 919.957 kb on + strand, within HMPREF1058_RS09185 at 919.958 kb on - strand, within HMPREF1058_RS09185 at 919.959 kb on + strand, within HMPREF1058_RS09185 at 919.959 kb on + strand, within HMPREF1058_RS09185 at 919.959 kb on + strand, within HMPREF1058_RS09185 at 920.015 kb on + strand, within HMPREF1058_RS09185 at 920.015 kb on + strand, within HMPREF1058_RS09185 at 920.073 kb on - strand, within HMPREF1058_RS09185 at 920.112 kb on + strand at 920.112 kb on + strand at 920.113 kb on - strand at 920.113 kb on - strand at 920.114 kb on + strand at 920.246 kb on + strand, within HMPREF1058_RS09180 at 920.247 kb on - strand, within HMPREF1058_RS09180 at 920.247 kb on - strand, within HMPREF1058_RS09180 at 920.247 kb on - strand, within HMPREF1058_RS09180 at 920.247 kb on - strand, within HMPREF1058_RS09180 at 920.247 kb on - strand, within HMPREF1058_RS09180 at 920.265 kb on + strand, within HMPREF1058_RS09180 at 920.270 kb on - strand, within HMPREF1058_RS09180 at 920.320 kb on + strand, within HMPREF1058_RS09180 at 920.323 kb on - strand, within HMPREF1058_RS09180 at 920.539 kb on - strand, within HMPREF1058_RS09180 at 920.614 kb on + strand at 920.615 kb on - strand at 920.628 kb on + strand at 920.655 kb on - strand at 920.662 kb on + strand at 920.670 kb on + strand at 920.672 kb on + strand at 920.672 kb on + strand at 920.672 kb on + strand at 920.716 kb on + strand, within HMPREF1058_RS09175 at 920.717 kb on - strand, within HMPREF1058_RS09175 at 920.750 kb on - strand, within HMPREF1058_RS09175 at 921.054 kb on + strand, within HMPREF1058_RS09175 at 921.055 kb on - strand, within HMPREF1058_RS09175 at 921.116 kb on + strand
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4 remove 918,705 - +0.1 918,729 - +0.4 918,733 + +2.2 918,961 + HMPREF1058_RS09190 0.32 -0.3 918,962 - HMPREF1058_RS09190 0.33 -0.8 918,962 - HMPREF1058_RS09190 0.33 -0.3 918,981 - HMPREF1058_RS09190 0.35 -1.1 918,999 - HMPREF1058_RS09190 0.38 +0.9 919,112 - HMPREF1058_RS09190 0.55 +0.8 919,219 + HMPREF1058_RS09190 0.71 +0.8 919,252 + HMPREF1058_RS09190 0.76 +0.2 919,252 + HMPREF1058_RS09190 0.76 +0.1 919,253 - HMPREF1058_RS09190 0.76 +0.4 919,253 - HMPREF1058_RS09190 0.76 -0.1 919,253 - HMPREF1058_RS09190 0.76 +0.1 919,273 - HMPREF1058_RS09190 0.79 +0.1 919,469 + -0.1 919,469 + +1.8 919,470 - +1.4 919,486 - +1.7 919,516 + -0.1 919,516 + -2.6 919,559 - -0.3 919,602 - -1.1 919,604 + -0.1 919,604 + -1.1 919,605 - -0.3 919,605 - -1.4 919,606 + -0.3 919,606 + +0.2 919,606 + -1.3 919,606 + -1.5 919,606 + +0.1 919,607 - +2.5 919,607 - +0.4 919,627 - +2.2 919,693 + -1.0 919,948 + HMPREF1058_RS09185 0.61 -3.3 919,957 + HMPREF1058_RS09185 0.63 -1.3 919,958 - HMPREF1058_RS09185 0.63 -1.3 919,959 + HMPREF1058_RS09185 0.63 -3.4 919,959 + HMPREF1058_RS09185 0.63 -4.0 919,959 + HMPREF1058_RS09185 0.63 -1.9 920,015 + HMPREF1058_RS09185 0.75 -2.3 920,015 + HMPREF1058_RS09185 0.75 -3.6 920,073 - HMPREF1058_RS09185 0.88 -2.9 920,112 + -3.1 920,112 + -2.9 920,113 - -1.9 920,113 - -1.3 920,114 + -2.9 920,246 + HMPREF1058_RS09180 0.23 -3.9 920,247 - HMPREF1058_RS09180 0.23 -2.3 920,247 - HMPREF1058_RS09180 0.23 -3.7 920,247 - HMPREF1058_RS09180 0.23 -3.4 920,247 - HMPREF1058_RS09180 0.23 -4.8 920,247 - HMPREF1058_RS09180 0.23 -3.6 920,265 + HMPREF1058_RS09180 0.27 -4.2 920,270 - HMPREF1058_RS09180 0.27 -3.3 920,320 + HMPREF1058_RS09180 0.37 -3.7 920,323 - HMPREF1058_RS09180 0.37 -5.2 920,539 - HMPREF1058_RS09180 0.78 -1.9 920,614 + -3.3 920,615 - -2.3 920,628 + -1.9 920,655 - +0.2 920,662 + +1.4 920,670 + +1.7 920,672 + +1.9 920,672 + +1.1 920,672 + -3.1 920,716 + HMPREF1058_RS09175 0.15 -0.8 920,717 - HMPREF1058_RS09175 0.15 +0.4 920,750 - HMPREF1058_RS09175 0.21 +1.3 921,054 + HMPREF1058_RS09175 0.81 +2.6 921,055 - HMPREF1058_RS09175 0.81 -3.4 921,116 + -1.8
Or see this region's nucleotide sequence