Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; 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_RS01935 and HMPREF1058_RS01930 are separated by 166 nucleotides HMPREF1058_RS01930 and HMPREF1058_RS01925 are separated by 4 nucleotides HMPREF1058_RS01925 and HMPREF1058_RS01920 are separated by 174 nucleotides HMPREF1058_RS01920 and HMPREF1058_RS01915 are separated by 4 nucleotides
HMPREF1058_RS01935: HMPREF1058_RS01935 - phage portal protein, at 11,482 to 12,975
_RS01935
HMPREF1058_RS01930: HMPREF1058_RS01930 - type II toxin-antitoxin system HigB family toxin, at 13,142 to 13,435
_RS01930
HMPREF1058_RS01925: HMPREF1058_RS01925 - helix-turn-helix domain-containing protein, at 13,440 to 13,805
_RS01925
HMPREF1058_RS01920: HMPREF1058_RS01920 - hypothetical protein, at 13,980 to 14,615
_RS01920
HMPREF1058_RS01915: HMPREF1058_RS01915 - hypothetical protein, at 14,620 to 15,471
_RS01915
Position (kb) 13
14 Strain fitness (log2 ratio) -2
-1
0
1
2
3
4
5 at 12.543 kb on + strand, within HMPREF1058_RS01935 at 12.619 kb on - strand, within HMPREF1058_RS01935 at 12.637 kb on - strand, within HMPREF1058_RS01935 at 12.637 kb on - strand, within HMPREF1058_RS01935 at 12.736 kb on - strand, within HMPREF1058_RS01935 at 12.784 kb on - strand, within HMPREF1058_RS01935 at 12.784 kb on - strand, within HMPREF1058_RS01935 at 12.804 kb on + strand, within HMPREF1058_RS01935 at 13.007 kb on - strand at 13.007 kb on - strand at 13.112 kb on + strand at 13.112 kb on + strand at 13.149 kb on + strand at 13.175 kb on + strand, within HMPREF1058_RS01930 at 13.264 kb on + strand, within HMPREF1058_RS01930 at 13.293 kb on + strand, within HMPREF1058_RS01930 at 13.293 kb on + strand, within HMPREF1058_RS01930 at 13.330 kb on + strand, within HMPREF1058_RS01930 at 13.334 kb on + strand, within HMPREF1058_RS01930 at 13.376 kb on + strand, within HMPREF1058_RS01930 at 13.640 kb on + strand, within HMPREF1058_RS01925 at 13.640 kb on + strand, within HMPREF1058_RS01925 at 13.803 kb on + strand at 13.807 kb on + strand at 13.808 kb on - strand at 13.907 kb on - strand at 13.947 kb on - strand at 13.980 kb on - strand at 13.991 kb on - strand at 14.146 kb on - strand, within HMPREF1058_RS01920 at 14.194 kb on - strand, within HMPREF1058_RS01920 at 14.265 kb on - strand, within HMPREF1058_RS01920 at 14.398 kb on - strand, within HMPREF1058_RS01920 at 14.711 kb on - strand, within HMPREF1058_RS01915 at 14.747 kb on - strand, within HMPREF1058_RS01915
Per-strain Table
Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; day4 remove 12,543 + HMPREF1058_RS01935 0.71 +1.1 12,619 - HMPREF1058_RS01935 0.76 +0.6 12,637 - HMPREF1058_RS01935 0.77 +1.7 12,637 - HMPREF1058_RS01935 0.77 +3.0 12,736 - HMPREF1058_RS01935 0.84 +1.1 12,784 - HMPREF1058_RS01935 0.87 +2.2 12,784 - HMPREF1058_RS01935 0.87 +0.3 12,804 + HMPREF1058_RS01935 0.88 +0.9 13,007 - -0.3 13,007 - -0.5 13,112 + +1.8 13,112 + -1.1 13,149 + +1.1 13,175 + HMPREF1058_RS01930 0.11 +3.6 13,264 + HMPREF1058_RS01930 0.41 +2.9 13,293 + HMPREF1058_RS01930 0.51 -2.3 13,293 + HMPREF1058_RS01930 0.51 +1.1 13,330 + HMPREF1058_RS01930 0.64 +3.9 13,334 + HMPREF1058_RS01930 0.65 +2.5 13,376 + HMPREF1058_RS01930 0.80 +0.6 13,640 + HMPREF1058_RS01925 0.55 +2.0 13,640 + HMPREF1058_RS01925 0.55 +1.0 13,803 + +1.2 13,807 + -0.3 13,808 - +2.6 13,907 - +1.9 13,947 - +0.3 13,980 - +2.8 13,991 - +1.2 14,146 - HMPREF1058_RS01920 0.26 +1.2 14,194 - HMPREF1058_RS01920 0.34 +3.0 14,265 - HMPREF1058_RS01920 0.45 -0.1 14,398 - HMPREF1058_RS01920 0.66 +0.4 14,711 - HMPREF1058_RS01915 0.11 +5.2 14,747 - HMPREF1058_RS01915 0.15 +2.2
Or see this region's nucleotide sequence