Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse14; day3
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_RS18990 and HMPREF1058_RS20345 are separated by 16 nucleotides HMPREF1058_RS20345 and HMPREF1058_RS20350 are separated by 237 nucleotides HMPREF1058_RS20350 and HMPREF1058_RS18980 are separated by 21 nucleotides HMPREF1058_RS18980 and HMPREF1058_RS18975 are separated by 19 nucleotides
HMPREF1058_RS18990: HMPREF1058_RS18990 - hypothetical protein, at 35,258 to 35,851
_RS18990
HMPREF1058_RS20345: HMPREF1058_RS20345 - helix-turn-helix domain-containing protein, at 35,868 to 36,080
_RS20345
HMPREF1058_RS20350: HMPREF1058_RS20350 - hypothetical protein, at 36,318 to 36,506
_RS20350
HMPREF1058_RS18980: HMPREF1058_RS18980 - SGNH/GDSL hydrolase family protein, at 36,528 to 37,451
_RS18980
HMPREF1058_RS18975: HMPREF1058_RS18975 - prolyl oligopeptidase family serine peptidase, at 37,471 to 39,582
_RS18975
Position (kb) 36
37
38 Strain fitness (log2 ratio) -2
-1
0
1
2 at 35.558 kb on + strand, within HMPREF1058_RS18990 at 35.558 kb on + strand, within HMPREF1058_RS18990 at 35.559 kb on - strand, within HMPREF1058_RS18990 at 35.590 kb on + strand, within HMPREF1058_RS18990 at 35.662 kb on - strand, within HMPREF1058_RS18990 at 35.684 kb on - strand, within HMPREF1058_RS18990 at 35.866 kb on + strand at 36.094 kb on - strand at 36.162 kb on + strand at 36.332 kb on + strand at 36.381 kb on - strand, within HMPREF1058_RS20350 at 36.382 kb on + strand, within HMPREF1058_RS20350 at 36.450 kb on - strand, within HMPREF1058_RS20350 at 36.478 kb on + strand, within HMPREF1058_RS20350 at 36.478 kb on + strand, within HMPREF1058_RS20350 at 36.586 kb on + strand at 36.586 kb on + strand at 36.586 kb on + strand at 36.587 kb on - strand at 36.587 kb on - strand at 36.587 kb on - strand at 36.638 kb on + strand, within HMPREF1058_RS18980 at 36.639 kb on - strand, within HMPREF1058_RS18980 at 36.701 kb on + strand, within HMPREF1058_RS18980 at 36.708 kb on + strand, within HMPREF1058_RS18980 at 36.709 kb on - strand, within HMPREF1058_RS18980 at 36.709 kb on - strand, within HMPREF1058_RS18980 at 36.715 kb on + strand, within HMPREF1058_RS18980 at 36.715 kb on + strand, within HMPREF1058_RS18980 at 36.715 kb on + strand, within HMPREF1058_RS18980 at 37.039 kb on + strand, within HMPREF1058_RS18980 at 37.040 kb on - strand, within HMPREF1058_RS18980 at 37.043 kb on + strand, within HMPREF1058_RS18980 at 37.044 kb on - strand, within HMPREF1058_RS18980 at 37.181 kb on - strand, within HMPREF1058_RS18980 at 37.181 kb on - strand, within HMPREF1058_RS18980 at 37.186 kb on - strand, within HMPREF1058_RS18980 at 37.452 kb on - strand at 37.467 kb on - strand at 37.593 kb on + strand at 37.626 kb on + strand at 37.645 kb on - strand at 37.767 kb on + strand, within HMPREF1058_RS18975 at 37.838 kb on + strand, within HMPREF1058_RS18975 at 37.849 kb on - strand, within HMPREF1058_RS18975 at 37.860 kb on - strand, within HMPREF1058_RS18975 at 38.192 kb on - strand, within HMPREF1058_RS18975 at 38.301 kb on + strand, within HMPREF1058_RS18975 at 38.302 kb on - strand, within HMPREF1058_RS18975
Per-strain Table
Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse14; day3 remove 35,558 + HMPREF1058_RS18990 0.51 -0.4 35,558 + HMPREF1058_RS18990 0.51 -0.3 35,559 - HMPREF1058_RS18990 0.51 +0.2 35,590 + HMPREF1058_RS18990 0.56 +0.7 35,662 - HMPREF1058_RS18990 0.68 +0.2 35,684 - HMPREF1058_RS18990 0.72 +0.4 35,866 + -1.2 36,094 - +0.3 36,162 + +0.6 36,332 + +0.1 36,381 - HMPREF1058_RS20350 0.33 -0.5 36,382 + HMPREF1058_RS20350 0.34 -2.1 36,450 - HMPREF1058_RS20350 0.70 -0.8 36,478 + HMPREF1058_RS20350 0.85 -0.4 36,478 + HMPREF1058_RS20350 0.85 -0.4 36,586 + -0.4 36,586 + +0.4 36,586 + -0.1 36,587 - -1.0 36,587 - -0.2 36,587 - +0.3 36,638 + HMPREF1058_RS18980 0.12 -0.1 36,639 - HMPREF1058_RS18980 0.12 -0.2 36,701 + HMPREF1058_RS18980 0.19 +0.2 36,708 + HMPREF1058_RS18980 0.19 +0.5 36,709 - HMPREF1058_RS18980 0.20 +0.7 36,709 - HMPREF1058_RS18980 0.20 +0.3 36,715 + HMPREF1058_RS18980 0.20 +0.2 36,715 + HMPREF1058_RS18980 0.20 +0.9 36,715 + HMPREF1058_RS18980 0.20 -0.1 37,039 + HMPREF1058_RS18980 0.55 -0.2 37,040 - HMPREF1058_RS18980 0.55 -2.1 37,043 + HMPREF1058_RS18980 0.56 +0.8 37,044 - HMPREF1058_RS18980 0.56 +0.1 37,181 - HMPREF1058_RS18980 0.71 +2.5 37,181 - HMPREF1058_RS18980 0.71 +1.2 37,186 - HMPREF1058_RS18980 0.71 +1.1 37,452 - -1.0 37,467 - +0.1 37,593 + -0.3 37,626 + -0.7 37,645 - +0.0 37,767 + HMPREF1058_RS18975 0.14 -1.2 37,838 + HMPREF1058_RS18975 0.17 -1.5 37,849 - HMPREF1058_RS18975 0.18 +0.2 37,860 - HMPREF1058_RS18975 0.18 +0.3 38,192 - HMPREF1058_RS18975 0.34 -0.0 38,301 + HMPREF1058_RS18975 0.39 -1.4 38,302 - HMPREF1058_RS18975 0.39 +0.2
Or see this region's nucleotide sequence