Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; 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_RS15870 and HMPREF1058_RS15865 are separated by 228 nucleotides HMPREF1058_RS15865 and HMPREF1058_RS15860 are separated by 10 nucleotides HMPREF1058_RS15860 and HMPREF1058_RS15855 are separated by 105 nucleotides
HMPREF1058_RS15870: HMPREF1058_RS15870 - ATP phosphoribosyltransferase, at 817,320 to 818,171
_RS15870
HMPREF1058_RS15865: HMPREF1058_RS15865 - PaaI family thioesterase, at 818,400 to 818,891
_RS15865
HMPREF1058_RS15860: HMPREF1058_RS15860 - Dabb family protein, at 818,902 to 819,201
_RS15860
HMPREF1058_RS15855: HMPREF1058_RS15855 - uridine kinase, at 819,307 to 819,918
_RS15855
Position (kb) 818
819 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3
4 at 817.421 kb on + strand, within HMPREF1058_RS15870 at 817.421 kb on + strand, within HMPREF1058_RS15870 at 817.421 kb on + strand, within HMPREF1058_RS15870 at 817.422 kb on - strand, within HMPREF1058_RS15870 at 817.422 kb on - strand, within HMPREF1058_RS15870 at 817.535 kb on - strand, within HMPREF1058_RS15870 at 817.535 kb on - strand, within HMPREF1058_RS15870 at 817.620 kb on - strand, within HMPREF1058_RS15870 at 817.688 kb on + strand, within HMPREF1058_RS15870 at 817.689 kb on - strand, within HMPREF1058_RS15870 at 817.689 kb on - strand, within HMPREF1058_RS15870 at 817.715 kb on + strand, within HMPREF1058_RS15870 at 817.822 kb on + strand, within HMPREF1058_RS15870 at 817.839 kb on - strand, within HMPREF1058_RS15870 at 817.881 kb on - strand, within HMPREF1058_RS15870 at 817.881 kb on - strand, within HMPREF1058_RS15870 at 817.884 kb on + strand, within HMPREF1058_RS15870 at 818.064 kb on + strand, within HMPREF1058_RS15870 at 818.204 kb on + strand at 818.215 kb on + strand at 818.242 kb on + strand at 818.242 kb on + strand at 818.244 kb on + strand at 818.247 kb on + strand at 818.247 kb on + strand at 818.248 kb on - strand at 818.248 kb on - strand at 818.355 kb on - strand at 818.407 kb on - strand at 818.526 kb on - strand, within HMPREF1058_RS15865 at 818.531 kb on - strand, within HMPREF1058_RS15865 at 818.550 kb on + strand, within HMPREF1058_RS15865 at 818.556 kb on - strand, within HMPREF1058_RS15865 at 818.648 kb on + strand, within HMPREF1058_RS15865 at 818.732 kb on + strand, within HMPREF1058_RS15865 at 818.774 kb on + strand, within HMPREF1058_RS15865 at 818.774 kb on + strand, within HMPREF1058_RS15865 at 818.779 kb on - strand, within HMPREF1058_RS15865 at 818.849 kb on + strand at 818.849 kb on + strand at 818.850 kb on - strand at 818.891 kb on + strand at 818.903 kb on + strand at 818.913 kb on - strand at 819.074 kb on - strand, within HMPREF1058_RS15860 at 819.074 kb on - strand, within HMPREF1058_RS15860 at 819.084 kb on + strand, within HMPREF1058_RS15860 at 819.091 kb on + strand, within HMPREF1058_RS15860 at 819.124 kb on - strand, within HMPREF1058_RS15860 at 819.226 kb on + strand at 819.258 kb on + strand at 819.300 kb on + strand at 819.300 kb on + strand at 819.300 kb on + strand at 819.301 kb on - strand at 819.307 kb on - strand at 819.312 kb on - strand at 819.357 kb on - strand at 819.418 kb on + strand, within HMPREF1058_RS15855 at 819.419 kb on - strand, within HMPREF1058_RS15855 at 819.421 kb on + strand, within HMPREF1058_RS15855 at 819.421 kb on + strand, within HMPREF1058_RS15855 at 819.422 kb on - strand, within HMPREF1058_RS15855 at 819.424 kb on - strand, within HMPREF1058_RS15855 at 819.456 kb on + strand, within HMPREF1058_RS15855 at 819.562 kb on + strand, within HMPREF1058_RS15855 at 819.563 kb on - strand, within HMPREF1058_RS15855 at 819.566 kb on + strand, within HMPREF1058_RS15855 at 819.566 kb on + strand, within HMPREF1058_RS15855 at 819.569 kb on + strand, within HMPREF1058_RS15855 at 819.569 kb on + strand at 819.573 kb on + strand, within HMPREF1058_RS15855 at 819.643 kb on + strand, within HMPREF1058_RS15855 at 819.819 kb on + strand, within HMPREF1058_RS15855 at 819.819 kb on + strand, within HMPREF1058_RS15855 at 819.841 kb on - strand, within HMPREF1058_RS15855 at 819.841 kb on - strand, within HMPREF1058_RS15855 at 819.844 kb on - strand, within HMPREF1058_RS15855 at 819.890 kb on + strand
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day4 remove 817,421 + HMPREF1058_RS15870 0.12 -2.4 817,421 + HMPREF1058_RS15870 0.12 -2.7 817,421 + HMPREF1058_RS15870 0.12 -0.1 817,422 - HMPREF1058_RS15870 0.12 -0.7 817,422 - HMPREF1058_RS15870 0.12 +0.1 817,535 - HMPREF1058_RS15870 0.25 +0.2 817,535 - HMPREF1058_RS15870 0.25 -1.1 817,620 - HMPREF1058_RS15870 0.35 +1.1 817,688 + HMPREF1058_RS15870 0.43 +0.1 817,689 - HMPREF1058_RS15870 0.43 +0.4 817,689 - HMPREF1058_RS15870 0.43 -0.1 817,715 + HMPREF1058_RS15870 0.46 -1.8 817,822 + HMPREF1058_RS15870 0.59 -1.5 817,839 - HMPREF1058_RS15870 0.61 +1.7 817,881 - HMPREF1058_RS15870 0.66 -2.1 817,881 - HMPREF1058_RS15870 0.66 -1.1 817,884 + HMPREF1058_RS15870 0.66 -1.3 818,064 + HMPREF1058_RS15870 0.87 +0.7 818,204 + -2.7 818,215 + +0.2 818,242 + +0.0 818,242 + +0.3 818,244 + -3.4 818,247 + +0.3 818,247 + +2.2 818,248 - +0.2 818,248 - +0.2 818,355 - +1.1 818,407 - +0.5 818,526 - HMPREF1058_RS15865 0.26 +0.6 818,531 - HMPREF1058_RS15865 0.27 +0.1 818,550 + HMPREF1058_RS15865 0.30 +0.8 818,556 - HMPREF1058_RS15865 0.32 +1.5 818,648 + HMPREF1058_RS15865 0.50 +0.9 818,732 + HMPREF1058_RS15865 0.67 +0.3 818,774 + HMPREF1058_RS15865 0.76 +4.1 818,774 + HMPREF1058_RS15865 0.76 +1.6 818,779 - HMPREF1058_RS15865 0.77 +0.1 818,849 + -0.1 818,849 + -0.1 818,850 - -1.1 818,891 + -1.7 818,903 + +1.4 818,913 - +1.9 819,074 - HMPREF1058_RS15860 0.57 -2.1 819,074 - HMPREF1058_RS15860 0.57 -0.9 819,084 + HMPREF1058_RS15860 0.61 -1.4 819,091 + HMPREF1058_RS15860 0.63 -0.5 819,124 - HMPREF1058_RS15860 0.74 +1.9 819,226 + -0.7 819,258 + -0.1 819,300 + +1.2 819,300 + -1.6 819,300 + +0.7 819,301 - +0.1 819,307 - +0.1 819,312 - -0.5 819,357 - -0.3 819,418 + HMPREF1058_RS15855 0.18 +1.1 819,419 - HMPREF1058_RS15855 0.18 +1.0 819,421 + HMPREF1058_RS15855 0.19 +0.2 819,421 + HMPREF1058_RS15855 0.19 +1.5 819,422 - HMPREF1058_RS15855 0.19 -1.7 819,424 - HMPREF1058_RS15855 0.19 -0.8 819,456 + HMPREF1058_RS15855 0.24 +1.1 819,562 + HMPREF1058_RS15855 0.42 -0.5 819,563 - HMPREF1058_RS15855 0.42 +3.1 819,566 + HMPREF1058_RS15855 0.42 +1.0 819,566 + HMPREF1058_RS15855 0.42 +1.8 819,569 + HMPREF1058_RS15855 0.43 +0.9 819,569 + +0.9 819,573 + HMPREF1058_RS15855 0.43 +0.7 819,643 + HMPREF1058_RS15855 0.55 -1.8 819,819 + HMPREF1058_RS15855 0.84 -3.6 819,819 + HMPREF1058_RS15855 0.84 +2.2 819,841 - HMPREF1058_RS15855 0.87 +0.3 819,841 - HMPREF1058_RS15855 0.87 +1.2 819,844 - HMPREF1058_RS15855 0.88 -1.0 819,890 + -0.1
Or see this region's nucleotide sequence