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_RS17560 and HMPREF1058_RS21405 are separated by 5 nucleotides HMPREF1058_RS21405 and HMPREF1058_RS17555 overlap by 28 nucleotides HMPREF1058_RS17555 and HMPREF1058_RS17550 overlap by 1 nucleotides
HMPREF1058_RS17560: HMPREF1058_RS17560 - phage integrase SAM-like domain-containing protein, at 397,251 to 398,306
_RS17560
HMPREF1058_RS21405: HMPREF1058_RS21405 - hypothetical protein, at 398,312 to 398,536
_RS21405
HMPREF1058_RS17555: HMPREF1058_RS17555 - hypothetical protein, at 398,509 to 398,727
_RS17555
HMPREF1058_RS17550: HMPREF1058_RS17550 - caspase family protein, at 398,727 to 400,283
_RS17550
Position (kb) 398
399 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3 at 397.374 kb on + strand, within HMPREF1058_RS17560 at 397.558 kb on - strand, within HMPREF1058_RS17560 at 397.818 kb on + strand, within HMPREF1058_RS17560 at 397.818 kb on + strand, within HMPREF1058_RS17560 at 397.818 kb on + strand, within HMPREF1058_RS17560 at 397.840 kb on + strand, within HMPREF1058_RS17560 at 397.841 kb on - strand, within HMPREF1058_RS17560 at 397.844 kb on - strand, within HMPREF1058_RS17560 at 397.872 kb on + strand, within HMPREF1058_RS17560 at 397.893 kb on - strand, within HMPREF1058_RS17560 at 398.065 kb on + strand, within HMPREF1058_RS17560 at 398.239 kb on + strand at 398.249 kb on + strand at 398.371 kb on - strand, within HMPREF1058_RS21405 at 398.454 kb on - strand, within HMPREF1058_RS21405 at 398.542 kb on + strand, within HMPREF1058_RS17555 at 398.543 kb on - strand, within HMPREF1058_RS17555 at 398.543 kb on - strand, within HMPREF1058_RS17555 at 398.545 kb on - strand, within HMPREF1058_RS17555 at 398.608 kb on + strand, within HMPREF1058_RS17555 at 398.608 kb on + strand, within HMPREF1058_RS17555 at 398.664 kb on - strand, within HMPREF1058_RS17555 at 398.664 kb on - strand, within HMPREF1058_RS17555 at 398.676 kb on - strand, within HMPREF1058_RS17555 at 398.728 kb on + strand at 398.728 kb on + strand at 398.729 kb on - strand at 398.748 kb on + strand at 398.775 kb on + strand at 398.788 kb on - strand at 398.795 kb on + strand at 398.795 kb on + strand at 398.795 kb on + strand at 398.796 kb on - strand at 398.796 kb on - strand at 398.796 kb on - strand at 398.797 kb on + strand at 398.798 kb on - strand at 398.798 kb on - strand at 398.799 kb on + strand at 398.799 kb on + strand at 398.799 kb on + strand at 398.800 kb on - strand at 398.800 kb on - strand at 398.800 kb on - strand at 398.824 kb on - strand at 398.831 kb on + strand at 398.834 kb on + strand at 398.851 kb on - strand at 398.862 kb on + strand at 398.867 kb on + strand at 398.867 kb on + strand at 398.910 kb on - strand, within HMPREF1058_RS17550 at 398.914 kb on - strand, within HMPREF1058_RS17550 at 398.914 kb on - strand, within HMPREF1058_RS17550 at 398.925 kb on + strand, within HMPREF1058_RS17550 at 398.926 kb on - strand, within HMPREF1058_RS17550 at 398.947 kb on - strand, within HMPREF1058_RS17550 at 398.976 kb on + strand, within HMPREF1058_RS17550 at 398.977 kb on - strand, within HMPREF1058_RS17550 at 398.985 kb on + strand, within HMPREF1058_RS17550 at 398.990 kb on + strand, within HMPREF1058_RS17550 at 398.990 kb on + strand, within HMPREF1058_RS17550 at 399.029 kb on - strand, within HMPREF1058_RS17550 at 399.033 kb on + strand, within HMPREF1058_RS17550 at 399.087 kb on + strand, within HMPREF1058_RS17550 at 399.105 kb on - strand at 399.105 kb on - strand, within HMPREF1058_RS17550 at 399.119 kb on + strand, within HMPREF1058_RS17550 at 399.119 kb on + strand, within HMPREF1058_RS17550 at 399.124 kb on - strand, within HMPREF1058_RS17550 at 399.187 kb on - strand, within HMPREF1058_RS17550 at 399.199 kb on - strand, within HMPREF1058_RS17550 at 399.294 kb on + strand, within HMPREF1058_RS17550 at 399.370 kb on - strand, within HMPREF1058_RS17550
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day4 remove 397,374 + HMPREF1058_RS17560 0.12 +1.5 397,558 - HMPREF1058_RS17560 0.29 -0.2 397,818 + HMPREF1058_RS17560 0.54 +0.1 397,818 + HMPREF1058_RS17560 0.54 -0.2 397,818 + HMPREF1058_RS17560 0.54 +0.9 397,840 + HMPREF1058_RS17560 0.56 -0.7 397,841 - HMPREF1058_RS17560 0.56 +1.5 397,844 - HMPREF1058_RS17560 0.56 +0.9 397,872 + HMPREF1058_RS17560 0.59 -1.6 397,893 - HMPREF1058_RS17560 0.61 -2.1 398,065 + HMPREF1058_RS17560 0.77 +0.3 398,239 + +1.4 398,249 + -0.7 398,371 - HMPREF1058_RS21405 0.26 +2.3 398,454 - HMPREF1058_RS21405 0.63 -3.1 398,542 + HMPREF1058_RS17555 0.15 +0.2 398,543 - HMPREF1058_RS17555 0.16 +1.2 398,543 - HMPREF1058_RS17555 0.16 -0.3 398,545 - HMPREF1058_RS17555 0.16 -0.0 398,608 + HMPREF1058_RS17555 0.45 -0.0 398,608 + HMPREF1058_RS17555 0.45 -1.0 398,664 - HMPREF1058_RS17555 0.71 +0.1 398,664 - HMPREF1058_RS17555 0.71 -2.6 398,676 - HMPREF1058_RS17555 0.76 +0.5 398,728 + -0.0 398,728 + -1.5 398,729 - -1.0 398,748 + +3.7 398,775 + -0.0 398,788 - -1.8 398,795 + +1.0 398,795 + +0.6 398,795 + +0.2 398,796 - +0.7 398,796 - -1.0 398,796 - -1.4 398,797 + +2.2 398,798 - +0.4 398,798 - -2.0 398,799 + +2.7 398,799 + +0.9 398,799 + -2.5 398,800 - -1.0 398,800 - +0.6 398,800 - +1.0 398,824 - +0.6 398,831 + +2.2 398,834 + +0.4 398,851 - -1.6 398,862 + +1.0 398,867 + -1.6 398,867 + +1.5 398,910 - HMPREF1058_RS17550 0.12 -1.7 398,914 - HMPREF1058_RS17550 0.12 -1.2 398,914 - HMPREF1058_RS17550 0.12 +1.1 398,925 + HMPREF1058_RS17550 0.13 +1.5 398,926 - HMPREF1058_RS17550 0.13 -0.2 398,947 - HMPREF1058_RS17550 0.14 +1.5 398,976 + HMPREF1058_RS17550 0.16 +0.6 398,977 - HMPREF1058_RS17550 0.16 -0.0 398,985 + HMPREF1058_RS17550 0.17 -1.3 398,990 + HMPREF1058_RS17550 0.17 -1.4 398,990 + HMPREF1058_RS17550 0.17 +2.3 399,029 - HMPREF1058_RS17550 0.19 -0.8 399,033 + HMPREF1058_RS17550 0.20 -1.0 399,087 + HMPREF1058_RS17550 0.23 +0.3 399,105 - -1.0 399,105 - HMPREF1058_RS17550 0.24 +0.4 399,119 + HMPREF1058_RS17550 0.25 +1.6 399,119 + HMPREF1058_RS17550 0.25 -0.4 399,124 - HMPREF1058_RS17550 0.25 -0.8 399,187 - HMPREF1058_RS17550 0.30 -0.0 399,199 - HMPREF1058_RS17550 0.30 +0.4 399,294 + HMPREF1058_RS17550 0.36 +1.3 399,370 - HMPREF1058_RS17550 0.41 +1.8
Or see this region's nucleotide sequence