Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; day6
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_RS05720 and HMPREF1058_RS05715 are separated by 16 nucleotides HMPREF1058_RS05715 and HMPREF1058_RS05710 are separated by 72 nucleotides HMPREF1058_RS05710 and HMPREF1058_RS0119825 are separated by 51 nucleotides
HMPREF1058_RS05720: HMPREF1058_RS05720 - hypothetical protein, at 93,269 to 94,477
_RS05720
HMPREF1058_RS05715: HMPREF1058_RS05715 - hypothetical protein, at 94,494 to 95,021
_RS05715
HMPREF1058_RS05710: HMPREF1058_RS05710 - virulence RhuM family protein, at 95,094 to 96,089
_RS05710
HMPREF1058_RS0119825: HMPREF1058_RS0119825 - DEAD/DEAH box helicase, at 96,141 to 97,817
_RS0119825
Position (kb) 95
96
97 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3
4 at 94.117 kb on + strand, within HMPREF1058_RS05720 at 94.212 kb on - strand, within HMPREF1058_RS05720 at 94.401 kb on + strand at 94.482 kb on - strand at 94.482 kb on - strand at 94.595 kb on + strand, within HMPREF1058_RS05715 at 94.598 kb on - strand, within HMPREF1058_RS05715 at 94.634 kb on - strand, within HMPREF1058_RS05715 at 94.634 kb on - strand, within HMPREF1058_RS05715 at 94.635 kb on + strand at 94.637 kb on + strand, within HMPREF1058_RS05715 at 94.637 kb on + strand, within HMPREF1058_RS05715 at 94.637 kb on + strand, within HMPREF1058_RS05715 at 94.692 kb on - strand, within HMPREF1058_RS05715 at 94.854 kb on - strand, within HMPREF1058_RS05715 at 94.958 kb on + strand, within HMPREF1058_RS05715 at 94.979 kb on + strand at 94.988 kb on - strand at 94.988 kb on - strand at 95.013 kb on + strand at 95.067 kb on - strand at 95.073 kb on + strand at 95.073 kb on + strand at 95.110 kb on - strand at 95.130 kb on - strand at 95.168 kb on + strand at 95.173 kb on + strand at 95.173 kb on + strand at 95.291 kb on + strand, within HMPREF1058_RS05710 at 95.310 kb on - strand, within HMPREF1058_RS05710 at 95.312 kb on + strand, within HMPREF1058_RS05710 at 95.324 kb on + strand, within HMPREF1058_RS05710 at 95.324 kb on + strand, within HMPREF1058_RS05710 at 95.325 kb on - strand, within HMPREF1058_RS05710 at 95.417 kb on + strand, within HMPREF1058_RS05710 at 95.468 kb on + strand, within HMPREF1058_RS05710 at 95.486 kb on - strand, within HMPREF1058_RS05710 at 95.581 kb on + strand, within HMPREF1058_RS05710 at 95.603 kb on - strand, within HMPREF1058_RS05710 at 95.603 kb on - strand, within HMPREF1058_RS05710 at 95.604 kb on + strand, within HMPREF1058_RS05710 at 95.605 kb on - strand, within HMPREF1058_RS05710 at 95.605 kb on - strand, within HMPREF1058_RS05710 at 95.605 kb on - strand, within HMPREF1058_RS05710 at 95.631 kb on - strand, within HMPREF1058_RS05710 at 95.855 kb on + strand, within HMPREF1058_RS05710 at 95.856 kb on - strand, within HMPREF1058_RS05710 at 95.856 kb on - strand, within HMPREF1058_RS05710 at 95.857 kb on + strand, within HMPREF1058_RS05710 at 95.857 kb on + strand, within HMPREF1058_RS05710 at 95.857 kb on + strand, within HMPREF1058_RS05710 at 95.857 kb on + strand, within HMPREF1058_RS05710 at 95.859 kb on + strand, within HMPREF1058_RS05710 at 95.898 kb on + strand, within HMPREF1058_RS05710 at 95.913 kb on + strand, within HMPREF1058_RS05710 at 95.934 kb on - strand, within HMPREF1058_RS05710 at 96.027 kb on + strand at 96.028 kb on - strand at 96.031 kb on + strand at 96.032 kb on - strand at 96.033 kb on + strand at 96.061 kb on + strand at 96.061 kb on + strand at 96.061 kb on + strand at 96.104 kb on - strand at 96.105 kb on + strand at 96.106 kb on - strand at 96.112 kb on - strand at 96.150 kb on + strand at 96.151 kb on - strand at 96.151 kb on - strand at 96.226 kb on - strand at 96.226 kb on - strand at 96.228 kb on - strand at 96.311 kb on + strand, within HMPREF1058_RS0119825 at 96.312 kb on - strand, within HMPREF1058_RS0119825 at 96.345 kb on - strand, within HMPREF1058_RS0119825 at 96.345 kb on - strand, within HMPREF1058_RS0119825 at 96.348 kb on + strand, within HMPREF1058_RS0119825 at 96.380 kb on + strand, within HMPREF1058_RS0119825 at 96.440 kb on + strand, within HMPREF1058_RS0119825 at 96.565 kb on - strand, within HMPREF1058_RS0119825 at 96.566 kb on + strand, within HMPREF1058_RS0119825 at 96.611 kb on - strand, within HMPREF1058_RS0119825 at 96.611 kb on - strand, within HMPREF1058_RS0119825 at 96.611 kb on - strand, within HMPREF1058_RS0119825 at 96.621 kb on - strand, within HMPREF1058_RS0119825 at 96.621 kb on - strand, within HMPREF1058_RS0119825 at 96.630 kb on - strand, within HMPREF1058_RS0119825 at 96.659 kb on - strand, within HMPREF1058_RS0119825 at 96.727 kb on + strand, within HMPREF1058_RS0119825 at 96.727 kb on + strand, within HMPREF1058_RS0119825 at 96.728 kb on - strand, within HMPREF1058_RS0119825 at 96.751 kb on - strand, within HMPREF1058_RS0119825 at 96.924 kb on + strand, within HMPREF1058_RS0119825 at 96.925 kb on - strand, within HMPREF1058_RS0119825 at 96.925 kb on - strand, within HMPREF1058_RS0119825 at 96.978 kb on + strand, within HMPREF1058_RS0119825 at 96.978 kb on + strand, within HMPREF1058_RS0119825 at 97.006 kb on - strand, within HMPREF1058_RS0119825 at 97.016 kb on + strand, within HMPREF1058_RS0119825 at 97.017 kb on - strand, within HMPREF1058_RS0119825 at 97.017 kb on - strand, within HMPREF1058_RS0119825 at 97.035 kb on - strand, within HMPREF1058_RS0119825 at 97.036 kb on + strand, within HMPREF1058_RS0119825 at 97.036 kb on + strand, within HMPREF1058_RS0119825 at 97.040 kb on + strand, within HMPREF1058_RS0119825 at 97.073 kb on - strand, within HMPREF1058_RS0119825 at 97.073 kb on - strand, within HMPREF1058_RS0119825
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; day6 remove 94,117 + HMPREF1058_RS05720 0.70 -0.2 94,212 - HMPREF1058_RS05720 0.78 +1.8 94,401 + -0.1 94,482 - +0.0 94,482 - +3.0 94,595 + HMPREF1058_RS05715 0.19 +2.2 94,598 - HMPREF1058_RS05715 0.20 +1.6 94,634 - HMPREF1058_RS05715 0.27 -1.7 94,634 - HMPREF1058_RS05715 0.27 +1.0 94,635 + +0.0 94,637 + HMPREF1058_RS05715 0.27 -0.0 94,637 + HMPREF1058_RS05715 0.27 +1.7 94,637 + HMPREF1058_RS05715 0.27 +0.4 94,692 - HMPREF1058_RS05715 0.38 +3.0 94,854 - HMPREF1058_RS05715 0.68 -0.5 94,958 + HMPREF1058_RS05715 0.88 -1.7 94,979 + +0.5 94,988 - -0.4 94,988 - -1.7 95,013 + +2.4 95,067 - -2.0 95,073 + -2.1 95,073 + -1.1 95,110 - +0.9 95,130 - +2.7 95,168 + -1.0 95,173 + -1.3 95,173 + +1.2 95,291 + HMPREF1058_RS05710 0.20 +2.2 95,310 - HMPREF1058_RS05710 0.22 -3.1 95,312 + HMPREF1058_RS05710 0.22 +2.6 95,324 + HMPREF1058_RS05710 0.23 +1.1 95,324 + HMPREF1058_RS05710 0.23 +2.5 95,325 - HMPREF1058_RS05710 0.23 +0.3 95,417 + HMPREF1058_RS05710 0.32 -2.7 95,468 + HMPREF1058_RS05710 0.38 -1.2 95,486 - HMPREF1058_RS05710 0.39 +0.6 95,581 + HMPREF1058_RS05710 0.49 +0.4 95,603 - HMPREF1058_RS05710 0.51 +0.5 95,603 - HMPREF1058_RS05710 0.51 +0.7 95,604 + HMPREF1058_RS05710 0.51 -1.1 95,605 - HMPREF1058_RS05710 0.51 +1.2 95,605 - HMPREF1058_RS05710 0.51 +1.2 95,605 - HMPREF1058_RS05710 0.51 +1.3 95,631 - HMPREF1058_RS05710 0.54 +0.6 95,855 + HMPREF1058_RS05710 0.76 -0.5 95,856 - HMPREF1058_RS05710 0.77 -0.5 95,856 - HMPREF1058_RS05710 0.77 +1.0 95,857 + HMPREF1058_RS05710 0.77 +1.6 95,857 + HMPREF1058_RS05710 0.77 +2.2 95,857 + HMPREF1058_RS05710 0.77 -0.8 95,857 + HMPREF1058_RS05710 0.77 -0.7 95,859 + HMPREF1058_RS05710 0.77 -0.0 95,898 + HMPREF1058_RS05710 0.81 +0.2 95,913 + HMPREF1058_RS05710 0.82 +0.9 95,934 - HMPREF1058_RS05710 0.84 +2.4 96,027 + +0.3 96,028 - +3.6 96,031 + +1.2 96,032 - -0.0 96,033 + +0.6 96,061 + +0.4 96,061 + +0.5 96,061 + +0.6 96,104 - -3.2 96,105 + +1.4 96,106 - -0.1 96,112 - +3.3 96,150 + +2.6 96,151 - +0.8 96,151 - -0.2 96,226 - -0.1 96,226 - -0.7 96,228 - -0.4 96,311 + HMPREF1058_RS0119825 0.10 -0.1 96,312 - HMPREF1058_RS0119825 0.10 +4.1 96,345 - HMPREF1058_RS0119825 0.12 +1.0 96,345 - HMPREF1058_RS0119825 0.12 -0.4 96,348 + HMPREF1058_RS0119825 0.12 +1.7 96,380 + HMPREF1058_RS0119825 0.14 -2.0 96,440 + HMPREF1058_RS0119825 0.18 -0.4 96,565 - HMPREF1058_RS0119825 0.25 +1.0 96,566 + HMPREF1058_RS0119825 0.25 -1.4 96,611 - HMPREF1058_RS0119825 0.28 +2.4 96,611 - HMPREF1058_RS0119825 0.28 -0.1 96,611 - HMPREF1058_RS0119825 0.28 +0.2 96,621 - HMPREF1058_RS0119825 0.29 -0.6 96,621 - HMPREF1058_RS0119825 0.29 -1.4 96,630 - HMPREF1058_RS0119825 0.29 -1.2 96,659 - HMPREF1058_RS0119825 0.31 -1.3 96,727 + HMPREF1058_RS0119825 0.35 -1.0 96,727 + HMPREF1058_RS0119825 0.35 -3.1 96,728 - HMPREF1058_RS0119825 0.35 -2.8 96,751 - HMPREF1058_RS0119825 0.36 +0.0 96,924 + HMPREF1058_RS0119825 0.47 +0.6 96,925 - HMPREF1058_RS0119825 0.47 -2.6 96,925 - HMPREF1058_RS0119825 0.47 +2.6 96,978 + HMPREF1058_RS0119825 0.50 -0.8 96,978 + HMPREF1058_RS0119825 0.50 -1.1 97,006 - HMPREF1058_RS0119825 0.52 -3.6 97,016 + HMPREF1058_RS0119825 0.52 -0.4 97,017 - HMPREF1058_RS0119825 0.52 +0.4 97,017 - HMPREF1058_RS0119825 0.52 -1.7 97,035 - HMPREF1058_RS0119825 0.53 +1.5 97,036 + HMPREF1058_RS0119825 0.53 -1.8 97,036 + HMPREF1058_RS0119825 0.53 -2.3 97,040 + HMPREF1058_RS0119825 0.54 -1.1 97,073 - HMPREF1058_RS0119825 0.56 -0.4 97,073 - HMPREF1058_RS0119825 0.56 +0.3
Or see this region's nucleotide sequence