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_RS21375 and HMPREF1058_RS01885 overlap by 4 nucleotides HMPREF1058_RS01885 and HMPREF1058_RS01880 are separated by 4 nucleotides HMPREF1058_RS01880 and HMPREF1058_RS01875 are separated by 259 nucleotides HMPREF1058_RS01875 and HMPREF1058_RS21185 overlap by 88 nucleotides HMPREF1058_RS21185 and HMPREF1058_RS01870 are separated by 2 nucleotides
HMPREF1058_RS21375: HMPREF1058_RS21375 - DUF2829 domain-containing protein, at 17,490 to 18,203
_RS21375
HMPREF1058_RS01885: HMPREF1058_RS01885 - hypothetical protein, at 18,200 to 18,595
_RS01885
HMPREF1058_RS01880: HMPREF1058_RS01880 - hypothetical protein, at 18,600 to 19,154
_RS01880
HMPREF1058_RS01875: HMPREF1058_RS01875 - hypothetical protein, at 19,414 to 19,800
_RS01875
HMPREF1058_RS21185: HMPREF1058_RS21185 - hypothetical protein, at 19,713 to 19,994
_RS21185
HMPREF1058_RS01870: HMPREF1058_RS01870 - tape measure protein, at 19,997 to 24,631
_RS01870
Position (kb) 18
19
20 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3
4 at 17.622 kb on - strand, within HMPREF1058_RS21375 at 17.626 kb on - strand, within HMPREF1058_RS21375 at 17.691 kb on - strand, within HMPREF1058_RS21375 at 17.714 kb on - strand, within HMPREF1058_RS21375 at 17.743 kb on + strand, within HMPREF1058_RS21375 at 17.795 kb on + strand, within HMPREF1058_RS21375 at 17.796 kb on - strand, within HMPREF1058_RS21375 at 17.800 kb on - strand, within HMPREF1058_RS21375 at 17.831 kb on + strand, within HMPREF1058_RS21375 at 17.845 kb on - strand, within HMPREF1058_RS21375 at 17.846 kb on + strand, within HMPREF1058_RS21375 at 17.849 kb on - strand, within HMPREF1058_RS21375 at 17.849 kb on - strand, within HMPREF1058_RS21375 at 17.877 kb on - strand, within HMPREF1058_RS21375 at 17.902 kb on + strand, within HMPREF1058_RS21375 at 17.906 kb on - strand, within HMPREF1058_RS21375 at 17.906 kb on - strand, within HMPREF1058_RS21375 at 17.928 kb on - strand, within HMPREF1058_RS21375 at 17.928 kb on - strand, within HMPREF1058_RS21375 at 17.928 kb on - strand, within HMPREF1058_RS21375 at 17.960 kb on + strand, within HMPREF1058_RS21375 at 18.117 kb on - strand, within HMPREF1058_RS21375 at 18.121 kb on - strand, within HMPREF1058_RS21375 at 18.173 kb on - strand at 18.220 kb on - strand at 18.258 kb on + strand, within HMPREF1058_RS01885 at 18.379 kb on - strand, within HMPREF1058_RS01885 at 18.466 kb on - strand, within HMPREF1058_RS01885 at 18.466 kb on - strand, within HMPREF1058_RS01885 at 18.468 kb on + strand, within HMPREF1058_RS01885 at 18.469 kb on - strand at 18.469 kb on - strand, within HMPREF1058_RS01885 at 18.484 kb on + strand, within HMPREF1058_RS01885 at 18.492 kb on - strand, within HMPREF1058_RS01885 at 18.548 kb on + strand, within HMPREF1058_RS01885 at 18.567 kb on + strand at 18.594 kb on - strand at 18.599 kb on + strand at 18.862 kb on - strand, within HMPREF1058_RS01880 at 18.862 kb on - strand, within HMPREF1058_RS01880 at 18.954 kb on - strand, within HMPREF1058_RS01880 at 19.113 kb on + strand at 19.115 kb on + strand at 19.116 kb on - strand at 19.116 kb on - strand at 19.172 kb on - strand at 19.255 kb on - strand at 19.342 kb on + strand at 19.383 kb on + strand at 19.385 kb on + strand at 19.385 kb on + strand at 19.386 kb on - strand at 19.386 kb on - strand at 19.386 kb on - strand at 19.387 kb on + strand at 19.388 kb on - strand at 19.388 kb on - strand at 19.478 kb on + strand, within HMPREF1058_RS01875 at 19.492 kb on + strand, within HMPREF1058_RS01875 at 19.493 kb on - strand, within HMPREF1058_RS01875 at 19.495 kb on - strand, within HMPREF1058_RS01875 at 19.521 kb on + strand, within HMPREF1058_RS01875 at 19.584 kb on + strand, within HMPREF1058_RS01875 at 19.585 kb on - strand, within HMPREF1058_RS01875 at 19.585 kb on - strand, within HMPREF1058_RS01875 at 19.825 kb on + strand, within HMPREF1058_RS21185 at 19.857 kb on + strand, within HMPREF1058_RS21185 at 19.860 kb on - strand, within HMPREF1058_RS21185 at 19.860 kb on - strand, within HMPREF1058_RS21185 at 19.927 kb on + strand, within HMPREF1058_RS21185 at 19.928 kb on - strand, within HMPREF1058_RS21185 at 19.950 kb on - strand, within HMPREF1058_RS21185 at 19.992 kb on + strand at 20.009 kb on + strand
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day4 remove 17,622 - HMPREF1058_RS21375 0.18 +1.0 17,626 - HMPREF1058_RS21375 0.19 +0.2 17,691 - HMPREF1058_RS21375 0.28 +1.1 17,714 - HMPREF1058_RS21375 0.31 -2.7 17,743 + HMPREF1058_RS21375 0.35 -1.8 17,795 + HMPREF1058_RS21375 0.43 +0.2 17,796 - HMPREF1058_RS21375 0.43 -1.3 17,800 - HMPREF1058_RS21375 0.43 +0.9 17,831 + HMPREF1058_RS21375 0.48 +2.2 17,845 - HMPREF1058_RS21375 0.50 -2.4 17,846 + HMPREF1058_RS21375 0.50 -1.5 17,849 - HMPREF1058_RS21375 0.50 +0.9 17,849 - HMPREF1058_RS21375 0.50 -0.3 17,877 - HMPREF1058_RS21375 0.54 -0.6 17,902 + HMPREF1058_RS21375 0.58 +0.2 17,906 - HMPREF1058_RS21375 0.58 -2.8 17,906 - HMPREF1058_RS21375 0.58 -0.6 17,928 - HMPREF1058_RS21375 0.61 -1.8 17,928 - HMPREF1058_RS21375 0.61 -1.4 17,928 - HMPREF1058_RS21375 0.61 -1.4 17,960 + HMPREF1058_RS21375 0.66 -1.0 18,117 - HMPREF1058_RS21375 0.88 +0.2 18,121 - HMPREF1058_RS21375 0.88 +0.8 18,173 - +2.2 18,220 - -2.3 18,258 + HMPREF1058_RS01885 0.15 -1.8 18,379 - HMPREF1058_RS01885 0.45 -0.5 18,466 - HMPREF1058_RS01885 0.67 +0.4 18,466 - HMPREF1058_RS01885 0.67 -1.8 18,468 + HMPREF1058_RS01885 0.68 +1.8 18,469 - -0.8 18,469 - HMPREF1058_RS01885 0.68 +0.7 18,484 + HMPREF1058_RS01885 0.72 -0.3 18,492 - HMPREF1058_RS01885 0.74 +0.5 18,548 + HMPREF1058_RS01885 0.88 -0.8 18,567 + -0.6 18,594 - +0.3 18,599 + +0.2 18,862 - HMPREF1058_RS01880 0.47 +1.2 18,862 - HMPREF1058_RS01880 0.47 +2.7 18,954 - HMPREF1058_RS01880 0.64 -0.5 19,113 + +1.2 19,115 + -0.8 19,116 - +2.9 19,116 - +1.1 19,172 - +2.7 19,255 - -0.5 19,342 + -0.3 19,383 + -1.1 19,385 + -1.3 19,385 + +4.0 19,386 - -1.0 19,386 - -0.8 19,386 - -1.8 19,387 + -1.7 19,388 - -0.1 19,388 - -0.0 19,478 + HMPREF1058_RS01875 0.17 -0.2 19,492 + HMPREF1058_RS01875 0.20 +1.9 19,493 - HMPREF1058_RS01875 0.20 +1.2 19,495 - HMPREF1058_RS01875 0.21 +0.3 19,521 + HMPREF1058_RS01875 0.28 -0.8 19,584 + HMPREF1058_RS01875 0.44 +1.0 19,585 - HMPREF1058_RS01875 0.44 +1.2 19,585 - HMPREF1058_RS01875 0.44 +0.2 19,825 + HMPREF1058_RS21185 0.40 -0.8 19,857 + HMPREF1058_RS21185 0.51 -0.3 19,860 - HMPREF1058_RS21185 0.52 -1.1 19,860 - HMPREF1058_RS21185 0.52 -2.8 19,927 + HMPREF1058_RS21185 0.76 -1.1 19,928 - HMPREF1058_RS21185 0.76 -1.8 19,950 - HMPREF1058_RS21185 0.84 +0.2 19,992 + +0.5 20,009 + -1.2
Or see this region's nucleotide sequence