Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; 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_RS02000 and HMPREF1058_RS01995 are separated by 56 nucleotides HMPREF1058_RS01995 and HMPREF1058_RS01990 are separated by 183 nucleotides HMPREF1058_RS01990 and HMPREF1058_RS01985 overlap by 35 nucleotides HMPREF1058_RS01985 and HMPREF1058_RS01980 are separated by 16 nucleotides HMPREF1058_RS01980 and HMPREF1058_RS01975 overlap by 29 nucleotides HMPREF1058_RS01975 and HMPREF1058_RS01970 are separated by 148 nucleotides HMPREF1058_RS01970 and HMPREF1058_RS21540 are separated by 42 nucleotides
HMPREF1058_RS02000: HMPREF1058_RS02000 - type II toxin-antitoxin system HicA family toxin, at 2,530 to 2,715
_RS02000
HMPREF1058_RS01995: HMPREF1058_RS01995 - hypothetical protein, at 2,772 to 3,176
_RS01995
HMPREF1058_RS01990: HMPREF1058_RS01990 - hypothetical protein, at 3,360 to 3,746
_RS01990
HMPREF1058_RS01985: HMPREF1058_RS01985 - transposase, at 3,712 to 4,704
_RS01985
HMPREF1058_RS01980: HMPREF1058_RS01980 - hypothetical protein, at 4,721 to 5,095
_RS01980
HMPREF1058_RS01975: HMPREF1058_RS01975 - hypothetical protein, at 5,067 to 5,333
_RS01975
HMPREF1058_RS01970: HMPREF1058_RS01970 - hypothetical protein, at 5,482 to 5,661
_RS01970
HMPREF1058_RS21540: HMPREF1058_RS21540 - hypothetical protein, at 5,704 to 5,856
_RS21540
Position (kb) 3
4
5 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3 at 2.957 kb on + strand, within HMPREF1058_RS01995 at 2.979 kb on + strand, within HMPREF1058_RS01995 at 2.983 kb on + strand, within HMPREF1058_RS01995 at 2.985 kb on + strand, within HMPREF1058_RS01995 at 3.078 kb on + strand, within HMPREF1058_RS01995 at 3.135 kb on + strand, within HMPREF1058_RS01995 at 3.253 kb on - strand at 3.281 kb on - strand at 4.687 kb on + strand at 4.736 kb on - strand at 4.750 kb on + strand at 4.759 kb on + strand, within HMPREF1058_RS01980 at 4.772 kb on + strand, within HMPREF1058_RS01980 at 4.773 kb on - strand, within HMPREF1058_RS01980 at 4.774 kb on + strand, within HMPREF1058_RS01980 at 4.817 kb on - strand, within HMPREF1058_RS01980 at 4.817 kb on - strand, within HMPREF1058_RS01980 at 4.817 kb on - strand, within HMPREF1058_RS01980 at 4.822 kb on - strand, within HMPREF1058_RS01980 at 4.829 kb on - strand, within HMPREF1058_RS01980 at 4.829 kb on - strand, within HMPREF1058_RS01980 at 4.894 kb on + strand, within HMPREF1058_RS01980 at 4.927 kb on + strand, within HMPREF1058_RS01980 at 4.927 kb on + strand, within HMPREF1058_RS01980 at 4.959 kb on + strand, within HMPREF1058_RS01980 at 4.960 kb on - strand, within HMPREF1058_RS01980 at 4.988 kb on - strand, within HMPREF1058_RS01980 at 5.000 kb on - strand, within HMPREF1058_RS01980 at 5.097 kb on + strand, within HMPREF1058_RS01975 at 5.097 kb on + strand, within HMPREF1058_RS01975 at 5.098 kb on - strand, within HMPREF1058_RS01975 at 5.246 kb on - strand, within HMPREF1058_RS01975 at 5.246 kb on - strand, within HMPREF1058_RS01975 at 5.305 kb on - strand, within HMPREF1058_RS01975 at 5.305 kb on - strand, within HMPREF1058_RS01975 at 5.349 kb on - strand at 5.459 kb on + strand at 5.460 kb on - strand at 5.476 kb on - strand at 5.528 kb on + strand, within HMPREF1058_RS01970 at 5.529 kb on - strand, within HMPREF1058_RS01970 at 5.531 kb on + strand, within HMPREF1058_RS01970 at 5.573 kb on + strand, within HMPREF1058_RS01970 at 5.573 kb on + strand, within HMPREF1058_RS01970 at 5.596 kb on + strand, within HMPREF1058_RS01970 at 5.625 kb on + strand, within HMPREF1058_RS01970 at 5.695 kb on + strand at 5.696 kb on - strand at 5.696 kb on - strand
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; day4 remove 2,957 + HMPREF1058_RS01995 0.46 -1.8 2,979 + HMPREF1058_RS01995 0.51 -1.3 2,983 + HMPREF1058_RS01995 0.52 +0.2 2,985 + HMPREF1058_RS01995 0.53 -2.1 3,078 + HMPREF1058_RS01995 0.76 -0.8 3,135 + HMPREF1058_RS01995 0.90 -0.8 3,253 - -0.8 3,281 - +0.1 4,687 + +2.0 4,736 - -0.8 4,750 + -0.8 4,759 + HMPREF1058_RS01980 0.10 +0.6 4,772 + HMPREF1058_RS01980 0.14 -2.9 4,773 - HMPREF1058_RS01980 0.14 +0.3 4,774 + HMPREF1058_RS01980 0.14 +3.6 4,817 - HMPREF1058_RS01980 0.26 +0.5 4,817 - HMPREF1058_RS01980 0.26 -0.4 4,817 - HMPREF1058_RS01980 0.26 +0.5 4,822 - HMPREF1058_RS01980 0.27 -0.4 4,829 - HMPREF1058_RS01980 0.29 -0.3 4,829 - HMPREF1058_RS01980 0.29 +1.5 4,894 + HMPREF1058_RS01980 0.46 -0.2 4,927 + HMPREF1058_RS01980 0.55 +2.2 4,927 + HMPREF1058_RS01980 0.55 -1.9 4,959 + HMPREF1058_RS01980 0.63 +0.2 4,960 - HMPREF1058_RS01980 0.64 -2.3 4,988 - HMPREF1058_RS01980 0.71 +1.5 5,000 - HMPREF1058_RS01980 0.74 -0.8 5,097 + HMPREF1058_RS01975 0.11 -1.5 5,097 + HMPREF1058_RS01975 0.11 +0.2 5,098 - HMPREF1058_RS01975 0.12 +1.4 5,246 - HMPREF1058_RS01975 0.67 -0.8 5,246 - HMPREF1058_RS01975 0.67 -1.3 5,305 - HMPREF1058_RS01975 0.89 -2.9 5,305 - HMPREF1058_RS01975 0.89 -0.8 5,349 - -2.1 5,459 + -2.0 5,460 - +0.7 5,476 - -2.6 5,528 + HMPREF1058_RS01970 0.26 -1.3 5,529 - HMPREF1058_RS01970 0.26 +0.1 5,531 + HMPREF1058_RS01970 0.27 -0.8 5,573 + HMPREF1058_RS01970 0.51 -0.8 5,573 + HMPREF1058_RS01970 0.51 -1.2 5,596 + HMPREF1058_RS01970 0.63 +0.5 5,625 + HMPREF1058_RS01970 0.79 -0.6 5,695 + +1.0 5,696 - +0.5 5,696 - -2.8
Or see this region's nucleotide sequence