Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse9; day3
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_RS01835 and HMPREF1058_RS01830 overlap by 4 nucleotides HMPREF1058_RS01830 and HMPREF1058_RS21545 are separated by 11 nucleotides HMPREF1058_RS21545 and HMPREF1058_RS21715 overlap by 1 nucleotides HMPREF1058_RS21715 and HMPREF1058_RS01820 are separated by 296 nucleotides HMPREF1058_RS01820 and HMPREF1058_RS01815 are separated by 12 nucleotides
HMPREF1058_RS01835: HMPREF1058_RS01835 - hypothetical protein, at 34,684 to 35,070
_RS01835
HMPREF1058_RS01830: HMPREF1058_RS01830 - DUF882 domain-containing protein, at 35,067 to 35,465
_RS01830
HMPREF1058_RS21545: HMPREF1058_RS21545 - hypothetical protein, at 35,477 to 35,635
_RS21545
HMPREF1058_RS21715: HMPREF1058_RS21715 - hypothetical protein, at 35,635 to 36,171
_RS21715
HMPREF1058_RS01820: HMPREF1058_RS01820 - hypothetical protein, at 36,468 to 36,710
_RS01820
HMPREF1058_RS01815: HMPREF1058_RS01815 - phage integrase SAM-like domain-containing protein, at 36,723 to 37,964
_RS01815
Position (kb) 35
36
37 Strain fitness (log2 ratio) -2
-1
0
1
2
3 at 34.637 kb on - strand at 34.643 kb on - strand at 34.657 kb on - strand at 34.659 kb on + strand at 34.660 kb on - strand at 34.709 kb on + strand at 35.042 kb on + strand at 35.042 kb on + strand at 35.043 kb on - strand at 35.043 kb on - strand at 35.217 kb on - strand, within HMPREF1058_RS01830 at 35.217 kb on - strand, within HMPREF1058_RS01830 at 35.224 kb on + strand, within HMPREF1058_RS01830 at 35.274 kb on - strand, within HMPREF1058_RS01830 at 35.353 kb on - strand, within HMPREF1058_RS01830 at 35.355 kb on - strand, within HMPREF1058_RS01830 at 35.470 kb on + strand at 35.593 kb on + strand, within HMPREF1058_RS21545 at 35.593 kb on + strand, within HMPREF1058_RS21545 at 35.644 kb on + strand at 35.644 kb on + strand at 35.645 kb on - strand at 35.646 kb on + strand at 35.647 kb on - strand at 35.649 kb on + strand at 35.650 kb on - strand at 35.650 kb on - strand at 35.760 kb on - strand, within HMPREF1058_RS21715 at 35.799 kb on - strand, within HMPREF1058_RS21715 at 35.848 kb on + strand, within HMPREF1058_RS21715 at 35.848 kb on + strand, within HMPREF1058_RS21715 at 35.849 kb on - strand at 35.849 kb on - strand, within HMPREF1058_RS21715 at 35.852 kb on + strand, within HMPREF1058_RS21715 at 35.852 kb on + strand, within HMPREF1058_RS21715 at 35.869 kb on + strand, within HMPREF1058_RS21715 at 35.870 kb on - strand, within HMPREF1058_RS21715 at 35.940 kb on + strand, within HMPREF1058_RS21715 at 36.128 kb on + strand at 36.128 kb on + strand at 36.129 kb on - strand at 36.169 kb on + strand at 36.183 kb on + strand at 36.341 kb on + strand at 36.371 kb on - strand at 36.391 kb on - strand at 36.446 kb on + strand at 36.464 kb on + strand at 36.465 kb on - strand at 36.487 kb on - strand at 36.517 kb on + strand, within HMPREF1058_RS01820 at 36.642 kb on + strand, within HMPREF1058_RS01820 at 36.643 kb on - strand, within HMPREF1058_RS01820 at 36.768 kb on - strand at 36.783 kb on - strand at 36.804 kb on + strand at 36.808 kb on + strand at 36.810 kb on + strand at 36.864 kb on - strand, within HMPREF1058_RS01815 at 36.973 kb on - strand, within HMPREF1058_RS01815 at 37.017 kb on - strand, within HMPREF1058_RS01815 at 37.018 kb on + strand, within HMPREF1058_RS01815 at 37.054 kb on + strand, within HMPREF1058_RS01815 at 37.064 kb on - strand, within HMPREF1058_RS01815 at 37.064 kb on - strand, within HMPREF1058_RS01815 at 37.066 kb on - strand, within HMPREF1058_RS01815 at 37.099 kb on - strand, within HMPREF1058_RS01815 at 37.144 kb on + strand, within HMPREF1058_RS01815 at 37.144 kb on + strand, within HMPREF1058_RS01815
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse9; day3 remove 34,637 - +1.5 34,643 - -1.2 34,657 - +0.7 34,659 + -2.6 34,660 - -1.7 34,709 + -0.6 35,042 + -2.0 35,042 + -1.5 35,043 - +2.6 35,043 - +0.8 35,217 - HMPREF1058_RS01830 0.38 +0.9 35,217 - HMPREF1058_RS01830 0.38 +0.9 35,224 + HMPREF1058_RS01830 0.39 +1.0 35,274 - HMPREF1058_RS01830 0.52 +0.0 35,353 - HMPREF1058_RS01830 0.72 +1.1 35,355 - HMPREF1058_RS01830 0.72 +2.5 35,470 + +0.4 35,593 + HMPREF1058_RS21545 0.73 +0.5 35,593 + HMPREF1058_RS21545 0.73 +1.1 35,644 + +0.0 35,644 + +1.0 35,645 - +0.0 35,646 + -1.7 35,647 - -0.1 35,649 + +0.8 35,650 - +1.0 35,650 - +3.3 35,760 - HMPREF1058_RS21715 0.23 +2.6 35,799 - HMPREF1058_RS21715 0.31 +1.1 35,848 + HMPREF1058_RS21715 0.40 +0.0 35,848 + HMPREF1058_RS21715 0.40 +1.4 35,849 - +1.0 35,849 - HMPREF1058_RS21715 0.40 +0.0 35,852 + HMPREF1058_RS21715 0.40 +2.5 35,852 + HMPREF1058_RS21715 0.40 +0.5 35,869 + HMPREF1058_RS21715 0.44 +0.1 35,870 - HMPREF1058_RS21715 0.44 +0.5 35,940 + HMPREF1058_RS21715 0.57 +1.8 36,128 + +1.7 36,128 + +1.2 36,129 - -0.9 36,169 + -1.6 36,183 + +0.0 36,341 + -0.5 36,371 - +0.0 36,391 - +0.7 36,446 + +0.2 36,464 + +1.0 36,465 - +0.4 36,487 - -0.3 36,517 + HMPREF1058_RS01820 0.20 +3.7 36,642 + HMPREF1058_RS01820 0.72 +0.3 36,643 - HMPREF1058_RS01820 0.72 +1.7 36,768 - +0.4 36,783 - -0.5 36,804 + -0.3 36,808 + +1.2 36,810 + +1.1 36,864 - HMPREF1058_RS01815 0.11 -0.3 36,973 - HMPREF1058_RS01815 0.20 +1.3 37,017 - HMPREF1058_RS01815 0.24 +1.6 37,018 + HMPREF1058_RS01815 0.24 +1.0 37,054 + HMPREF1058_RS01815 0.27 +0.5 37,064 - HMPREF1058_RS01815 0.27 +1.0 37,064 - HMPREF1058_RS01815 0.27 +0.0 37,066 - HMPREF1058_RS01815 0.28 +2.1 37,099 - HMPREF1058_RS01815 0.30 -0.9 37,144 + HMPREF1058_RS01815 0.34 -0.7 37,144 + HMPREF1058_RS01815 0.34 -0.6
Or see this region's nucleotide sequence