Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; 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_RS21565 and HMPREF1058_RS19210 are separated by 4 nucleotides HMPREF1058_RS19210 and HMPREF1058_RS19205 overlap by 4 nucleotides HMPREF1058_RS19205 and HMPREF1058_RS19200 overlap by 10 nucleotides HMPREF1058_RS19200 and HMPREF1058_RS19195 are separated by 2 nucleotides HMPREF1058_RS19195 and HMPREF1058_RS19190 are separated by 3 nucleotides
HMPREF1058_RS21565: HMPREF1058_RS21565 - hypothetical protein, at 2,055 to 2,735
_RS21565
HMPREF1058_RS19210: HMPREF1058_RS19210 - hypothetical protein, at 2,740 to 3,141
_RS19210
HMPREF1058_RS19205: HMPREF1058_RS19205 - hypothetical protein, at 3,138 to 3,599
_RS19205
HMPREF1058_RS19200: HMPREF1058_RS19200 - hypothetical protein, at 3,590 to 3,913
_RS19200
HMPREF1058_RS19195: HMPREF1058_RS19195 - hypothetical protein, at 3,916 to 4,233
_RS19195
HMPREF1058_RS19190: HMPREF1058_RS19190 - hypothetical protein, at 4,237 to 5,541
_RS19190
Position (kb) 3
4 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2 at 2.709 kb on - strand at 2.712 kb on - strand at 2.759 kb on + strand at 2.760 kb on - strand at 2.764 kb on + strand at 2.769 kb on + strand at 3.010 kb on + strand, within HMPREF1058_RS19210 at 3.010 kb on + strand, within HMPREF1058_RS19210 at 3.011 kb on - strand, within HMPREF1058_RS19210 at 3.012 kb on + strand, within HMPREF1058_RS19210 at 3.104 kb on + strand at 3.104 kb on + strand at 3.108 kb on + strand at 3.109 kb on - strand at 3.109 kb on - strand at 3.164 kb on + strand at 3.217 kb on - strand, within HMPREF1058_RS19205 at 3.271 kb on - strand, within HMPREF1058_RS19205 at 3.317 kb on + strand, within HMPREF1058_RS19205 at 3.357 kb on + strand, within HMPREF1058_RS19205 at 3.376 kb on + strand, within HMPREF1058_RS19205 at 3.522 kb on + strand, within HMPREF1058_RS19205 at 3.600 kb on - strand at 3.611 kb on + strand at 3.611 kb on + strand at 3.695 kb on - strand, within HMPREF1058_RS19200 at 3.735 kb on + strand, within HMPREF1058_RS19200 at 3.889 kb on + strand at 3.899 kb on - strand at 3.926 kb on - strand at 3.929 kb on + strand at 3.929 kb on + strand at 3.929 kb on + strand at 3.930 kb on - strand at 3.976 kb on - strand at 4.002 kb on + strand, within HMPREF1058_RS19195 at 4.003 kb on - strand, within HMPREF1058_RS19195 at 4.003 kb on - strand, within HMPREF1058_RS19195 at 4.183 kb on - strand, within HMPREF1058_RS19195 at 4.194 kb on - strand, within HMPREF1058_RS19195 at 4.194 kb on - strand, within HMPREF1058_RS19195 at 4.234 kb on - strand at 4.238 kb on + strand at 4.398 kb on + strand, within HMPREF1058_RS19190 at 4.398 kb on + strand, within HMPREF1058_RS19190 at 4.499 kb on - strand, within HMPREF1058_RS19190 at 4.602 kb on + strand, within HMPREF1058_RS19190 at 4.604 kb on + strand, within HMPREF1058_RS19190 at 4.836 kb on + strand, within HMPREF1058_RS19190
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4 remove 2,709 - -1.9 2,712 - +0.1 2,759 + +0.1 2,760 - -1.9 2,764 + +1.0 2,769 + +1.5 3,010 + HMPREF1058_RS19210 0.67 +0.7 3,010 + HMPREF1058_RS19210 0.67 -0.2 3,011 - HMPREF1058_RS19210 0.67 -0.9 3,012 + HMPREF1058_RS19210 0.68 -0.9 3,104 + -1.9 3,104 + +0.1 3,108 + -4.5 3,109 - -1.9 3,109 - +0.1 3,164 + -1.5 3,217 - HMPREF1058_RS19205 0.17 -0.9 3,271 - HMPREF1058_RS19205 0.29 +0.1 3,317 + HMPREF1058_RS19205 0.39 +1.5 3,357 + HMPREF1058_RS19205 0.47 -0.5 3,376 + HMPREF1058_RS19205 0.52 +0.3 3,522 + HMPREF1058_RS19205 0.83 -0.9 3,600 - +0.7 3,611 + -0.1 3,611 + -0.1 3,695 - HMPREF1058_RS19200 0.32 -2.2 3,735 + HMPREF1058_RS19200 0.45 -2.2 3,889 + +0.7 3,899 - +2.1 3,926 - -0.2 3,929 + -0.1 3,929 + -2.9 3,929 + +1.7 3,930 - -1.7 3,976 - +0.1 4,002 + HMPREF1058_RS19195 0.27 -0.2 4,003 - HMPREF1058_RS19195 0.27 +1.1 4,003 - HMPREF1058_RS19195 0.27 +0.1 4,183 - HMPREF1058_RS19195 0.84 +2.1 4,194 - HMPREF1058_RS19195 0.87 +1.1 4,194 - HMPREF1058_RS19195 0.87 +0.6 4,234 - -3.2 4,238 + -1.5 4,398 + HMPREF1058_RS19190 0.12 +2.2 4,398 + HMPREF1058_RS19190 0.12 +0.3 4,499 - HMPREF1058_RS19190 0.20 -1.5 4,602 + HMPREF1058_RS19190 0.28 -1.4 4,604 + HMPREF1058_RS19190 0.28 +0.9 4,836 + HMPREF1058_RS19190 0.46 -0.5
Or see this region's nucleotide sequence