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_RS05350 and HMPREF1058_RS05345 are separated by 336 nucleotides HMPREF1058_RS05345 and HMPREF1058_RS05340 are separated by 19 nucleotides
HMPREF1058_RS05350: HMPREF1058_RS05350 - Fic family protein, at 183,620 to 184,642
_RS05350
HMPREF1058_RS05345: HMPREF1058_RS05345 - site-specific integrase, at 184,979 to 186,196
_RS05345
HMPREF1058_RS05340: HMPREF1058_RS05340 - site-specific integrase, at 186,216 to 187,445
_RS05340
Position (kb) 184
185
186
187 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3 at 184.028 kb on + strand, within HMPREF1058_RS05350 at 184.028 kb on + strand, within HMPREF1058_RS05350 at 184.168 kb on - strand, within HMPREF1058_RS05350 at 184.278 kb on - strand, within HMPREF1058_RS05350 at 184.279 kb on + strand, within HMPREF1058_RS05350 at 184.345 kb on + strand, within HMPREF1058_RS05350 at 184.346 kb on - strand, within HMPREF1058_RS05350 at 184.402 kb on + strand, within HMPREF1058_RS05350 at 184.410 kb on + strand, within HMPREF1058_RS05350 at 184.410 kb on + strand, within HMPREF1058_RS05350 at 184.706 kb on + strand at 184.706 kb on + strand at 184.708 kb on + strand at 185.136 kb on - strand, within HMPREF1058_RS05345 at 185.544 kb on + strand, within HMPREF1058_RS05345 at 185.545 kb on - strand, within HMPREF1058_RS05345 at 185.545 kb on - strand, within HMPREF1058_RS05345 at 185.545 kb on - strand, within HMPREF1058_RS05345 at 185.628 kb on + strand, within HMPREF1058_RS05345 at 185.629 kb on - strand, within HMPREF1058_RS05345 at 185.868 kb on - strand, within HMPREF1058_RS05345 at 185.974 kb on - strand, within HMPREF1058_RS05345 at 186.032 kb on + strand, within HMPREF1058_RS05345 at 186.108 kb on - strand at 186.150 kb on - strand at 186.166 kb on + strand at 186.168 kb on + strand at 186.168 kb on + strand at 186.169 kb on - strand at 186.173 kb on + strand at 186.174 kb on - strand at 186.177 kb on - strand at 186.220 kb on - strand at 186.299 kb on - strand at 186.517 kb on + strand, within HMPREF1058_RS05340 at 186.600 kb on + strand, within HMPREF1058_RS05340 at 186.622 kb on + strand, within HMPREF1058_RS05340 at 186.674 kb on - strand, within HMPREF1058_RS05340 at 186.808 kb on + strand, within HMPREF1058_RS05340 at 186.808 kb on + strand, within HMPREF1058_RS05340 at 186.808 kb on + strand, within HMPREF1058_RS05340 at 186.938 kb on - strand, within HMPREF1058_RS05340
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day4 remove 184,028 + HMPREF1058_RS05350 0.40 +0.0 184,028 + HMPREF1058_RS05350 0.40 -2.9 184,168 - HMPREF1058_RS05350 0.54 -1.0 184,278 - HMPREF1058_RS05350 0.64 -1.0 184,279 + HMPREF1058_RS05350 0.64 +0.0 184,345 + HMPREF1058_RS05350 0.71 +0.0 184,346 - HMPREF1058_RS05350 0.71 -3.2 184,402 + HMPREF1058_RS05350 0.76 -3.6 184,410 + HMPREF1058_RS05350 0.77 +0.0 184,410 + HMPREF1058_RS05350 0.77 -3.3 184,706 + +1.0 184,706 + -1.6 184,708 + +0.3 185,136 - HMPREF1058_RS05345 0.13 +1.8 185,544 + HMPREF1058_RS05345 0.46 -0.4 185,545 - HMPREF1058_RS05345 0.46 -1.0 185,545 - HMPREF1058_RS05345 0.46 -0.3 185,545 - HMPREF1058_RS05345 0.46 -0.2 185,628 + HMPREF1058_RS05345 0.53 +1.2 185,629 - HMPREF1058_RS05345 0.53 +2.5 185,868 - HMPREF1058_RS05345 0.73 -0.2 185,974 - HMPREF1058_RS05345 0.82 +2.5 186,032 + HMPREF1058_RS05345 0.86 +3.6 186,108 - -0.2 186,150 - -0.8 186,166 + -2.6 186,168 + +1.8 186,168 + -0.5 186,169 - -0.3 186,173 + +0.6 186,174 - -2.0 186,177 - -0.2 186,220 - +0.0 186,299 - -1.8 186,517 + HMPREF1058_RS05340 0.24 +3.1 186,600 + HMPREF1058_RS05340 0.31 +0.0 186,622 + HMPREF1058_RS05340 0.33 -0.6 186,674 - HMPREF1058_RS05340 0.37 +0.8 186,808 + HMPREF1058_RS05340 0.48 -2.4 186,808 + HMPREF1058_RS05340 0.48 +0.0 186,808 + HMPREF1058_RS05340 0.48 -2.0 186,938 - HMPREF1058_RS05340 0.59 +0.9
Or see this region's nucleotide sequence