Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; day5
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_RS01195 and HMPREF1058_RS01190 are separated by 87 nucleotides HMPREF1058_RS01190 and HMPREF1058_RS01185 are separated by 7 nucleotides HMPREF1058_RS01185 and HMPREF1058_RS01180 are separated by 59 nucleotides HMPREF1058_RS01180 and HMPREF1058_RS01175 are separated by 19 nucleotides
HMPREF1058_RS01195: HMPREF1058_RS01195 - aminotransferase class I/II-fold pyridoxal phosphate-dependent enzyme, at 183,392 to 184,579
_RS01195
HMPREF1058_RS01190: HMPREF1058_RS01190 - DMT family transporter, at 184,667 to 185,554
_RS01190
HMPREF1058_RS01185: HMPREF1058_RS01185 - ABC transporter permease, at 185,562 to 187,913
_RS01185
HMPREF1058_RS01180: HMPREF1058_RS01180 - ABC transporter ATP-binding protein, at 187,973 to 188,647
_RS01180
HMPREF1058_RS01175: HMPREF1058_RS01175 - FtsX-like permease family protein, at 188,667 to 191,066
_RS01175
Position (kb) 185
186
187
188 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3
4 at 184.572 kb on + strand at 184.626 kb on + strand at 184.626 kb on + strand at 184.626 kb on + strand at 184.626 kb on + strand at 184.627 kb on - strand at 184.627 kb on - strand at 184.629 kb on + strand at 184.630 kb on - strand at 184.653 kb on + strand at 184.690 kb on - strand at 184.851 kb on + strand, within HMPREF1058_RS01190 at 184.852 kb on - strand, within HMPREF1058_RS01190 at 184.852 kb on - strand, within HMPREF1058_RS01190 at 184.857 kb on - strand, within HMPREF1058_RS01190 at 184.923 kb on + strand, within HMPREF1058_RS01190 at 184.924 kb on - strand, within HMPREF1058_RS01190 at 184.958 kb on - strand, within HMPREF1058_RS01190 at 184.970 kb on - strand, within HMPREF1058_RS01190 at 184.970 kb on - strand, within HMPREF1058_RS01190 at 184.974 kb on - strand, within HMPREF1058_RS01190 at 185.062 kb on - strand, within HMPREF1058_RS01190 at 185.073 kb on + strand, within HMPREF1058_RS01190 at 185.077 kb on - strand, within HMPREF1058_RS01190 at 185.092 kb on - strand, within HMPREF1058_RS01190 at 185.096 kb on + strand, within HMPREF1058_RS01190 at 185.099 kb on - strand, within HMPREF1058_RS01190 at 185.163 kb on - strand, within HMPREF1058_RS01190 at 185.164 kb on + strand, within HMPREF1058_RS01190 at 185.166 kb on + strand, within HMPREF1058_RS01190 at 185.167 kb on - strand, within HMPREF1058_RS01190 at 185.169 kb on + strand, within HMPREF1058_RS01190 at 185.169 kb on + strand, within HMPREF1058_RS01190 at 185.169 kb on + strand, within HMPREF1058_RS01190 at 185.169 kb on + strand, within HMPREF1058_RS01190 at 185.169 kb on + strand, within HMPREF1058_RS01190 at 185.170 kb on - strand, within HMPREF1058_RS01190 at 185.173 kb on + strand, within HMPREF1058_RS01190 at 185.174 kb on - strand, within HMPREF1058_RS01190 at 185.174 kb on - strand, within HMPREF1058_RS01190 at 185.176 kb on - strand, within HMPREF1058_RS01190 at 185.206 kb on + strand, within HMPREF1058_RS01190 at 185.206 kb on + strand, within HMPREF1058_RS01190 at 185.212 kb on - strand, within HMPREF1058_RS01190 at 185.270 kb on + strand, within HMPREF1058_RS01190 at 185.270 kb on + strand, within HMPREF1058_RS01190 at 185.316 kb on - strand, within HMPREF1058_RS01190 at 185.449 kb on - strand, within HMPREF1058_RS01190 at 185.449 kb on - strand, within HMPREF1058_RS01190 at 185.449 kb on - strand, within HMPREF1058_RS01190 at 185.473 kb on + strand at 185.473 kb on + strand at 185.474 kb on - strand at 185.478 kb on - strand at 185.478 kb on - strand at 185.547 kb on - strand at 185.548 kb on + strand at 185.549 kb on - strand at 185.549 kb on - strand at 185.552 kb on + strand at 185.609 kb on - strand at 185.612 kb on + strand at 185.612 kb on + strand at 185.613 kb on - strand at 185.613 kb on - strand at 185.613 kb on - strand at 185.616 kb on + strand at 185.616 kb on + strand at 185.616 kb on + strand at 185.617 kb on - strand at 185.617 kb on - strand at 185.636 kb on + strand at 185.646 kb on + strand at 185.647 kb on - strand at 185.651 kb on + strand at 185.755 kb on + strand at 185.755 kb on + strand at 185.755 kb on + strand at 185.755 kb on + strand at 185.761 kb on - strand at 185.761 kb on - strand at 185.761 kb on - strand at 185.763 kb on + strand at 185.800 kb on - strand, within HMPREF1058_RS01185 at 185.863 kb on - strand, within HMPREF1058_RS01185 at 185.863 kb on - strand, within HMPREF1058_RS01185 at 185.916 kb on - strand, within HMPREF1058_RS01185 at 185.916 kb on - strand, within HMPREF1058_RS01185 at 185.930 kb on + strand, within HMPREF1058_RS01185 at 185.953 kb on - strand, within HMPREF1058_RS01185 at 185.953 kb on - strand, within HMPREF1058_RS01185 at 185.991 kb on + strand, within HMPREF1058_RS01185 at 185.991 kb on + strand, within HMPREF1058_RS01185 at 186.060 kb on - strand, within HMPREF1058_RS01185 at 186.062 kb on - strand, within HMPREF1058_RS01185 at 186.062 kb on - strand, within HMPREF1058_RS01185 at 186.087 kb on + strand, within HMPREF1058_RS01185 at 186.087 kb on + strand, within HMPREF1058_RS01185 at 186.087 kb on + strand, within HMPREF1058_RS01185 at 186.128 kb on + strand, within HMPREF1058_RS01185 at 186.133 kb on - strand, within HMPREF1058_RS01185 at 186.197 kb on + strand, within HMPREF1058_RS01185 at 186.246 kb on + strand, within HMPREF1058_RS01185 at 186.261 kb on + strand, within HMPREF1058_RS01185 at 186.261 kb on + strand, within HMPREF1058_RS01185 at 186.262 kb on - strand, within HMPREF1058_RS01185 at 186.308 kb on + strand, within HMPREF1058_RS01185 at 186.309 kb on - strand, within HMPREF1058_RS01185 at 186.400 kb on - strand, within HMPREF1058_RS01185 at 186.401 kb on + strand, within HMPREF1058_RS01185 at 186.408 kb on - strand, within HMPREF1058_RS01185 at 186.419 kb on + strand, within HMPREF1058_RS01185 at 186.460 kb on + strand, within HMPREF1058_RS01185 at 186.465 kb on + strand, within HMPREF1058_RS01185 at 186.466 kb on - strand, within HMPREF1058_RS01185 at 186.486 kb on + strand, within HMPREF1058_RS01185 at 186.487 kb on - strand, within HMPREF1058_RS01185 at 186.487 kb on - strand, within HMPREF1058_RS01185 at 186.488 kb on + strand, within HMPREF1058_RS01185 at 186.489 kb on - strand, within HMPREF1058_RS01185 at 186.555 kb on + strand, within HMPREF1058_RS01185 at 186.755 kb on + strand, within HMPREF1058_RS01185 at 186.757 kb on + strand, within HMPREF1058_RS01185 at 186.757 kb on + strand, within HMPREF1058_RS01185 at 186.758 kb on - strand, within HMPREF1058_RS01185 at 186.795 kb on + strand, within HMPREF1058_RS01185 at 186.808 kb on - strand, within HMPREF1058_RS01185 at 186.915 kb on + strand, within HMPREF1058_RS01185 at 186.987 kb on + strand, within HMPREF1058_RS01185 at 186.987 kb on + strand, within HMPREF1058_RS01185 at 186.987 kb on + strand, within HMPREF1058_RS01185 at 186.988 kb on - strand, within HMPREF1058_RS01185 at 186.989 kb on + strand, within HMPREF1058_RS01185 at 187.038 kb on - strand, within HMPREF1058_RS01185 at 187.091 kb on - strand, within HMPREF1058_RS01185 at 187.187 kb on - strand, within HMPREF1058_RS01185 at 187.206 kb on + strand, within HMPREF1058_RS01185 at 187.206 kb on + strand, within HMPREF1058_RS01185 at 187.248 kb on + strand, within HMPREF1058_RS01185 at 187.269 kb on + strand, within HMPREF1058_RS01185 at 187.281 kb on + strand, within HMPREF1058_RS01185 at 187.282 kb on - strand, within HMPREF1058_RS01185 at 187.360 kb on - strand, within HMPREF1058_RS01185 at 187.362 kb on - strand, within HMPREF1058_RS01185 at 187.369 kb on - strand, within HMPREF1058_RS01185 at 187.374 kb on - strand, within HMPREF1058_RS01185 at 187.542 kb on + strand, within HMPREF1058_RS01185 at 187.543 kb on - strand, within HMPREF1058_RS01185 at 187.580 kb on + strand, within HMPREF1058_RS01185 at 187.634 kb on + strand, within HMPREF1058_RS01185 at 187.651 kb on + strand, within HMPREF1058_RS01185 at 187.703 kb on + strand at 187.776 kb on - strand at 187.799 kb on + strand at 187.919 kb on + strand at 187.923 kb on - strand at 187.936 kb on + strand at 187.960 kb on - strand at 188.156 kb on + strand, within HMPREF1058_RS01180 at 188.193 kb on - strand, within HMPREF1058_RS01180 at 188.193 kb on - strand, within HMPREF1058_RS01180 at 188.319 kb on + strand, within HMPREF1058_RS01180 at 188.319 kb on + strand, within HMPREF1058_RS01180 at 188.320 kb on - strand, within HMPREF1058_RS01180 at 188.320 kb on - strand, within HMPREF1058_RS01180 at 188.320 kb on - strand at 188.348 kb on + strand, within HMPREF1058_RS01180 at 188.408 kb on + strand, within HMPREF1058_RS01180 at 188.547 kb on - strand, within HMPREF1058_RS01180 at 188.570 kb on + strand, within HMPREF1058_RS01180 at 188.648 kb on - strand at 188.653 kb on + strand at 188.744 kb on + strand at 188.778 kb on + strand at 188.778 kb on + strand at 188.779 kb on - strand at 188.779 kb on - strand at 188.807 kb on - strand at 188.827 kb on - strand at 188.827 kb on - strand at 188.833 kb on - strand at 188.836 kb on + strand at 188.882 kb on + strand
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; day5 remove 184,572 + -1.2 184,626 + -0.1 184,626 + -0.9 184,626 + +3.0 184,626 + -1.6 184,627 - -0.6 184,627 - -0.6 184,629 + -0.6 184,630 - +0.4 184,653 + -0.7 184,690 - +3.1 184,851 + HMPREF1058_RS01190 0.21 +0.2 184,852 - HMPREF1058_RS01190 0.21 +0.4 184,852 - HMPREF1058_RS01190 0.21 +0.7 184,857 - HMPREF1058_RS01190 0.21 -0.9 184,923 + HMPREF1058_RS01190 0.29 -0.0 184,924 - HMPREF1058_RS01190 0.29 +1.2 184,958 - HMPREF1058_RS01190 0.33 +0.4 184,970 - HMPREF1058_RS01190 0.34 -1.0 184,970 - HMPREF1058_RS01190 0.34 +0.8 184,974 - HMPREF1058_RS01190 0.35 +1.1 185,062 - HMPREF1058_RS01190 0.44 +1.0 185,073 + HMPREF1058_RS01190 0.46 +1.4 185,077 - HMPREF1058_RS01190 0.46 -0.5 185,092 - HMPREF1058_RS01190 0.48 -1.0 185,096 + HMPREF1058_RS01190 0.48 -0.2 185,099 - HMPREF1058_RS01190 0.49 +0.0 185,163 - HMPREF1058_RS01190 0.56 +0.4 185,164 + HMPREF1058_RS01190 0.56 -1.6 185,166 + HMPREF1058_RS01190 0.56 +0.0 185,167 - HMPREF1058_RS01190 0.56 -0.2 185,169 + HMPREF1058_RS01190 0.57 +0.5 185,169 + HMPREF1058_RS01190 0.57 -2.6 185,169 + HMPREF1058_RS01190 0.57 +0.4 185,169 + HMPREF1058_RS01190 0.57 +1.4 185,169 + HMPREF1058_RS01190 0.57 +0.7 185,170 - HMPREF1058_RS01190 0.57 -1.2 185,173 + HMPREF1058_RS01190 0.57 +4.6 185,174 - HMPREF1058_RS01190 0.57 +0.1 185,174 - HMPREF1058_RS01190 0.57 -0.6 185,176 - HMPREF1058_RS01190 0.57 -1.9 185,206 + HMPREF1058_RS01190 0.61 +2.4 185,206 + HMPREF1058_RS01190 0.61 -0.6 185,212 - HMPREF1058_RS01190 0.61 -0.2 185,270 + HMPREF1058_RS01190 0.68 +1.2 185,270 + HMPREF1058_RS01190 0.68 +0.4 185,316 - HMPREF1058_RS01190 0.73 +0.6 185,449 - HMPREF1058_RS01190 0.88 +1.4 185,449 - HMPREF1058_RS01190 0.88 -1.6 185,449 - HMPREF1058_RS01190 0.88 +0.4 185,473 + -0.6 185,473 + +0.2 185,474 - -1.3 185,478 - -2.8 185,478 - +0.1 185,547 - -0.5 185,548 + -1.0 185,549 - +2.1 185,549 - +1.0 185,552 + -0.6 185,609 - -1.0 185,612 + -1.0 185,612 + +0.8 185,613 - +0.4 185,613 - +0.9 185,613 - -0.2 185,616 + -1.2 185,616 + -1.6 185,616 + -1.9 185,617 - -1.9 185,617 - -1.2 185,636 + -0.8 185,646 + -0.2 185,647 - -0.5 185,651 + +0.8 185,755 + +0.1 185,755 + +1.0 185,755 + +0.9 185,755 + +1.7 185,761 - +0.9 185,761 - +0.8 185,761 - -0.2 185,763 + -1.4 185,800 - HMPREF1058_RS01185 0.10 +0.6 185,863 - HMPREF1058_RS01185 0.13 -1.2 185,863 - HMPREF1058_RS01185 0.13 -1.6 185,916 - HMPREF1058_RS01185 0.15 +1.4 185,916 - HMPREF1058_RS01185 0.15 +0.4 185,930 + HMPREF1058_RS01185 0.16 -0.0 185,953 - HMPREF1058_RS01185 0.17 +1.2 185,953 - HMPREF1058_RS01185 0.17 +1.1 185,991 + HMPREF1058_RS01185 0.18 -0.6 185,991 + HMPREF1058_RS01185 0.18 -2.2 186,060 - HMPREF1058_RS01185 0.21 +2.1 186,062 - HMPREF1058_RS01185 0.21 +0.4 186,062 - HMPREF1058_RS01185 0.21 +0.2 186,087 + HMPREF1058_RS01185 0.22 -2.1 186,087 + HMPREF1058_RS01185 0.22 -0.6 186,087 + HMPREF1058_RS01185 0.22 +0.5 186,128 + HMPREF1058_RS01185 0.24 +0.5 186,133 - HMPREF1058_RS01185 0.24 +1.7 186,197 + HMPREF1058_RS01185 0.27 +2.6 186,246 + HMPREF1058_RS01185 0.29 +0.7 186,261 + HMPREF1058_RS01185 0.30 -0.2 186,261 + HMPREF1058_RS01185 0.30 -0.3 186,262 - HMPREF1058_RS01185 0.30 -0.6 186,308 + HMPREF1058_RS01185 0.32 +3.3 186,309 - HMPREF1058_RS01185 0.32 -1.2 186,400 - HMPREF1058_RS01185 0.36 +0.4 186,401 + HMPREF1058_RS01185 0.36 -0.4 186,408 - HMPREF1058_RS01185 0.36 +0.6 186,419 + HMPREF1058_RS01185 0.36 -0.6 186,460 + HMPREF1058_RS01185 0.38 +1.0 186,465 + HMPREF1058_RS01185 0.38 +0.7 186,466 - HMPREF1058_RS01185 0.38 +1.4 186,486 + HMPREF1058_RS01185 0.39 -1.6 186,487 - HMPREF1058_RS01185 0.39 +0.6 186,487 - HMPREF1058_RS01185 0.39 +0.4 186,488 + HMPREF1058_RS01185 0.39 +3.1 186,489 - HMPREF1058_RS01185 0.39 +2.2 186,555 + HMPREF1058_RS01185 0.42 -1.2 186,755 + HMPREF1058_RS01185 0.51 +0.4 186,757 + HMPREF1058_RS01185 0.51 +0.9 186,757 + HMPREF1058_RS01185 0.51 -0.6 186,758 - HMPREF1058_RS01185 0.51 -1.9 186,795 + HMPREF1058_RS01185 0.52 +0.0 186,808 - HMPREF1058_RS01185 0.53 -1.2 186,915 + HMPREF1058_RS01185 0.58 -0.8 186,987 + HMPREF1058_RS01185 0.61 +1.1 186,987 + HMPREF1058_RS01185 0.61 -1.9 186,987 + HMPREF1058_RS01185 0.61 +0.4 186,988 - HMPREF1058_RS01185 0.61 +0.4 186,989 + HMPREF1058_RS01185 0.61 +0.4 187,038 - HMPREF1058_RS01185 0.63 +1.4 187,091 - HMPREF1058_RS01185 0.65 +0.4 187,187 - HMPREF1058_RS01185 0.69 -1.4 187,206 + HMPREF1058_RS01185 0.70 +0.4 187,206 + HMPREF1058_RS01185 0.70 +1.0 187,248 + HMPREF1058_RS01185 0.72 -2.2 187,269 + HMPREF1058_RS01185 0.73 -0.6 187,281 + HMPREF1058_RS01185 0.73 +2.5 187,282 - HMPREF1058_RS01185 0.73 +1.3 187,360 - HMPREF1058_RS01185 0.76 +0.8 187,362 - HMPREF1058_RS01185 0.77 +1.7 187,369 - HMPREF1058_RS01185 0.77 +2.8 187,374 - HMPREF1058_RS01185 0.77 +0.4 187,542 + HMPREF1058_RS01185 0.84 +2.4 187,543 - HMPREF1058_RS01185 0.84 +0.4 187,580 + HMPREF1058_RS01185 0.86 -1.2 187,634 + HMPREF1058_RS01185 0.88 -0.3 187,651 + HMPREF1058_RS01185 0.89 +1.0 187,703 + -0.6 187,776 - -0.6 187,799 + +1.7 187,919 + +0.7 187,923 - -0.4 187,936 + -0.1 187,960 - +0.4 188,156 + HMPREF1058_RS01180 0.27 +0.4 188,193 - HMPREF1058_RS01180 0.33 +1.0 188,193 - HMPREF1058_RS01180 0.33 +0.4 188,319 + HMPREF1058_RS01180 0.51 -2.2 188,319 + HMPREF1058_RS01180 0.51 -0.4 188,320 - HMPREF1058_RS01180 0.51 -1.1 188,320 - HMPREF1058_RS01180 0.51 +2.4 188,320 - -1.2 188,348 + HMPREF1058_RS01180 0.56 -1.9 188,408 + HMPREF1058_RS01180 0.64 -1.7 188,547 - HMPREF1058_RS01180 0.85 -0.6 188,570 + HMPREF1058_RS01180 0.88 -1.2 188,648 - -1.9 188,653 + -1.8 188,744 + -0.6 188,778 + -2.2 188,778 + -0.4 188,779 - +0.5 188,779 - +2.4 188,807 - +3.6 188,827 - +0.4 188,827 - -1.6 188,833 - -2.0 188,836 + +0.4 188,882 + +0.1
Or see this region's nucleotide sequence