Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse19; day7
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 HMPREF1078_RS11305 and HMPREF1078_RS11310 are separated by 6 nucleotides HMPREF1078_RS11310 and HMPREF1078_RS11315 are separated by 11 nucleotides HMPREF1078_RS11315 and HMPREF1078_RS11320 are separated by 96 nucleotides HMPREF1078_RS11320 and HMPREF1078_RS11325 are separated by 95 nucleotides HMPREF1078_RS11325 and HMPREF1078_RS11330 are separated by 21 nucleotides HMPREF1078_RS11330 and HMPREF1078_RS11335 are separated by 25 nucleotides
HMPREF1078_RS11305: HMPREF1078_RS11305 - orotate phosphoribosyltransferase, at 182,810 to 183,451
_RS11305
HMPREF1078_RS11310: HMPREF1078_RS11310 - polyketide cyclase, at 183,458 to 183,868
_RS11310
HMPREF1078_RS11315: HMPREF1078_RS11315 - argininosuccinate lyase, at 183,880 to 185,217
_RS11315
HMPREF1078_RS11320: HMPREF1078_RS11320 - hypothetical protein, at 185,314 to 185,679
_RS11320
HMPREF1078_RS11325: HMPREF1078_RS11325 - tRNA-Gly, at 185,775 to 185,847
_RS11325
HMPREF1078_RS11330: HMPREF1078_RS11330 - tRNA-Leu, at 185,869 to 185,953
_RS11330
HMPREF1078_RS11335: HMPREF1078_RS11335 - tRNA-Gly, at 185,979 to 186,051
_RS11335
Position (kb) 183
184
185
186 Strain fitness (log2 ratio) -3
-2
-1
0
1
2 at 183.449 kb on + strand at 183.509 kb on - strand, within HMPREF1078_RS11310 at 183.517 kb on + strand, within HMPREF1078_RS11310 at 183.517 kb on + strand, within HMPREF1078_RS11310 at 183.517 kb on + strand, within HMPREF1078_RS11310 at 183.517 kb on + strand, within HMPREF1078_RS11310 at 183.518 kb on - strand, within HMPREF1078_RS11310 at 183.518 kb on - strand, within HMPREF1078_RS11310 at 183.540 kb on + strand, within HMPREF1078_RS11310 at 183.540 kb on + strand, within HMPREF1078_RS11310 at 183.637 kb on - strand, within HMPREF1078_RS11310 at 183.726 kb on + strand, within HMPREF1078_RS11310 at 183.736 kb on - strand, within HMPREF1078_RS11310 at 183.762 kb on + strand, within HMPREF1078_RS11310 at 183.791 kb on - strand, within HMPREF1078_RS11310 at 183.805 kb on - strand, within HMPREF1078_RS11310 at 183.805 kb on - strand, within HMPREF1078_RS11310 at 183.864 kb on - strand at 183.864 kb on - strand at 183.866 kb on + strand at 183.867 kb on - strand at 183.867 kb on - strand at 183.930 kb on + strand at 183.936 kb on + strand at 183.936 kb on + strand at 183.937 kb on - strand at 183.937 kb on - strand at 183.937 kb on - strand at 183.967 kb on + strand at 183.967 kb on + strand at 183.967 kb on + strand at 183.967 kb on + strand at 183.979 kb on + strand at 183.979 kb on + strand at 183.979 kb on + strand at 183.979 kb on + strand at 184.035 kb on + strand, within HMPREF1078_RS11315 at 184.077 kb on + strand, within HMPREF1078_RS11315 at 184.078 kb on - strand, within HMPREF1078_RS11315 at 184.081 kb on + strand, within HMPREF1078_RS11315 at 184.082 kb on - strand, within HMPREF1078_RS11315 at 184.082 kb on - strand, within HMPREF1078_RS11315 at 184.191 kb on - strand, within HMPREF1078_RS11315 at 184.209 kb on + strand, within HMPREF1078_RS11315 at 184.318 kb on + strand, within HMPREF1078_RS11315 at 184.318 kb on + strand, within HMPREF1078_RS11315 at 184.318 kb on + strand, within HMPREF1078_RS11315 at 184.320 kb on + strand, within HMPREF1078_RS11315 at 184.344 kb on + strand, within HMPREF1078_RS11315 at 184.344 kb on + strand, within HMPREF1078_RS11315 at 184.344 kb on + strand, within HMPREF1078_RS11315 at 184.345 kb on - strand, within HMPREF1078_RS11315 at 184.345 kb on - strand, within HMPREF1078_RS11315 at 184.345 kb on - strand, within HMPREF1078_RS11315 at 184.345 kb on - strand, within HMPREF1078_RS11315 at 184.345 kb on - strand, within HMPREF1078_RS11315 at 184.352 kb on + strand, within HMPREF1078_RS11315 at 184.396 kb on + strand, within HMPREF1078_RS11315 at 184.396 kb on + strand, within HMPREF1078_RS11315 at 184.441 kb on + strand, within HMPREF1078_RS11315 at 184.442 kb on - strand, within HMPREF1078_RS11315 at 184.549 kb on + strand, within HMPREF1078_RS11315 at 184.549 kb on + strand, within HMPREF1078_RS11315 at 184.549 kb on + strand, within HMPREF1078_RS11315 at 184.550 kb on - strand, within HMPREF1078_RS11315 at 184.551 kb on + strand, within HMPREF1078_RS11315 at 184.593 kb on + strand, within HMPREF1078_RS11315 at 184.593 kb on + strand, within HMPREF1078_RS11315 at 184.594 kb on - strand, within HMPREF1078_RS11315 at 184.656 kb on + strand, within HMPREF1078_RS11315 at 184.656 kb on + strand, within HMPREF1078_RS11315 at 184.656 kb on + strand, within HMPREF1078_RS11315 at 184.656 kb on + strand, within HMPREF1078_RS11315 at 184.656 kb on + strand, within HMPREF1078_RS11315 at 184.656 kb on + strand, within HMPREF1078_RS11315 at 184.656 kb on + strand, within HMPREF1078_RS11315 at 184.656 kb on + strand, within HMPREF1078_RS11315 at 184.657 kb on - strand, within HMPREF1078_RS11315 at 184.657 kb on - strand, within HMPREF1078_RS11315 at 184.657 kb on - strand, within HMPREF1078_RS11315 at 184.719 kb on + strand, within HMPREF1078_RS11315 at 184.731 kb on + strand, within HMPREF1078_RS11315 at 184.748 kb on + strand, within HMPREF1078_RS11315 at 184.749 kb on - strand, within HMPREF1078_RS11315 at 184.835 kb on - strand, within HMPREF1078_RS11315 at 184.856 kb on + strand, within HMPREF1078_RS11315 at 184.865 kb on + strand, within HMPREF1078_RS11315 at 184.865 kb on + strand, within HMPREF1078_RS11315 at 184.865 kb on + strand, within HMPREF1078_RS11315 at 184.865 kb on + strand, within HMPREF1078_RS11315 at 184.953 kb on - strand, within HMPREF1078_RS11315 at 184.995 kb on - strand, within HMPREF1078_RS11315 at 185.016 kb on + strand, within HMPREF1078_RS11315 at 185.016 kb on + strand, within HMPREF1078_RS11315 at 185.016 kb on + strand, within HMPREF1078_RS11315 at 185.016 kb on + strand, within HMPREF1078_RS11315 at 185.016 kb on + strand, within HMPREF1078_RS11315 at 185.017 kb on - strand, within HMPREF1078_RS11315 at 185.017 kb on - strand, within HMPREF1078_RS11315 at 185.035 kb on + strand, within HMPREF1078_RS11315 at 185.036 kb on - strand, within HMPREF1078_RS11315 at 185.046 kb on - strand, within HMPREF1078_RS11315 at 185.097 kb on + strand at 185.124 kb on - strand at 185.157 kb on + strand at 185.158 kb on - strand at 185.158 kb on - strand at 185.178 kb on + strand at 185.215 kb on + strand at 185.215 kb on + strand at 185.237 kb on + strand at 185.246 kb on + strand at 185.246 kb on + strand at 185.247 kb on - strand at 185.250 kb on + strand at 185.250 kb on + strand at 185.250 kb on + strand at 185.250 kb on + strand at 185.250 kb on + strand at 185.251 kb on - strand at 185.251 kb on - strand at 185.252 kb on + strand at 185.253 kb on - strand at 185.253 kb on - strand at 185.253 kb on - strand at 185.253 kb on - strand at 185.253 kb on - strand at 185.258 kb on + strand at 185.258 kb on + strand at 185.259 kb on - strand at 185.259 kb on - strand at 185.259 kb on - strand at 185.259 kb on - strand at 185.292 kb on + strand at 185.294 kb on + strand at 185.294 kb on + strand at 185.294 kb on + strand at 185.294 kb on + strand at 185.295 kb on - strand at 185.299 kb on + strand at 185.299 kb on + strand at 185.309 kb on + strand at 185.310 kb on - strand at 185.321 kb on + strand at 185.322 kb on - strand at 185.351 kb on + strand, within HMPREF1078_RS11320 at 185.352 kb on - strand, within HMPREF1078_RS11320 at 185.357 kb on + strand, within HMPREF1078_RS11320 at 185.357 kb on + strand, within HMPREF1078_RS11320 at 185.357 kb on + strand, within HMPREF1078_RS11320 at 185.357 kb on + strand, within HMPREF1078_RS11320 at 185.357 kb on + strand, within HMPREF1078_RS11320 at 185.358 kb on - strand, within HMPREF1078_RS11320 at 185.359 kb on + strand, within HMPREF1078_RS11320 at 185.359 kb on + strand, within HMPREF1078_RS11320 at 185.359 kb on + strand, within HMPREF1078_RS11320 at 185.359 kb on + strand, within HMPREF1078_RS11320 at 185.359 kb on + strand, within HMPREF1078_RS11320 at 185.360 kb on - strand, within HMPREF1078_RS11320 at 185.360 kb on - strand, within HMPREF1078_RS11320 at 185.360 kb on - strand, within HMPREF1078_RS11320 at 185.379 kb on + strand, within HMPREF1078_RS11320 at 185.380 kb on - strand, within HMPREF1078_RS11320 at 185.380 kb on - strand, within HMPREF1078_RS11320 at 185.388 kb on + strand, within HMPREF1078_RS11320 at 185.429 kb on + strand, within HMPREF1078_RS11320 at 185.430 kb on - strand, within HMPREF1078_RS11320 at 185.447 kb on - strand, within HMPREF1078_RS11320 at 185.462 kb on - strand, within HMPREF1078_RS11320 at 185.464 kb on + strand, within HMPREF1078_RS11320 at 185.464 kb on + strand, within HMPREF1078_RS11320 at 185.465 kb on - strand, within HMPREF1078_RS11320 at 185.465 kb on - strand, within HMPREF1078_RS11320 at 185.505 kb on + strand, within HMPREF1078_RS11320 at 185.514 kb on - strand, within HMPREF1078_RS11320 at 185.514 kb on - strand, within HMPREF1078_RS11320 at 185.514 kb on - strand, within HMPREF1078_RS11320 at 185.563 kb on + strand, within HMPREF1078_RS11320 at 185.563 kb on + strand, within HMPREF1078_RS11320 at 185.564 kb on - strand, within HMPREF1078_RS11320 at 185.626 kb on + strand, within HMPREF1078_RS11320 at 185.630 kb on - strand, within HMPREF1078_RS11320 at 185.974 kb on - strand at 185.999 kb on - strand, within HMPREF1078_RS11335 at 186.083 kb on + strand at 186.096 kb on + strand at 186.102 kb on - strand at 186.157 kb on + strand at 186.157 kb on + strand at 186.158 kb on - strand at 186.173 kb on - strand at 186.173 kb on - strand at 186.184 kb on + strand at 186.213 kb on - strand
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse19; day7 remove 183,449 + -1.0 183,509 - HMPREF1078_RS11310 0.12 +1.3 183,517 + HMPREF1078_RS11310 0.14 -0.9 183,517 + HMPREF1078_RS11310 0.14 -1.0 183,517 + HMPREF1078_RS11310 0.14 -0.2 183,517 + HMPREF1078_RS11310 0.14 -1.6 183,518 - HMPREF1078_RS11310 0.15 +0.3 183,518 - HMPREF1078_RS11310 0.15 -0.3 183,540 + HMPREF1078_RS11310 0.20 -0.7 183,540 + HMPREF1078_RS11310 0.20 -2.2 183,637 - HMPREF1078_RS11310 0.44 +1.3 183,726 + HMPREF1078_RS11310 0.65 +0.3 183,736 - HMPREF1078_RS11310 0.68 -0.7 183,762 + HMPREF1078_RS11310 0.74 +0.5 183,791 - HMPREF1078_RS11310 0.81 +1.3 183,805 - HMPREF1078_RS11310 0.84 +0.7 183,805 - HMPREF1078_RS11310 0.84 -2.4 183,864 - -2.2 183,864 - -1.3 183,866 + +1.6 183,867 - -2.9 183,867 - -1.9 183,930 + -0.0 183,936 + -2.9 183,936 + -0.7 183,937 - -2.2 183,937 - -1.8 183,937 - -0.9 183,967 + -0.6 183,967 + -0.8 183,967 + +0.3 183,967 + -0.9 183,979 + -0.4 183,979 + -2.9 183,979 + -2.8 183,979 + -1.6 184,035 + HMPREF1078_RS11315 0.12 -1.2 184,077 + HMPREF1078_RS11315 0.15 -1.9 184,078 - HMPREF1078_RS11315 0.15 -1.4 184,081 + HMPREF1078_RS11315 0.15 -3.7 184,082 - HMPREF1078_RS11315 0.15 +0.7 184,082 - HMPREF1078_RS11315 0.15 -1.8 184,191 - HMPREF1078_RS11315 0.23 -0.5 184,209 + HMPREF1078_RS11315 0.25 -0.0 184,318 + HMPREF1078_RS11315 0.33 +0.3 184,318 + HMPREF1078_RS11315 0.33 -0.7 184,318 + HMPREF1078_RS11315 0.33 -2.6 184,320 + HMPREF1078_RS11315 0.33 -2.2 184,344 + HMPREF1078_RS11315 0.35 -2.2 184,344 + HMPREF1078_RS11315 0.35 -0.0 184,344 + HMPREF1078_RS11315 0.35 -0.9 184,345 - HMPREF1078_RS11315 0.35 -0.9 184,345 - HMPREF1078_RS11315 0.35 -2.8 184,345 - HMPREF1078_RS11315 0.35 -0.9 184,345 - HMPREF1078_RS11315 0.35 -3.5 184,345 - HMPREF1078_RS11315 0.35 -1.7 184,352 + HMPREF1078_RS11315 0.35 -2.1 184,396 + HMPREF1078_RS11315 0.39 -3.7 184,396 + HMPREF1078_RS11315 0.39 -1.2 184,441 + HMPREF1078_RS11315 0.42 -2.8 184,442 - HMPREF1078_RS11315 0.42 +1.3 184,549 + HMPREF1078_RS11315 0.50 +1.3 184,549 + HMPREF1078_RS11315 0.50 -1.2 184,549 + HMPREF1078_RS11315 0.50 -1.3 184,550 - HMPREF1078_RS11315 0.50 -2.3 184,551 + HMPREF1078_RS11315 0.50 -0.6 184,593 + HMPREF1078_RS11315 0.53 -1.7 184,593 + HMPREF1078_RS11315 0.53 -1.7 184,594 - HMPREF1078_RS11315 0.53 +0.5 184,656 + HMPREF1078_RS11315 0.58 -2.5 184,656 + HMPREF1078_RS11315 0.58 +1.3 184,656 + HMPREF1078_RS11315 0.58 -2.1 184,656 + HMPREF1078_RS11315 0.58 -2.3 184,656 + HMPREF1078_RS11315 0.58 -1.8 184,656 + HMPREF1078_RS11315 0.58 -1.5 184,656 + HMPREF1078_RS11315 0.58 -1.9 184,656 + HMPREF1078_RS11315 0.58 -2.7 184,657 - HMPREF1078_RS11315 0.58 -0.9 184,657 - HMPREF1078_RS11315 0.58 -0.9 184,657 - HMPREF1078_RS11315 0.58 -1.3 184,719 + HMPREF1078_RS11315 0.63 -0.0 184,731 + HMPREF1078_RS11315 0.64 -1.0 184,748 + HMPREF1078_RS11315 0.65 -1.2 184,749 - HMPREF1078_RS11315 0.65 -0.3 184,835 - HMPREF1078_RS11315 0.71 -1.3 184,856 + HMPREF1078_RS11315 0.73 -0.0 184,865 + HMPREF1078_RS11315 0.74 -2.3 184,865 + HMPREF1078_RS11315 0.74 -2.1 184,865 + HMPREF1078_RS11315 0.74 -2.4 184,865 + HMPREF1078_RS11315 0.74 -1.4 184,953 - HMPREF1078_RS11315 0.80 -0.9 184,995 - HMPREF1078_RS11315 0.83 -1.9 185,016 + HMPREF1078_RS11315 0.85 -0.3 185,016 + HMPREF1078_RS11315 0.85 -1.3 185,016 + HMPREF1078_RS11315 0.85 -1.9 185,016 + HMPREF1078_RS11315 0.85 -2.3 185,016 + HMPREF1078_RS11315 0.85 -1.9 185,017 - HMPREF1078_RS11315 0.85 +2.3 185,017 - HMPREF1078_RS11315 0.85 -0.2 185,035 + HMPREF1078_RS11315 0.86 -0.9 185,036 - HMPREF1078_RS11315 0.86 -0.5 185,046 - HMPREF1078_RS11315 0.87 +0.3 185,097 + -0.9 185,124 - -3.2 185,157 + -2.2 185,158 - +0.7 185,158 - +0.3 185,178 + -1.9 185,215 + +1.5 185,215 + -0.0 185,237 + +0.3 185,246 + -0.0 185,246 + -0.8 185,247 - -1.2 185,250 + +1.0 185,250 + +1.3 185,250 + -0.4 185,250 + -2.5 185,250 + +0.5 185,251 - -1.5 185,251 - +0.2 185,252 + +1.5 185,253 - -0.4 185,253 - -1.3 185,253 - +2.3 185,253 - +2.7 185,253 - -2.2 185,258 + -1.2 185,258 + +1.8 185,259 - -0.2 185,259 - -2.4 185,259 - -0.9 185,259 - -1.6 185,292 + -1.4 185,294 + -2.2 185,294 + -1.8 185,294 + -0.5 185,294 + -0.3 185,295 - +0.1 185,299 + +0.7 185,299 + -0.9 185,309 + +0.9 185,310 - +0.3 185,321 + +0.4 185,322 - -1.1 185,351 + HMPREF1078_RS11320 0.10 -0.3 185,352 - HMPREF1078_RS11320 0.10 -1.4 185,357 + HMPREF1078_RS11320 0.12 -0.0 185,357 + HMPREF1078_RS11320 0.12 +1.3 185,357 + HMPREF1078_RS11320 0.12 -1.0 185,357 + HMPREF1078_RS11320 0.12 -0.6 185,357 + HMPREF1078_RS11320 0.12 -2.0 185,358 - HMPREF1078_RS11320 0.12 -0.3 185,359 + HMPREF1078_RS11320 0.12 -1.6 185,359 + HMPREF1078_RS11320 0.12 +0.3 185,359 + HMPREF1078_RS11320 0.12 -1.0 185,359 + HMPREF1078_RS11320 0.12 -1.5 185,359 + HMPREF1078_RS11320 0.12 -1.2 185,360 - HMPREF1078_RS11320 0.13 +1.1 185,360 - HMPREF1078_RS11320 0.13 -1.9 185,360 - HMPREF1078_RS11320 0.13 -2.3 185,379 + HMPREF1078_RS11320 0.18 -0.0 185,380 - HMPREF1078_RS11320 0.18 -1.0 185,380 - HMPREF1078_RS11320 0.18 +0.4 185,388 + HMPREF1078_RS11320 0.20 -1.7 185,429 + HMPREF1078_RS11320 0.31 -0.0 185,430 - HMPREF1078_RS11320 0.32 -0.7 185,447 - HMPREF1078_RS11320 0.36 -0.2 185,462 - HMPREF1078_RS11320 0.40 -0.0 185,464 + HMPREF1078_RS11320 0.41 -2.4 185,464 + HMPREF1078_RS11320 0.41 +1.3 185,465 - HMPREF1078_RS11320 0.41 +0.5 185,465 - HMPREF1078_RS11320 0.41 -1.7 185,505 + HMPREF1078_RS11320 0.52 -2.1 185,514 - HMPREF1078_RS11320 0.55 -0.7 185,514 - HMPREF1078_RS11320 0.55 +1.7 185,514 - HMPREF1078_RS11320 0.55 -0.9 185,563 + HMPREF1078_RS11320 0.68 -2.4 185,563 + HMPREF1078_RS11320 0.68 -2.4 185,564 - HMPREF1078_RS11320 0.68 -1.4 185,626 + HMPREF1078_RS11320 0.85 +1.0 185,630 - HMPREF1078_RS11320 0.86 -0.9 185,974 - +0.4 185,999 - HMPREF1078_RS11335 0.27 -0.9 186,083 + -0.3 186,096 + -1.0 186,102 - -0.0 186,157 + +0.2 186,157 + +0.3 186,158 - -0.0 186,173 - -1.2 186,173 - +0.5 186,184 + -0.1 186,213 - -1.8
Or see this region's nucleotide sequence