Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse9; day1
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_RS14000 and HMPREF1058_RS13995 are separated by 100 nucleotides HMPREF1058_RS13995 and HMPREF1058_RS13990 are separated by 264 nucleotides HMPREF1058_RS13990 and HMPREF1058_RS13985 overlap by 20 nucleotides HMPREF1058_RS13985 and HMPREF1058_RS13980 are separated by 163 nucleotides
HMPREF1058_RS14000: HMPREF1058_RS14000 - helix-turn-helix domain-containing protein, at 1,311,512 to 1,312,372
_RS14000
HMPREF1058_RS13995: HMPREF1058_RS13995 - tRNA-Pro, at 1,312,473 to 1,312,547
_RS13995
HMPREF1058_RS13990: HMPREF1058_RS13990 - DNA polymerase IV, at 1,312,812 to 1,313,906
_RS13990
HMPREF1058_RS13985: HMPREF1058_RS13985 - ADP-ribosylglycohydrolase family protein, at 1,313,887 to 1,314,675
_RS13985
HMPREF1058_RS13980: HMPREF1058_RS13980 - 2,3-diphosphoglycerate-dependent phosphoglycerate mutase, at 1,314,839 to 1,315,600
_RS13980
Position (kb) 1312
1313
1314 Strain fitness (log2 ratio) -5
-4
-3
-2
-1
0
1
2
3 at 1311.894 kb on - strand, within HMPREF1058_RS14000 at 1311.905 kb on + strand, within HMPREF1058_RS14000 at 1311.906 kb on - strand, within HMPREF1058_RS14000 at 1311.906 kb on - strand, within HMPREF1058_RS14000 at 1311.915 kb on + strand, within HMPREF1058_RS14000 at 1311.966 kb on + strand, within HMPREF1058_RS14000 at 1311.966 kb on + strand, within HMPREF1058_RS14000 at 1311.967 kb on - strand, within HMPREF1058_RS14000 at 1311.967 kb on - strand, within HMPREF1058_RS14000 at 1311.982 kb on + strand, within HMPREF1058_RS14000 at 1311.984 kb on + strand, within HMPREF1058_RS14000 at 1311.996 kb on + strand, within HMPREF1058_RS14000 at 1311.996 kb on + strand, within HMPREF1058_RS14000 at 1311.997 kb on - strand, within HMPREF1058_RS14000 at 1312.016 kb on + strand, within HMPREF1058_RS14000 at 1312.027 kb on + strand, within HMPREF1058_RS14000 at 1312.028 kb on - strand, within HMPREF1058_RS14000 at 1312.036 kb on + strand, within HMPREF1058_RS14000 at 1312.077 kb on - strand, within HMPREF1058_RS14000 at 1312.098 kb on - strand, within HMPREF1058_RS14000 at 1312.108 kb on + strand, within HMPREF1058_RS14000 at 1312.154 kb on + strand, within HMPREF1058_RS14000 at 1312.155 kb on - strand, within HMPREF1058_RS14000 at 1312.167 kb on + strand, within HMPREF1058_RS14000 at 1312.230 kb on + strand, within HMPREF1058_RS14000 at 1312.272 kb on + strand, within HMPREF1058_RS14000 at 1312.308 kb on + strand at 1312.336 kb on + strand at 1312.337 kb on - strand at 1312.370 kb on + strand at 1312.383 kb on - strand at 1312.569 kb on + strand at 1312.594 kb on - strand at 1312.598 kb on + strand at 1312.673 kb on + strand at 1312.689 kb on + strand at 1312.690 kb on - strand at 1312.736 kb on + strand at 1312.746 kb on - strand at 1312.746 kb on - strand at 1312.746 kb on - strand at 1312.831 kb on + strand at 1312.831 kb on + strand at 1312.832 kb on - strand at 1312.835 kb on + strand at 1312.854 kb on + strand at 1312.937 kb on - strand, within HMPREF1058_RS13990 at 1312.972 kb on + strand, within HMPREF1058_RS13990 at 1312.973 kb on - strand, within HMPREF1058_RS13990 at 1313.047 kb on + strand, within HMPREF1058_RS13990 at 1313.050 kb on - strand, within HMPREF1058_RS13990 at 1313.051 kb on + strand, within HMPREF1058_RS13990 at 1313.051 kb on + strand, within HMPREF1058_RS13990 at 1313.052 kb on - strand, within HMPREF1058_RS13990 at 1313.079 kb on - strand, within HMPREF1058_RS13990 at 1313.087 kb on + strand, within HMPREF1058_RS13990 at 1313.087 kb on + strand, within HMPREF1058_RS13990 at 1313.091 kb on + strand, within HMPREF1058_RS13990 at 1313.091 kb on + strand, within HMPREF1058_RS13990 at 1313.092 kb on - strand, within HMPREF1058_RS13990 at 1313.099 kb on + strand, within HMPREF1058_RS13990 at 1313.099 kb on + strand, within HMPREF1058_RS13990 at 1313.104 kb on + strand, within HMPREF1058_RS13990 at 1313.141 kb on - strand, within HMPREF1058_RS13990 at 1313.172 kb on - strand, within HMPREF1058_RS13990 at 1313.173 kb on + strand, within HMPREF1058_RS13990 at 1313.173 kb on + strand, within HMPREF1058_RS13990 at 1313.174 kb on - strand, within HMPREF1058_RS13990 at 1313.174 kb on - strand, within HMPREF1058_RS13990 at 1313.174 kb on - strand, within HMPREF1058_RS13990 at 1313.174 kb on - strand, within HMPREF1058_RS13990 at 1313.178 kb on - strand, within HMPREF1058_RS13990 at 1313.192 kb on - strand, within HMPREF1058_RS13990 at 1313.225 kb on - strand, within HMPREF1058_RS13990 at 1313.300 kb on + strand, within HMPREF1058_RS13990 at 1313.305 kb on + strand, within HMPREF1058_RS13990 at 1313.305 kb on + strand, within HMPREF1058_RS13990 at 1313.305 kb on + strand, within HMPREF1058_RS13990 at 1313.305 kb on + strand at 1313.305 kb on + strand, within HMPREF1058_RS13990 at 1313.306 kb on - strand, within HMPREF1058_RS13990 at 1313.306 kb on - strand, within HMPREF1058_RS13990 at 1313.365 kb on + strand, within HMPREF1058_RS13990 at 1313.366 kb on - strand, within HMPREF1058_RS13990 at 1313.366 kb on - strand, within HMPREF1058_RS13990 at 1313.399 kb on - strand, within HMPREF1058_RS13990 at 1313.422 kb on + strand, within HMPREF1058_RS13990 at 1313.422 kb on + strand, within HMPREF1058_RS13990 at 1313.476 kb on + strand, within HMPREF1058_RS13990 at 1313.476 kb on + strand, within HMPREF1058_RS13990 at 1313.476 kb on + strand, within HMPREF1058_RS13990 at 1313.477 kb on - strand, within HMPREF1058_RS13990 at 1313.477 kb on - strand, within HMPREF1058_RS13990 at 1313.478 kb on + strand, within HMPREF1058_RS13990 at 1313.524 kb on + strand, within HMPREF1058_RS13990 at 1313.602 kb on + strand, within HMPREF1058_RS13990 at 1313.604 kb on + strand, within HMPREF1058_RS13990 at 1313.604 kb on + strand, within HMPREF1058_RS13990 at 1313.612 kb on - strand, within HMPREF1058_RS13990 at 1313.658 kb on - strand, within HMPREF1058_RS13990 at 1313.660 kb on + strand, within HMPREF1058_RS13990 at 1313.660 kb on + strand, within HMPREF1058_RS13990 at 1313.672 kb on - strand, within HMPREF1058_RS13990 at 1313.677 kb on + strand, within HMPREF1058_RS13990 at 1313.745 kb on - strand, within HMPREF1058_RS13990 at 1313.909 kb on + strand at 1313.930 kb on + strand at 1313.982 kb on - strand, within HMPREF1058_RS13985 at 1313.984 kb on + strand, within HMPREF1058_RS13985 at 1313.986 kb on + strand, within HMPREF1058_RS13985 at 1313.986 kb on + strand, within HMPREF1058_RS13985 at 1314.044 kb on - strand, within HMPREF1058_RS13985 at 1314.069 kb on - strand, within HMPREF1058_RS13985 at 1314.073 kb on - strand, within HMPREF1058_RS13985 at 1314.115 kb on + strand, within HMPREF1058_RS13985 at 1314.115 kb on + strand, within HMPREF1058_RS13985 at 1314.115 kb on + strand, within HMPREF1058_RS13985 at 1314.185 kb on - strand, within HMPREF1058_RS13985 at 1314.199 kb on - strand, within HMPREF1058_RS13985 at 1314.207 kb on - strand, within HMPREF1058_RS13985 at 1314.246 kb on + strand, within HMPREF1058_RS13985 at 1314.247 kb on - strand, within HMPREF1058_RS13985 at 1314.247 kb on - strand, within HMPREF1058_RS13985 at 1314.248 kb on + strand, within HMPREF1058_RS13985 at 1314.248 kb on + strand, within HMPREF1058_RS13985 at 1314.249 kb on - strand, within HMPREF1058_RS13985 at 1314.267 kb on + strand, within HMPREF1058_RS13985 at 1314.271 kb on - strand, within HMPREF1058_RS13985 at 1314.285 kb on + strand, within HMPREF1058_RS13985 at 1314.306 kb on + strand, within HMPREF1058_RS13985 at 1314.310 kb on + strand, within HMPREF1058_RS13985 at 1314.348 kb on + strand, within HMPREF1058_RS13985 at 1314.348 kb on + strand, within HMPREF1058_RS13985 at 1314.364 kb on - strand, within HMPREF1058_RS13985 at 1314.448 kb on - strand, within HMPREF1058_RS13985 at 1314.456 kb on + strand, within HMPREF1058_RS13985 at 1314.457 kb on - strand, within HMPREF1058_RS13985 at 1314.523 kb on + strand, within HMPREF1058_RS13985 at 1314.523 kb on + strand, within HMPREF1058_RS13985 at 1314.582 kb on + strand, within HMPREF1058_RS13985 at 1314.663 kb on + strand at 1314.686 kb on + strand at 1314.686 kb on + strand at 1314.770 kb on + strand at 1314.770 kb on + strand at 1314.771 kb on - strand at 1314.774 kb on + strand at 1314.774 kb on + strand at 1314.774 kb on + strand at 1314.780 kb on - strand at 1314.780 kb on - strand at 1314.809 kb on + strand at 1314.853 kb on - strand at 1314.874 kb on + strand at 1314.899 kb on - strand
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse9; day1 remove 1,311,894 - HMPREF1058_RS14000 0.44 -0.5 1,311,905 + HMPREF1058_RS14000 0.46 -3.2 1,311,906 - HMPREF1058_RS14000 0.46 -4.5 1,311,906 - HMPREF1058_RS14000 0.46 +1.4 1,311,915 + HMPREF1058_RS14000 0.47 -2.0 1,311,966 + HMPREF1058_RS14000 0.53 -2.3 1,311,966 + HMPREF1058_RS14000 0.53 +0.2 1,311,967 - HMPREF1058_RS14000 0.53 -0.0 1,311,967 - HMPREF1058_RS14000 0.53 -0.0 1,311,982 + HMPREF1058_RS14000 0.55 -1.6 1,311,984 + HMPREF1058_RS14000 0.55 -2.6 1,311,996 + HMPREF1058_RS14000 0.56 -4.3 1,311,996 + HMPREF1058_RS14000 0.56 -3.5 1,311,997 - HMPREF1058_RS14000 0.56 +0.6 1,312,016 + HMPREF1058_RS14000 0.59 -3.6 1,312,027 + HMPREF1058_RS14000 0.60 -1.6 1,312,028 - HMPREF1058_RS14000 0.60 -1.7 1,312,036 + HMPREF1058_RS14000 0.61 +0.8 1,312,077 - HMPREF1058_RS14000 0.66 +0.2 1,312,098 - HMPREF1058_RS14000 0.68 -5.3 1,312,108 + HMPREF1058_RS14000 0.69 +1.8 1,312,154 + HMPREF1058_RS14000 0.75 -1.9 1,312,155 - HMPREF1058_RS14000 0.75 -0.0 1,312,167 + HMPREF1058_RS14000 0.76 -3.2 1,312,230 + HMPREF1058_RS14000 0.83 -0.2 1,312,272 + HMPREF1058_RS14000 0.88 -1.4 1,312,308 + +1.1 1,312,336 + -0.8 1,312,337 - -0.7 1,312,370 + +1.8 1,312,383 - -3.6 1,312,569 + -2.8 1,312,594 - -2.0 1,312,598 + +1.3 1,312,673 + +1.1 1,312,689 + -4.3 1,312,690 - +0.1 1,312,736 + +2.6 1,312,746 - -3.6 1,312,746 - +0.6 1,312,746 - -2.8 1,312,831 + +0.4 1,312,831 + -0.0 1,312,832 - +0.6 1,312,835 + -0.0 1,312,854 + -1.6 1,312,937 - HMPREF1058_RS13990 0.11 -3.2 1,312,972 + HMPREF1058_RS13990 0.15 -3.5 1,312,973 - HMPREF1058_RS13990 0.15 +0.5 1,313,047 + HMPREF1058_RS13990 0.21 +0.2 1,313,050 - HMPREF1058_RS13990 0.22 -1.8 1,313,051 + HMPREF1058_RS13990 0.22 +1.3 1,313,051 + HMPREF1058_RS13990 0.22 -0.9 1,313,052 - HMPREF1058_RS13990 0.22 -0.3 1,313,079 - HMPREF1058_RS13990 0.24 -2.6 1,313,087 + HMPREF1058_RS13990 0.25 -2.8 1,313,087 + HMPREF1058_RS13990 0.25 -3.2 1,313,091 + HMPREF1058_RS13990 0.25 +0.3 1,313,091 + HMPREF1058_RS13990 0.25 +1.6 1,313,092 - HMPREF1058_RS13990 0.26 +0.6 1,313,099 + HMPREF1058_RS13990 0.26 -0.7 1,313,099 + HMPREF1058_RS13990 0.26 -3.2 1,313,104 + HMPREF1058_RS13990 0.27 -2.0 1,313,141 - HMPREF1058_RS13990 0.30 -1.1 1,313,172 - HMPREF1058_RS13990 0.33 -4.0 1,313,173 + HMPREF1058_RS13990 0.33 +0.7 1,313,173 + HMPREF1058_RS13990 0.33 -3.0 1,313,174 - HMPREF1058_RS13990 0.33 -2.8 1,313,174 - HMPREF1058_RS13990 0.33 +0.3 1,313,174 - HMPREF1058_RS13990 0.33 -0.1 1,313,174 - HMPREF1058_RS13990 0.33 +0.7 1,313,178 - HMPREF1058_RS13990 0.33 -1.6 1,313,192 - HMPREF1058_RS13990 0.35 +0.4 1,313,225 - HMPREF1058_RS13990 0.38 -2.3 1,313,300 + HMPREF1058_RS13990 0.45 -0.9 1,313,305 + HMPREF1058_RS13990 0.45 +1.1 1,313,305 + HMPREF1058_RS13990 0.45 -4.0 1,313,305 + HMPREF1058_RS13990 0.45 -2.6 1,313,305 + -1.6 1,313,305 + HMPREF1058_RS13990 0.45 +0.9 1,313,306 - HMPREF1058_RS13990 0.45 +0.8 1,313,306 - HMPREF1058_RS13990 0.45 +0.5 1,313,365 + HMPREF1058_RS13990 0.51 -3.3 1,313,366 - HMPREF1058_RS13990 0.51 -2.0 1,313,366 - HMPREF1058_RS13990 0.51 -2.0 1,313,399 - HMPREF1058_RS13990 0.54 +1.2 1,313,422 + HMPREF1058_RS13990 0.56 +2.6 1,313,422 + HMPREF1058_RS13990 0.56 -1.6 1,313,476 + HMPREF1058_RS13990 0.61 +0.8 1,313,476 + HMPREF1058_RS13990 0.61 +0.1 1,313,476 + HMPREF1058_RS13990 0.61 -3.8 1,313,477 - HMPREF1058_RS13990 0.61 +0.3 1,313,477 - HMPREF1058_RS13990 0.61 +0.4 1,313,478 + HMPREF1058_RS13990 0.61 +1.4 1,313,524 + HMPREF1058_RS13990 0.65 -3.5 1,313,602 + HMPREF1058_RS13990 0.72 -2.0 1,313,604 + HMPREF1058_RS13990 0.72 +1.2 1,313,604 + HMPREF1058_RS13990 0.72 -4.4 1,313,612 - HMPREF1058_RS13990 0.73 -2.0 1,313,658 - HMPREF1058_RS13990 0.77 -4.0 1,313,660 + HMPREF1058_RS13990 0.77 -0.2 1,313,660 + HMPREF1058_RS13990 0.77 -1.0 1,313,672 - HMPREF1058_RS13990 0.79 -0.5 1,313,677 + HMPREF1058_RS13990 0.79 +0.5 1,313,745 - HMPREF1058_RS13990 0.85 -3.0 1,313,909 + +1.7 1,313,930 + +0.9 1,313,982 - HMPREF1058_RS13985 0.12 -0.0 1,313,984 + HMPREF1058_RS13985 0.12 +0.6 1,313,986 + HMPREF1058_RS13985 0.13 -3.0 1,313,986 + HMPREF1058_RS13985 0.13 -3.7 1,314,044 - HMPREF1058_RS13985 0.20 -3.3 1,314,069 - HMPREF1058_RS13985 0.23 -1.0 1,314,073 - HMPREF1058_RS13985 0.24 +0.7 1,314,115 + HMPREF1058_RS13985 0.29 -4.7 1,314,115 + HMPREF1058_RS13985 0.29 -2.3 1,314,115 + HMPREF1058_RS13985 0.29 +0.3 1,314,185 - HMPREF1058_RS13985 0.38 -0.4 1,314,199 - HMPREF1058_RS13985 0.40 -2.6 1,314,207 - HMPREF1058_RS13985 0.41 -1.7 1,314,246 + HMPREF1058_RS13985 0.46 -1.0 1,314,247 - HMPREF1058_RS13985 0.46 -4.4 1,314,247 - HMPREF1058_RS13985 0.46 -1.6 1,314,248 + HMPREF1058_RS13985 0.46 +1.4 1,314,248 + HMPREF1058_RS13985 0.46 -3.9 1,314,249 - HMPREF1058_RS13985 0.46 +3.1 1,314,267 + HMPREF1058_RS13985 0.48 -0.6 1,314,271 - HMPREF1058_RS13985 0.49 +0.0 1,314,285 + HMPREF1058_RS13985 0.50 -1.6 1,314,306 + HMPREF1058_RS13985 0.53 -3.5 1,314,310 + HMPREF1058_RS13985 0.54 -4.7 1,314,348 + HMPREF1058_RS13985 0.58 -0.5 1,314,348 + HMPREF1058_RS13985 0.58 +0.8 1,314,364 - HMPREF1058_RS13985 0.60 -0.0 1,314,448 - HMPREF1058_RS13985 0.71 -2.3 1,314,456 + HMPREF1058_RS13985 0.72 -2.2 1,314,457 - HMPREF1058_RS13985 0.72 -3.2 1,314,523 + HMPREF1058_RS13985 0.81 -2.0 1,314,523 + HMPREF1058_RS13985 0.81 +0.1 1,314,582 + HMPREF1058_RS13985 0.88 -3.2 1,314,663 + -2.3 1,314,686 + -2.0 1,314,686 + +0.6 1,314,770 + +1.1 1,314,770 + +0.3 1,314,771 - +0.4 1,314,774 + +1.6 1,314,774 + +3.2 1,314,774 + -0.2 1,314,780 - -3.8 1,314,780 - -1.6 1,314,809 + -0.5 1,314,853 - -2.3 1,314,874 + +0.3 1,314,899 - +1.2
Or see this region's nucleotide sequence