Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day3
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_RS14190 and HMPREF1078_RS14195 overlap by 1 nucleotides HMPREF1078_RS14195 and HMPREF1078_RS14200 are separated by 87 nucleotides HMPREF1078_RS14200 and HMPREF1078_RS14205 are separated by 21 nucleotides HMPREF1078_RS14205 and HMPREF1078_RS14210 are separated by 11 nucleotides
HMPREF1078_RS14190: HMPREF1078_RS14190 - hypothetical protein, at 310,825 to 311,400
_RS14190
HMPREF1078_RS14195: HMPREF1078_RS14195 - 4'-phosphopantetheinyl transferase superfamily protein, at 311,400 to 312,017
_RS14195
HMPREF1078_RS14200: HMPREF1078_RS14200 - shikimate dehydrogenase, at 312,105 to 312,845
_RS14200
HMPREF1078_RS14205: HMPREF1078_RS14205 - bifunctional demethylmenaquinone methyltransferase/2-methoxy-6-polyprenyl-1,4-benzoquinol methylase UbiE, at 312,867 to 313,634
_RS14205
HMPREF1078_RS14210: HMPREF1078_RS14210 - phosphoribosylaminoimidazolesuccinocarboxamide synthase, at 313,646 to 314,593
_RS14210
Position (kb) 312
313 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2 at 311.256 kb on + strand, within HMPREF1078_RS14190 at 311.299 kb on + strand, within HMPREF1078_RS14190 at 311.302 kb on + strand, within HMPREF1078_RS14190 at 311.302 kb on + strand, within HMPREF1078_RS14190 at 311.302 kb on + strand, within HMPREF1078_RS14190 at 311.366 kb on + strand at 311.398 kb on + strand at 312.039 kb on - strand at 312.039 kb on - strand at 312.040 kb on + strand at 312.040 kb on + strand at 312.041 kb on - strand at 312.041 kb on - strand at 312.041 kb on - strand at 312.041 kb on - strand at 312.042 kb on + strand at 312.042 kb on + strand at 312.042 kb on + strand at 312.042 kb on + strand at 312.042 kb on + strand at 312.042 kb on + strand at 312.043 kb on - strand at 312.043 kb on - strand at 312.043 kb on - strand at 312.043 kb on - strand at 312.043 kb on - strand at 312.043 kb on - strand at 312.043 kb on - strand at 312.043 kb on - strand at 312.045 kb on - strand at 312.056 kb on + strand at 312.062 kb on + strand at 312.062 kb on + strand at 312.063 kb on - strand at 312.071 kb on + strand at 312.072 kb on - strand at 312.072 kb on - strand at 312.077 kb on + strand at 312.100 kb on - strand at 312.100 kb on - strand at 312.106 kb on + strand at 312.107 kb on - strand at 312.142 kb on - strand at 312.224 kb on - strand, within HMPREF1078_RS14200 at 312.224 kb on - strand, within HMPREF1078_RS14200 at 312.317 kb on + strand, within HMPREF1078_RS14200 at 312.334 kb on + strand, within HMPREF1078_RS14200 at 312.430 kb on - strand, within HMPREF1078_RS14200 at 312.658 kb on + strand, within HMPREF1078_RS14200 at 312.706 kb on - strand, within HMPREF1078_RS14200 at 312.790 kb on + strand at 312.826 kb on - strand at 312.826 kb on - strand at 312.828 kb on + strand at 312.869 kb on - strand at 312.869 kb on - strand at 312.869 kb on - strand at 312.869 kb on - strand at 312.870 kb on + strand at 312.871 kb on - strand at 312.871 kb on - strand at 312.964 kb on - strand, within HMPREF1078_RS14205 at 313.034 kb on - strand, within HMPREF1078_RS14205 at 313.041 kb on - strand, within HMPREF1078_RS14205 at 313.191 kb on - strand, within HMPREF1078_RS14205 at 313.191 kb on - strand, within HMPREF1078_RS14205 at 313.200 kb on + strand, within HMPREF1078_RS14205 at 313.495 kb on - strand, within HMPREF1078_RS14205 at 313.538 kb on - strand, within HMPREF1078_RS14205 at 313.538 kb on - strand, within HMPREF1078_RS14205 at 313.538 kb on - strand, within HMPREF1078_RS14205 at 313.625 kb on - strand at 313.740 kb on + strand at 313.752 kb on + strand, within HMPREF1078_RS14210 at 313.753 kb on - strand, within HMPREF1078_RS14210 at 313.753 kb on - strand, within HMPREF1078_RS14210 at 313.773 kb on - strand, within HMPREF1078_RS14210
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day3 remove 311,256 + HMPREF1078_RS14190 0.75 +0.0 311,299 + HMPREF1078_RS14190 0.82 -0.1 311,302 + HMPREF1078_RS14190 0.83 +2.6 311,302 + HMPREF1078_RS14190 0.83 +2.4 311,302 + HMPREF1078_RS14190 0.83 -1.0 311,366 + +2.4 311,398 + +0.2 312,039 - -1.3 312,039 - +0.0 312,040 + -0.6 312,040 + +1.0 312,041 - -0.3 312,041 - +1.4 312,041 - -2.1 312,041 - +1.5 312,042 + +0.8 312,042 + -4.2 312,042 + +1.2 312,042 + +0.7 312,042 + -1.4 312,042 + +0.2 312,043 - -2.8 312,043 - -2.6 312,043 - -0.3 312,043 - +2.1 312,043 - +1.5 312,043 - +0.3 312,043 - -0.5 312,043 - +2.0 312,045 - +0.8 312,056 + -0.1 312,062 + +2.0 312,062 + -0.7 312,063 - -1.4 312,071 + -1.6 312,072 - +2.0 312,072 - -0.8 312,077 + -1.2 312,100 - +1.8 312,100 - -0.7 312,106 + -0.3 312,107 - -1.0 312,142 - -1.9 312,224 - HMPREF1078_RS14200 0.16 -0.0 312,224 - HMPREF1078_RS14200 0.16 -2.7 312,317 + HMPREF1078_RS14200 0.29 -2.7 312,334 + HMPREF1078_RS14200 0.31 +0.7 312,430 - HMPREF1078_RS14200 0.44 -1.6 312,658 + HMPREF1078_RS14200 0.75 -2.0 312,706 - HMPREF1078_RS14200 0.81 -1.3 312,790 + -0.6 312,826 - -4.6 312,826 - +1.2 312,828 + -1.9 312,869 - +0.1 312,869 - -2.3 312,869 - -2.1 312,869 - -1.4 312,870 + +0.2 312,871 - +1.5 312,871 - -2.0 312,964 - HMPREF1078_RS14205 0.13 -1.5 313,034 - HMPREF1078_RS14205 0.22 -1.7 313,041 - HMPREF1078_RS14205 0.23 -0.9 313,191 - HMPREF1078_RS14205 0.42 +0.7 313,191 - HMPREF1078_RS14205 0.42 -1.5 313,200 + HMPREF1078_RS14205 0.43 +0.2 313,495 - HMPREF1078_RS14205 0.82 -0.6 313,538 - HMPREF1078_RS14205 0.87 -1.2 313,538 - HMPREF1078_RS14205 0.87 -1.2 313,538 - HMPREF1078_RS14205 0.87 -1.3 313,625 - -2.3 313,740 + +0.7 313,752 + HMPREF1078_RS14210 0.11 +0.2 313,753 - HMPREF1078_RS14210 0.11 -0.6 313,753 - HMPREF1078_RS14210 0.11 -0.9 313,773 - HMPREF1078_RS14210 0.13 -2.8
Or see this region's nucleotide sequence