Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse14; 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 HMPREF1058_RS04140 and HMPREF1058_RS04135 are separated by 12 nucleotides HMPREF1058_RS04135 and HMPREF1058_RS04130 are separated by 59 nucleotides HMPREF1058_RS04130 and HMPREF1058_RS04125 are separated by 236 nucleotides
HMPREF1058_RS04140: HMPREF1058_RS04140 - DMT family transporter, at 110,330 to 111,238
_RS04140
HMPREF1058_RS04135: HMPREF1058_RS04135 - sugar O-acetyltransferase, at 111,251 to 111,802
_RS04135
HMPREF1058_RS04130: HMPREF1058_RS04130 - winged helix-turn-helix domain-containing protein, at 111,862 to 112,080
_RS04130
HMPREF1058_RS04125: HMPREF1058_RS04125 - type I methionyl aminopeptidase, at 112,317 to 113,171
_RS04125
Position (kb) 111
112
113 Strain fitness (log2 ratio) -2
-1
0
1 at 110.977 kb on + strand, within HMPREF1058_RS04140 at 110.978 kb on - strand, within HMPREF1058_RS04140 at 110.978 kb on - strand, within HMPREF1058_RS04140 at 111.070 kb on - strand, within HMPREF1058_RS04140 at 111.086 kb on - strand, within HMPREF1058_RS04140 at 111.089 kb on + strand, within HMPREF1058_RS04140 at 111.106 kb on - strand, within HMPREF1058_RS04140 at 111.144 kb on + strand, within HMPREF1058_RS04140 at 111.144 kb on + strand, within HMPREF1058_RS04140 at 111.175 kb on + strand at 111.191 kb on + strand at 111.192 kb on - strand at 111.217 kb on + strand at 111.250 kb on + strand at 111.325 kb on - strand, within HMPREF1058_RS04135 at 111.364 kb on + strand, within HMPREF1058_RS04135 at 111.364 kb on + strand, within HMPREF1058_RS04135 at 111.369 kb on - strand, within HMPREF1058_RS04135 at 111.369 kb on - strand, within HMPREF1058_RS04135 at 111.369 kb on - strand, within HMPREF1058_RS04135 at 111.369 kb on - strand, within HMPREF1058_RS04135 at 111.403 kb on - strand, within HMPREF1058_RS04135 at 111.447 kb on - strand, within HMPREF1058_RS04135 at 111.524 kb on + strand, within HMPREF1058_RS04135 at 111.524 kb on + strand, within HMPREF1058_RS04135 at 111.525 kb on - strand, within HMPREF1058_RS04135 at 111.526 kb on + strand, within HMPREF1058_RS04135 at 111.526 kb on + strand, within HMPREF1058_RS04135 at 111.526 kb on + strand, within HMPREF1058_RS04135 at 111.527 kb on - strand, within HMPREF1058_RS04135 at 111.527 kb on - strand at 111.527 kb on - strand, within HMPREF1058_RS04135 at 111.535 kb on - strand, within HMPREF1058_RS04135 at 111.544 kb on + strand, within HMPREF1058_RS04135 at 111.544 kb on + strand, within HMPREF1058_RS04135 at 111.545 kb on - strand, within HMPREF1058_RS04135 at 111.572 kb on + strand, within HMPREF1058_RS04135 at 111.572 kb on + strand, within HMPREF1058_RS04135 at 111.572 kb on + strand, within HMPREF1058_RS04135 at 111.573 kb on - strand, within HMPREF1058_RS04135 at 111.573 kb on - strand, within HMPREF1058_RS04135 at 111.592 kb on - strand, within HMPREF1058_RS04135 at 111.596 kb on + strand, within HMPREF1058_RS04135 at 111.600 kb on + strand, within HMPREF1058_RS04135 at 111.769 kb on + strand at 111.818 kb on - strand at 111.822 kb on - strand at 111.843 kb on - strand at 111.872 kb on + strand at 111.930 kb on + strand, within HMPREF1058_RS04130 at 111.953 kb on - strand, within HMPREF1058_RS04130 at 112.007 kb on + strand at 112.020 kb on + strand, within HMPREF1058_RS04130 at 112.501 kb on + strand, within HMPREF1058_RS04125 at 112.501 kb on + strand, within HMPREF1058_RS04125 at 112.562 kb on + strand, within HMPREF1058_RS04125 at 112.599 kb on + strand, within HMPREF1058_RS04125 at 112.691 kb on + strand, within HMPREF1058_RS04125 at 112.709 kb on + strand, within HMPREF1058_RS04125 at 112.802 kb on + strand, within HMPREF1058_RS04125
Per-strain Table
Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse14; day3 remove 110,977 + HMPREF1058_RS04140 0.71 +1.0 110,978 - HMPREF1058_RS04140 0.71 +0.4 110,978 - HMPREF1058_RS04140 0.71 +0.1 111,070 - HMPREF1058_RS04140 0.81 +0.3 111,086 - HMPREF1058_RS04140 0.83 +0.5 111,089 + HMPREF1058_RS04140 0.83 +0.3 111,106 - HMPREF1058_RS04140 0.85 +0.7 111,144 + HMPREF1058_RS04140 0.90 -1.0 111,144 + HMPREF1058_RS04140 0.90 -0.4 111,175 + -1.1 111,191 + -1.8 111,192 - +1.4 111,217 + -0.3 111,250 + +0.5 111,325 - HMPREF1058_RS04135 0.13 -1.2 111,364 + HMPREF1058_RS04135 0.20 -0.0 111,364 + HMPREF1058_RS04135 0.20 +0.3 111,369 - HMPREF1058_RS04135 0.21 +0.7 111,369 - HMPREF1058_RS04135 0.21 -1.3 111,369 - HMPREF1058_RS04135 0.21 -0.9 111,369 - HMPREF1058_RS04135 0.21 +0.3 111,403 - HMPREF1058_RS04135 0.28 +0.1 111,447 - HMPREF1058_RS04135 0.36 +0.1 111,524 + HMPREF1058_RS04135 0.49 -0.1 111,524 + HMPREF1058_RS04135 0.49 +0.6 111,525 - HMPREF1058_RS04135 0.50 -0.1 111,526 + HMPREF1058_RS04135 0.50 -1.0 111,526 + HMPREF1058_RS04135 0.50 -0.0 111,526 + HMPREF1058_RS04135 0.50 +0.6 111,527 - HMPREF1058_RS04135 0.50 -0.5 111,527 - -0.3 111,527 - HMPREF1058_RS04135 0.50 +0.6 111,535 - HMPREF1058_RS04135 0.51 +0.1 111,544 + HMPREF1058_RS04135 0.53 +0.0 111,544 + HMPREF1058_RS04135 0.53 +0.9 111,545 - HMPREF1058_RS04135 0.53 -0.4 111,572 + HMPREF1058_RS04135 0.58 +0.1 111,572 + HMPREF1058_RS04135 0.58 -1.2 111,572 + HMPREF1058_RS04135 0.58 -0.3 111,573 - HMPREF1058_RS04135 0.58 -0.4 111,573 - HMPREF1058_RS04135 0.58 +0.8 111,592 - HMPREF1058_RS04135 0.62 +1.1 111,596 + HMPREF1058_RS04135 0.62 +0.1 111,600 + HMPREF1058_RS04135 0.63 +1.6 111,769 + -2.1 111,818 - +0.3 111,822 - +0.1 111,843 - -0.3 111,872 + -0.1 111,930 + HMPREF1058_RS04130 0.31 +0.9 111,953 - HMPREF1058_RS04130 0.42 -0.0 112,007 + -0.7 112,020 + HMPREF1058_RS04130 0.72 +0.7 112,501 + HMPREF1058_RS04125 0.22 +0.1 112,501 + HMPREF1058_RS04125 0.22 -0.4 112,562 + HMPREF1058_RS04125 0.29 -0.1 112,599 + HMPREF1058_RS04125 0.33 -0.3 112,691 + HMPREF1058_RS04125 0.44 -0.4 112,709 + HMPREF1058_RS04125 0.46 -0.8 112,802 + HMPREF1058_RS04125 0.57 -0.9
Or see this region's nucleotide sequence