Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse13; 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_RS00400 and HMPREF1058_RS00395 overlap by 4 nucleotides HMPREF1058_RS00395 and HMPREF1058_RS00390 are separated by 14 nucleotides HMPREF1058_RS00390 and HMPREF1058_RS00385 are separated by 185 nucleotides
HMPREF1058_RS00400: HMPREF1058_RS00400 - GntR family transcriptional regulator, at 81,595 to 81,960
_RS00400
HMPREF1058_RS00395: HMPREF1058_RS00395 - hypothetical protein, at 81,957 to 82,850
_RS00395
HMPREF1058_RS00390: HMPREF1058_RS00390 - ATP-binding cassette domain-containing protein, at 82,865 to 83,707
_RS00390
HMPREF1058_RS00385: HMPREF1058_RS00385 - tetratricopeptide repeat protein, at 83,893 to 85,308
_RS00385
Position (kb) 82
83
84 Strain fitness (log2 ratio) -2
-1
0
1 at 81.883 kb on - strand, within HMPREF1058_RS00400 at 81.884 kb on + strand, within HMPREF1058_RS00400 at 81.885 kb on - strand, within HMPREF1058_RS00400 at 81.923 kb on - strand, within HMPREF1058_RS00400 at 81.933 kb on - strand at 81.961 kb on - strand at 82.077 kb on + strand, within HMPREF1058_RS00395 at 82.121 kb on + strand, within HMPREF1058_RS00395 at 82.121 kb on + strand, within HMPREF1058_RS00395 at 82.150 kb on - strand, within HMPREF1058_RS00395 at 82.155 kb on - strand, within HMPREF1058_RS00395 at 82.155 kb on - strand, within HMPREF1058_RS00395 at 82.159 kb on - strand, within HMPREF1058_RS00395 at 82.181 kb on + strand, within HMPREF1058_RS00395 at 82.182 kb on - strand, within HMPREF1058_RS00395 at 82.187 kb on + strand, within HMPREF1058_RS00395 at 82.187 kb on + strand, within HMPREF1058_RS00395 at 82.238 kb on + strand, within HMPREF1058_RS00395 at 82.238 kb on + strand, within HMPREF1058_RS00395 at 82.239 kb on - strand, within HMPREF1058_RS00395 at 82.246 kb on - strand, within HMPREF1058_RS00395 at 82.250 kb on + strand, within HMPREF1058_RS00395 at 82.250 kb on + strand, within HMPREF1058_RS00395 at 82.250 kb on + strand, within HMPREF1058_RS00395 at 82.253 kb on - strand, within HMPREF1058_RS00395 at 82.253 kb on - strand, within HMPREF1058_RS00395 at 82.345 kb on + strand, within HMPREF1058_RS00395 at 82.345 kb on + strand, within HMPREF1058_RS00395 at 82.347 kb on + strand, within HMPREF1058_RS00395 at 82.348 kb on - strand, within HMPREF1058_RS00395 at 82.348 kb on - strand, within HMPREF1058_RS00395 at 82.385 kb on + strand, within HMPREF1058_RS00395 at 82.386 kb on - strand, within HMPREF1058_RS00395 at 82.389 kb on + strand, within HMPREF1058_RS00395 at 82.390 kb on - strand, within HMPREF1058_RS00395 at 82.417 kb on - strand, within HMPREF1058_RS00395 at 82.417 kb on - strand, within HMPREF1058_RS00395 at 82.506 kb on + strand, within HMPREF1058_RS00395 at 82.632 kb on - strand, within HMPREF1058_RS00395 at 82.664 kb on - strand, within HMPREF1058_RS00395 at 82.692 kb on - strand, within HMPREF1058_RS00395 at 82.694 kb on - strand, within HMPREF1058_RS00395 at 82.748 kb on - strand, within HMPREF1058_RS00395 at 82.861 kb on + strand at 82.861 kb on + strand at 82.867 kb on - strand at 82.867 kb on - strand at 82.867 kb on - strand at 82.922 kb on + strand at 82.922 kb on + strand at 82.923 kb on - strand at 83.002 kb on - strand, within HMPREF1058_RS00390 at 83.002 kb on - strand, within HMPREF1058_RS00390 at 83.047 kb on - strand, within HMPREF1058_RS00390 at 83.272 kb on + strand, within HMPREF1058_RS00390 at 83.276 kb on + strand, within HMPREF1058_RS00390 at 83.291 kb on - strand, within HMPREF1058_RS00390 at 83.520 kb on + strand, within HMPREF1058_RS00390 at 83.561 kb on + strand, within HMPREF1058_RS00390 at 83.765 kb on + strand at 83.769 kb on - strand at 83.770 kb on - strand at 83.806 kb on + strand at 83.950 kb on + strand at 83.993 kb on - strand at 84.000 kb on - strand at 84.002 kb on + strand at 84.022 kb on - strand at 84.042 kb on + strand, within HMPREF1058_RS00385 at 84.042 kb on + strand, within HMPREF1058_RS00385 at 84.045 kb on + strand, within HMPREF1058_RS00385 at 84.136 kb on - strand, within HMPREF1058_RS00385 at 84.161 kb on - strand, within HMPREF1058_RS00385 at 84.165 kb on - strand, within HMPREF1058_RS00385 at 84.165 kb on - strand, within HMPREF1058_RS00385 at 84.266 kb on + strand, within HMPREF1058_RS00385 at 84.266 kb on + strand, within HMPREF1058_RS00385 at 84.267 kb on - strand, within HMPREF1058_RS00385 at 84.462 kb on - strand, within HMPREF1058_RS00385 at 84.494 kb on + strand, within HMPREF1058_RS00385 at 84.511 kb on + strand, within HMPREF1058_RS00385 at 84.512 kb on - strand, within HMPREF1058_RS00385 at 84.512 kb on - strand, within HMPREF1058_RS00385 at 84.515 kb on + strand, within HMPREF1058_RS00385 at 84.515 kb on + strand, within HMPREF1058_RS00385 at 84.516 kb on - strand, within HMPREF1058_RS00385 at 84.571 kb on - strand, within HMPREF1058_RS00385 at 84.597 kb on - strand, within HMPREF1058_RS00385 at 84.691 kb on + strand, within HMPREF1058_RS00385
Per-strain Table
Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse13; day1 remove 81,883 - HMPREF1058_RS00400 0.79 -0.5 81,884 + HMPREF1058_RS00400 0.79 +0.4 81,885 - HMPREF1058_RS00400 0.79 -0.4 81,923 - HMPREF1058_RS00400 0.90 -0.6 81,933 - +0.2 81,961 - +0.5 82,077 + HMPREF1058_RS00395 0.13 -0.3 82,121 + HMPREF1058_RS00395 0.18 +0.2 82,121 + HMPREF1058_RS00395 0.18 -0.8 82,150 - HMPREF1058_RS00395 0.22 +0.1 82,155 - HMPREF1058_RS00395 0.22 -1.8 82,155 - HMPREF1058_RS00395 0.22 +0.3 82,159 - HMPREF1058_RS00395 0.23 +0.1 82,181 + HMPREF1058_RS00395 0.25 -0.3 82,182 - HMPREF1058_RS00395 0.25 +0.2 82,187 + HMPREF1058_RS00395 0.26 -0.4 82,187 + HMPREF1058_RS00395 0.26 -0.4 82,238 + HMPREF1058_RS00395 0.31 -0.1 82,238 + HMPREF1058_RS00395 0.31 -0.3 82,239 - HMPREF1058_RS00395 0.32 +0.0 82,246 - HMPREF1058_RS00395 0.32 -0.9 82,250 + HMPREF1058_RS00395 0.33 +0.2 82,250 + HMPREF1058_RS00395 0.33 -0.7 82,250 + HMPREF1058_RS00395 0.33 -0.2 82,253 - HMPREF1058_RS00395 0.33 -0.1 82,253 - HMPREF1058_RS00395 0.33 -0.4 82,345 + HMPREF1058_RS00395 0.43 -0.4 82,345 + HMPREF1058_RS00395 0.43 -1.2 82,347 + HMPREF1058_RS00395 0.44 +0.3 82,348 - HMPREF1058_RS00395 0.44 -0.1 82,348 - HMPREF1058_RS00395 0.44 -0.0 82,385 + HMPREF1058_RS00395 0.48 +0.2 82,386 - HMPREF1058_RS00395 0.48 +0.3 82,389 + HMPREF1058_RS00395 0.48 -0.0 82,390 - HMPREF1058_RS00395 0.48 +1.0 82,417 - HMPREF1058_RS00395 0.51 +0.1 82,417 - HMPREF1058_RS00395 0.51 +0.5 82,506 + HMPREF1058_RS00395 0.61 +0.1 82,632 - HMPREF1058_RS00395 0.76 +0.5 82,664 - HMPREF1058_RS00395 0.79 -0.2 82,692 - HMPREF1058_RS00395 0.82 +0.1 82,694 - HMPREF1058_RS00395 0.82 +0.0 82,748 - HMPREF1058_RS00395 0.88 +0.8 82,861 + +0.2 82,861 + -0.6 82,867 - +0.6 82,867 - -0.2 82,867 - -0.1 82,922 + -0.2 82,922 + -0.2 82,923 - +1.1 83,002 - HMPREF1058_RS00390 0.16 +1.2 83,002 - HMPREF1058_RS00390 0.16 -0.0 83,047 - HMPREF1058_RS00390 0.22 +0.4 83,272 + HMPREF1058_RS00390 0.48 +0.1 83,276 + HMPREF1058_RS00390 0.49 +0.2 83,291 - HMPREF1058_RS00390 0.51 -0.6 83,520 + HMPREF1058_RS00390 0.78 +0.1 83,561 + HMPREF1058_RS00390 0.83 +0.1 83,765 + -0.0 83,769 - +0.1 83,770 - -1.0 83,806 + +0.1 83,950 + -0.8 83,993 - -0.6 84,000 - +0.4 84,002 + +0.0 84,022 - -0.3 84,042 + HMPREF1058_RS00385 0.11 +0.2 84,042 + HMPREF1058_RS00385 0.11 +0.2 84,045 + HMPREF1058_RS00385 0.11 +0.1 84,136 - HMPREF1058_RS00385 0.17 -0.3 84,161 - HMPREF1058_RS00385 0.19 +0.2 84,165 - HMPREF1058_RS00385 0.19 +0.5 84,165 - HMPREF1058_RS00385 0.19 +1.0 84,266 + HMPREF1058_RS00385 0.26 +0.2 84,266 + HMPREF1058_RS00385 0.26 -0.4 84,267 - HMPREF1058_RS00385 0.26 +0.4 84,462 - HMPREF1058_RS00385 0.40 -0.9 84,494 + HMPREF1058_RS00385 0.42 -0.1 84,511 + HMPREF1058_RS00385 0.44 -0.3 84,512 - HMPREF1058_RS00385 0.44 +0.1 84,512 - HMPREF1058_RS00385 0.44 +0.1 84,515 + HMPREF1058_RS00385 0.44 -0.4 84,515 + HMPREF1058_RS00385 0.44 -0.4 84,516 - HMPREF1058_RS00385 0.44 -0.6 84,571 - HMPREF1058_RS00385 0.48 -0.1 84,597 - HMPREF1058_RS00385 0.50 -0.2 84,691 + HMPREF1058_RS00385 0.56 +0.5
Or see this region's nucleotide sequence