Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse18; day5
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_RS01860 and HMPREF1078_RS01865 are separated by 4 nucleotides HMPREF1078_RS01865 and HMPREF1078_RS01870 are separated by 75 nucleotides HMPREF1078_RS01870 and HMPREF1078_RS01875 are separated by 115 nucleotides HMPREF1078_RS01875 and HMPREF1078_RS01880 are separated by 113 nucleotides
HMPREF1078_RS01860: HMPREF1078_RS01860 - BatD family protein, at 462,308 to 464,122
_RS01860
HMPREF1078_RS01865: HMPREF1078_RS01865 - tetratricopeptide repeat protein, at 464,127 to 464,894
_RS01865
HMPREF1078_RS01870: HMPREF1078_RS01870 - phosphatase PAP2 family protein, at 464,970 to 465,662
_RS01870
HMPREF1078_RS01875: HMPREF1078_RS01875 - hypothetical protein, at 465,778 to 466,053
_RS01875
HMPREF1078_RS01880: HMPREF1078_RS01880 - universal stress protein, at 466,167 to 467,282
_RS01880
Position (kb) 464
465
466 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3 at 464.062 kb on + strand at 464.062 kb on + strand at 464.067 kb on + strand at 464.067 kb on + strand at 464.069 kb on + strand at 464.069 kb on + strand at 464.095 kb on + strand at 464.138 kb on + strand at 464.140 kb on + strand at 464.140 kb on + strand at 464.144 kb on + strand at 464.158 kb on + strand at 464.183 kb on + strand at 464.313 kb on + strand, within HMPREF1078_RS01865 at 464.316 kb on + strand, within HMPREF1078_RS01865 at 464.316 kb on + strand, within HMPREF1078_RS01865 at 464.316 kb on + strand, within HMPREF1078_RS01865 at 464.316 kb on + strand, within HMPREF1078_RS01865 at 464.316 kb on + strand, within HMPREF1078_RS01865 at 464.340 kb on - strand, within HMPREF1078_RS01865 at 464.625 kb on + strand, within HMPREF1078_RS01865 at 464.638 kb on + strand, within HMPREF1078_RS01865 at 464.638 kb on + strand, within HMPREF1078_RS01865 at 464.666 kb on + strand, within HMPREF1078_RS01865 at 464.666 kb on + strand, within HMPREF1078_RS01865 at 464.667 kb on - strand, within HMPREF1078_RS01865 at 464.858 kb on - strand at 464.893 kb on - strand at 464.906 kb on + strand at 464.914 kb on - strand at 464.921 kb on - strand at 464.934 kb on - strand at 464.986 kb on + strand at 464.986 kb on + strand at 464.987 kb on - strand at 465.117 kb on + strand, within HMPREF1078_RS01870 at 465.207 kb on - strand, within HMPREF1078_RS01870 at 465.207 kb on - strand, within HMPREF1078_RS01870 at 465.294 kb on + strand, within HMPREF1078_RS01870 at 465.344 kb on + strand, within HMPREF1078_RS01870 at 465.344 kb on + strand, within HMPREF1078_RS01870 at 465.344 kb on + strand, within HMPREF1078_RS01870 at 465.366 kb on - strand, within HMPREF1078_RS01870 at 465.404 kb on + strand, within HMPREF1078_RS01870 at 465.411 kb on + strand, within HMPREF1078_RS01870 at 465.412 kb on - strand, within HMPREF1078_RS01870 at 465.412 kb on - strand, within HMPREF1078_RS01870 at 465.414 kb on - strand, within HMPREF1078_RS01870 at 465.423 kb on + strand, within HMPREF1078_RS01870 at 465.504 kb on + strand, within HMPREF1078_RS01870 at 465.575 kb on + strand, within HMPREF1078_RS01870 at 465.598 kb on + strand at 465.598 kb on + strand at 465.599 kb on - strand at 465.599 kb on - strand at 465.600 kb on + strand at 465.617 kb on + strand at 465.618 kb on - strand at 465.618 kb on - strand at 465.618 kb on - strand at 465.673 kb on - strand at 465.683 kb on + strand at 465.697 kb on - strand at 465.718 kb on - strand at 465.724 kb on + strand at 465.729 kb on + strand at 465.757 kb on - strand at 465.798 kb on + strand at 465.798 kb on + strand at 465.906 kb on + strand, within HMPREF1078_RS01875 at 465.906 kb on + strand, within HMPREF1078_RS01875 at 465.935 kb on + strand, within HMPREF1078_RS01875 at 465.936 kb on - strand, within HMPREF1078_RS01875 at 465.936 kb on - strand, within HMPREF1078_RS01875 at 465.936 kb on - strand, within HMPREF1078_RS01875 at 465.939 kb on + strand, within HMPREF1078_RS01875 at 465.939 kb on + strand, within HMPREF1078_RS01875 at 465.939 kb on + strand, within HMPREF1078_RS01875 at 465.939 kb on + strand, within HMPREF1078_RS01875 at 465.939 kb on + strand, within HMPREF1078_RS01875 at 465.940 kb on - strand, within HMPREF1078_RS01875 at 465.940 kb on - strand, within HMPREF1078_RS01875 at 465.940 kb on - strand, within HMPREF1078_RS01875 at 465.940 kb on - strand, within HMPREF1078_RS01875 at 465.940 kb on - strand, within HMPREF1078_RS01875 at 465.969 kb on - strand, within HMPREF1078_RS01875 at 465.969 kb on - strand, within HMPREF1078_RS01875 at 465.971 kb on + strand, within HMPREF1078_RS01875 at 466.011 kb on - strand, within HMPREF1078_RS01875 at 466.067 kb on - strand at 466.082 kb on - strand at 466.127 kb on + strand at 466.145 kb on + strand at 466.175 kb on + strand at 466.176 kb on - strand at 466.176 kb on - strand at 466.180 kb on + strand at 466.180 kb on + strand at 466.181 kb on - strand at 466.181 kb on - strand at 466.257 kb on + strand at 466.258 kb on - strand at 466.262 kb on - strand at 466.262 kb on - strand at 466.262 kb on - strand at 466.303 kb on + strand, within HMPREF1078_RS01880 at 466.303 kb on + strand, within HMPREF1078_RS01880 at 466.303 kb on + strand, within HMPREF1078_RS01880 at 466.304 kb on - strand, within HMPREF1078_RS01880 at 466.347 kb on - strand, within HMPREF1078_RS01880 at 466.361 kb on + strand, within HMPREF1078_RS01880 at 466.361 kb on + strand, within HMPREF1078_RS01880 at 466.362 kb on - strand, within HMPREF1078_RS01880 at 466.421 kb on - strand, within HMPREF1078_RS01880 at 466.421 kb on - strand, within HMPREF1078_RS01880 at 466.433 kb on - strand, within HMPREF1078_RS01880 at 466.433 kb on - strand, within HMPREF1078_RS01880 at 466.480 kb on - strand, within HMPREF1078_RS01880 at 466.480 kb on - strand, within HMPREF1078_RS01880 at 466.522 kb on - strand, within HMPREF1078_RS01880 at 466.522 kb on - strand, within HMPREF1078_RS01880 at 466.534 kb on - strand, within HMPREF1078_RS01880 at 466.547 kb on + strand, within HMPREF1078_RS01880 at 466.643 kb on + strand, within HMPREF1078_RS01880 at 466.643 kb on + strand, within HMPREF1078_RS01880 at 466.643 kb on + strand, within HMPREF1078_RS01880 at 466.644 kb on - strand, within HMPREF1078_RS01880 at 466.644 kb on - strand, within HMPREF1078_RS01880 at 466.644 kb on - strand, within HMPREF1078_RS01880 at 466.644 kb on - strand, within HMPREF1078_RS01880 at 466.644 kb on - strand, within HMPREF1078_RS01880 at 466.644 kb on - strand, within HMPREF1078_RS01880
Per-strain Table
Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse18; day5 remove 464,062 + +2.4 464,062 + +1.0 464,067 + -0.0 464,067 + -2.4 464,069 + +0.9 464,069 + -0.0 464,095 + -0.6 464,138 + -0.0 464,140 + -0.4 464,140 + +0.9 464,144 + +1.6 464,158 + -0.4 464,183 + +0.6 464,313 + HMPREF1078_RS01865 0.24 -0.8 464,316 + HMPREF1078_RS01865 0.25 +2.6 464,316 + HMPREF1078_RS01865 0.25 +1.4 464,316 + HMPREF1078_RS01865 0.25 -1.4 464,316 + HMPREF1078_RS01865 0.25 -0.8 464,316 + HMPREF1078_RS01865 0.25 +0.8 464,340 - HMPREF1078_RS01865 0.28 +0.6 464,625 + HMPREF1078_RS01865 0.65 -0.8 464,638 + HMPREF1078_RS01865 0.67 +0.9 464,638 + HMPREF1078_RS01865 0.67 +1.4 464,666 + HMPREF1078_RS01865 0.70 +1.3 464,666 + HMPREF1078_RS01865 0.70 +2.6 464,667 - HMPREF1078_RS01865 0.70 -1.0 464,858 - -1.4 464,893 - -3.1 464,906 + +0.2 464,914 - -3.3 464,921 - -2.1 464,934 - -1.9 464,986 + -0.4 464,986 + -3.6 464,987 - -1.6 465,117 + HMPREF1078_RS01870 0.21 -2.4 465,207 - HMPREF1078_RS01870 0.34 -2.7 465,207 - HMPREF1078_RS01870 0.34 -1.0 465,294 + HMPREF1078_RS01870 0.47 -2.1 465,344 + HMPREF1078_RS01870 0.54 -1.0 465,344 + HMPREF1078_RS01870 0.54 -3.3 465,344 + HMPREF1078_RS01870 0.54 -1.8 465,366 - HMPREF1078_RS01870 0.57 -1.0 465,404 + HMPREF1078_RS01870 0.63 -3.3 465,411 + HMPREF1078_RS01870 0.64 -1.0 465,412 - HMPREF1078_RS01870 0.64 -1.8 465,412 - HMPREF1078_RS01870 0.64 -1.8 465,414 - HMPREF1078_RS01870 0.64 -2.0 465,423 + HMPREF1078_RS01870 0.65 -1.2 465,504 + HMPREF1078_RS01870 0.77 +1.6 465,575 + HMPREF1078_RS01870 0.87 -1.9 465,598 + -1.8 465,598 + -1.2 465,599 - +1.0 465,599 - -1.6 465,600 + -1.6 465,617 + -0.4 465,618 - -3.6 465,618 - -2.2 465,618 - -3.8 465,673 - -0.0 465,683 + -0.8 465,697 - +0.3 465,718 - -1.2 465,724 + +2.9 465,729 + -1.1 465,757 - -1.0 465,798 + -0.4 465,798 + -0.4 465,906 + HMPREF1078_RS01875 0.46 +1.2 465,906 + HMPREF1078_RS01875 0.46 +0.2 465,935 + HMPREF1078_RS01875 0.57 +1.7 465,936 - HMPREF1078_RS01875 0.57 +0.6 465,936 - HMPREF1078_RS01875 0.57 +0.7 465,936 - HMPREF1078_RS01875 0.57 -3.3 465,939 + HMPREF1078_RS01875 0.58 -1.6 465,939 + HMPREF1078_RS01875 0.58 -2.4 465,939 + HMPREF1078_RS01875 0.58 +1.6 465,939 + HMPREF1078_RS01875 0.58 +2.3 465,939 + HMPREF1078_RS01875 0.58 -2.0 465,940 - HMPREF1078_RS01875 0.59 -0.9 465,940 - HMPREF1078_RS01875 0.59 -2.9 465,940 - HMPREF1078_RS01875 0.59 -0.0 465,940 - HMPREF1078_RS01875 0.59 +1.0 465,940 - HMPREF1078_RS01875 0.59 -1.2 465,969 - HMPREF1078_RS01875 0.69 -0.7 465,969 - HMPREF1078_RS01875 0.69 -1.2 465,971 + HMPREF1078_RS01875 0.70 -1.0 466,011 - HMPREF1078_RS01875 0.84 +0.6 466,067 - +1.3 466,082 - -0.8 466,127 + +0.3 466,145 + +0.4 466,175 + -1.0 466,176 - -0.1 466,176 - +1.0 466,180 + +2.2 466,180 + -2.0 466,181 - -1.0 466,181 - -0.8 466,257 + -1.5 466,258 - +1.0 466,262 - -0.2 466,262 - +0.6 466,262 - +0.6 466,303 + HMPREF1078_RS01880 0.12 +0.9 466,303 + HMPREF1078_RS01880 0.12 -0.0 466,303 + HMPREF1078_RS01880 0.12 -0.4 466,304 - HMPREF1078_RS01880 0.12 +0.3 466,347 - HMPREF1078_RS01880 0.16 +0.8 466,361 + HMPREF1078_RS01880 0.17 -1.4 466,361 + HMPREF1078_RS01880 0.17 +2.2 466,362 - HMPREF1078_RS01880 0.17 -0.4 466,421 - HMPREF1078_RS01880 0.23 -2.6 466,421 - HMPREF1078_RS01880 0.23 -0.5 466,433 - HMPREF1078_RS01880 0.24 -0.2 466,433 - HMPREF1078_RS01880 0.24 +0.6 466,480 - HMPREF1078_RS01880 0.28 -1.8 466,480 - HMPREF1078_RS01880 0.28 +0.7 466,522 - HMPREF1078_RS01880 0.32 -2.3 466,522 - HMPREF1078_RS01880 0.32 -0.0 466,534 - HMPREF1078_RS01880 0.33 -0.7 466,547 + HMPREF1078_RS01880 0.34 +0.3 466,643 + HMPREF1078_RS01880 0.43 -1.4 466,643 + HMPREF1078_RS01880 0.43 -0.2 466,643 + HMPREF1078_RS01880 0.43 +1.2 466,644 - HMPREF1078_RS01880 0.43 -0.5 466,644 - HMPREF1078_RS01880 0.43 -1.0 466,644 - HMPREF1078_RS01880 0.43 +0.1 466,644 - HMPREF1078_RS01880 0.43 -0.1 466,644 - HMPREF1078_RS01880 0.43 -1.8 466,644 - HMPREF1078_RS01880 0.43 +0.0
Or see this region's nucleotide sequence