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_RS01075 and HMPREF1058_RS01065 are separated by 653 nucleotides HMPREF1058_RS01065 and HMPREF1058_RS01060 are separated by 18 nucleotides HMPREF1058_RS01060 and HMPREF1058_RS21725 overlap by 11 nucleotides
HMPREF1058_RS01075: HMPREF1058_RS01075 - site-specific integrase, at 215,799 to 217,013
_RS01075
HMPREF1058_RS01065: HMPREF1058_RS01065 - hypothetical protein, at 217,667 to 218,284
_RS01065
HMPREF1058_RS01060: HMPREF1058_RS01060 - hypothetical protein, at 218,303 to 218,827
_RS01060
HMPREF1058_RS21725: HMPREF1058_RS21725 - hypothetical protein, at 218,817 to 219,350
_RS21725
Position (kb) 217
218
219 Strain fitness (log2 ratio) -1
0
1
2
3 at 217.144 kb on + strand at 217.145 kb on - strand at 217.145 kb on - strand at 217.165 kb on + strand at 217.170 kb on - strand at 217.321 kb on - strand at 217.323 kb on + strand at 217.323 kb on + strand at 217.358 kb on - strand at 217.360 kb on - strand at 217.453 kb on - strand at 217.563 kb on + strand at 217.603 kb on - strand at 217.603 kb on - strand at 217.606 kb on - strand at 217.634 kb on - strand at 217.643 kb on + strand at 217.643 kb on + strand at 217.644 kb on - strand at 217.679 kb on - strand at 217.691 kb on - strand at 217.693 kb on + strand at 217.740 kb on - strand, within HMPREF1058_RS01065 at 217.854 kb on + strand, within HMPREF1058_RS01065 at 217.882 kb on - strand, within HMPREF1058_RS01065 at 217.884 kb on - strand, within HMPREF1058_RS01065 at 217.913 kb on - strand, within HMPREF1058_RS01065 at 217.914 kb on + strand, within HMPREF1058_RS01065 at 217.914 kb on + strand, within HMPREF1058_RS01065 at 218.125 kb on + strand, within HMPREF1058_RS01065 at 218.246 kb on + strand at 218.246 kb on + strand at 218.247 kb on - strand at 218.247 kb on - strand at 218.248 kb on + strand at 218.289 kb on - strand at 218.313 kb on + strand at 218.359 kb on - strand, within HMPREF1058_RS01060 at 218.454 kb on + strand, within HMPREF1058_RS01060 at 218.454 kb on + strand, within HMPREF1058_RS01060 at 218.454 kb on + strand, within HMPREF1058_RS01060 at 218.454 kb on + strand, within HMPREF1058_RS01060 at 218.455 kb on - strand, within HMPREF1058_RS01060 at 218.455 kb on - strand, within HMPREF1058_RS01060 at 218.455 kb on - strand, within HMPREF1058_RS01060 at 218.470 kb on - strand, within HMPREF1058_RS01060 at 218.475 kb on + strand, within HMPREF1058_RS01060 at 218.475 kb on + strand, within HMPREF1058_RS01060 at 218.570 kb on - strand, within HMPREF1058_RS01060 at 218.571 kb on + strand, within HMPREF1058_RS01060 at 218.747 kb on - strand, within HMPREF1058_RS01060 at 218.747 kb on - strand, within HMPREF1058_RS01060 at 218.810 kb on - strand at 218.816 kb on + strand at 218.825 kb on + strand at 218.855 kb on - strand at 218.951 kb on + strand, within HMPREF1058_RS21725 at 219.008 kb on + strand, within HMPREF1058_RS21725 at 219.009 kb on - strand, within HMPREF1058_RS21725 at 219.009 kb on - strand, within HMPREF1058_RS21725 at 219.023 kb on + strand, within HMPREF1058_RS21725 at 219.049 kb on - strand, within HMPREF1058_RS21725 at 219.049 kb on - strand, within HMPREF1058_RS21725 at 219.113 kb on - strand, within HMPREF1058_RS21725 at 219.113 kb on - strand, within HMPREF1058_RS21725 at 219.113 kb on - strand, within HMPREF1058_RS21725 at 219.113 kb on - strand, within HMPREF1058_RS21725 at 219.191 kb on + strand, within HMPREF1058_RS21725 at 219.192 kb on - strand, within HMPREF1058_RS21725
Per-strain Table
Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse14; day3 remove 217,144 + -0.6 217,145 - +1.0 217,145 - +1.5 217,165 + -0.7 217,170 - +0.3 217,321 - -0.5 217,323 + -0.7 217,323 + -0.7 217,358 - -1.2 217,360 - +1.2 217,453 - +0.1 217,563 + +0.3 217,603 - -0.5 217,603 - +0.2 217,606 - +0.3 217,634 - -1.3 217,643 + -0.9 217,643 + -0.7 217,644 - +1.0 217,679 - +0.3 217,691 - +0.2 217,693 + -0.7 217,740 - HMPREF1058_RS01065 0.12 +1.5 217,854 + HMPREF1058_RS01065 0.30 +0.3 217,882 - HMPREF1058_RS01065 0.35 +0.5 217,884 - HMPREF1058_RS01065 0.35 -0.6 217,913 - HMPREF1058_RS01065 0.40 +0.6 217,914 + HMPREF1058_RS01065 0.40 +0.3 217,914 + HMPREF1058_RS01065 0.40 +1.1 218,125 + HMPREF1058_RS01065 0.74 -0.1 218,246 + +0.4 218,246 + +1.3 218,247 - +0.2 218,247 - +0.3 218,248 + +0.5 218,289 - +0.1 218,313 + +0.7 218,359 - HMPREF1058_RS01060 0.11 -0.7 218,454 + HMPREF1058_RS01060 0.29 -0.7 218,454 + HMPREF1058_RS01060 0.29 +0.7 218,454 + HMPREF1058_RS01060 0.29 -0.7 218,454 + HMPREF1058_RS01060 0.29 -0.4 218,455 - HMPREF1058_RS01060 0.29 -0.1 218,455 - HMPREF1058_RS01060 0.29 -0.1 218,455 - HMPREF1058_RS01060 0.29 -0.9 218,470 - HMPREF1058_RS01060 0.32 +2.0 218,475 + HMPREF1058_RS01060 0.33 -0.0 218,475 + HMPREF1058_RS01060 0.33 -0.2 218,570 - HMPREF1058_RS01060 0.51 +0.5 218,571 + HMPREF1058_RS01060 0.51 +0.6 218,747 - HMPREF1058_RS01060 0.85 -0.3 218,747 - HMPREF1058_RS01060 0.85 +0.2 218,810 - +0.6 218,816 + +0.8 218,825 + +1.0 218,855 - -0.1 218,951 + HMPREF1058_RS21725 0.25 +1.1 219,008 + HMPREF1058_RS21725 0.36 +1.8 219,009 - HMPREF1058_RS21725 0.36 +0.7 219,009 - HMPREF1058_RS21725 0.36 +0.9 219,023 + HMPREF1058_RS21725 0.39 +0.9 219,049 - HMPREF1058_RS21725 0.43 +2.9 219,049 - HMPREF1058_RS21725 0.43 +0.3 219,113 - HMPREF1058_RS21725 0.55 +0.5 219,113 - HMPREF1058_RS21725 0.55 -1.4 219,113 - HMPREF1058_RS21725 0.55 -0.1 219,113 - HMPREF1058_RS21725 0.55 +0.1 219,191 + HMPREF1058_RS21725 0.70 +1.3 219,192 - HMPREF1058_RS21725 0.70 +0.3
Or see this region's nucleotide sequence