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_RS09890 and HMPREF1078_RS09895 are separated by 182 nucleotides HMPREF1078_RS09895 and HMPREF1078_RS09900 are separated by 250 nucleotides
HMPREF1078_RS09890: HMPREF1078_RS09890 - cation:proton antiporter, at 578,966 to 581,281
_RS09890
HMPREF1078_RS09895: HMPREF1078_RS09895 - glycoside hydrolase family 2 TIM barrel-domain containing protein, at 581,464 to 583,527
_RS09895
HMPREF1078_RS09900: HMPREF1078_RS09900 - two-component regulator propeller domain-containing protein, at 583,778 to 587,773
_RS09900
Position (kb) 581
582
583
584 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3 at 580.467 kb on + strand, within HMPREF1078_RS09890 at 580.481 kb on + strand, within HMPREF1078_RS09890 at 580.482 kb on - strand, within HMPREF1078_RS09890 at 580.482 kb on - strand, within HMPREF1078_RS09890 at 580.482 kb on - strand, within HMPREF1078_RS09890 at 580.484 kb on + strand, within HMPREF1078_RS09890 at 580.484 kb on + strand, within HMPREF1078_RS09890 at 580.485 kb on - strand, within HMPREF1078_RS09890 at 580.485 kb on - strand, within HMPREF1078_RS09890 at 580.485 kb on - strand, within HMPREF1078_RS09890 at 580.486 kb on + strand, within HMPREF1078_RS09890 at 580.487 kb on - strand, within HMPREF1078_RS09890 at 580.492 kb on - strand, within HMPREF1078_RS09890 at 580.508 kb on - strand, within HMPREF1078_RS09890 at 580.508 kb on - strand, within HMPREF1078_RS09890 at 580.591 kb on + strand, within HMPREF1078_RS09890 at 580.592 kb on - strand, within HMPREF1078_RS09890 at 580.592 kb on - strand, within HMPREF1078_RS09890 at 580.592 kb on - strand, within HMPREF1078_RS09890 at 580.720 kb on - strand, within HMPREF1078_RS09890 at 580.728 kb on + strand, within HMPREF1078_RS09890 at 580.728 kb on + strand, within HMPREF1078_RS09890 at 580.729 kb on - strand, within HMPREF1078_RS09890 at 580.729 kb on - strand, within HMPREF1078_RS09890 at 580.734 kb on + strand, within HMPREF1078_RS09890 at 580.734 kb on + strand, within HMPREF1078_RS09890 at 580.735 kb on - strand, within HMPREF1078_RS09890 at 580.735 kb on - strand, within HMPREF1078_RS09890 at 580.735 kb on - strand, within HMPREF1078_RS09890 at 580.737 kb on + strand, within HMPREF1078_RS09890 at 580.738 kb on - strand, within HMPREF1078_RS09890 at 580.738 kb on - strand, within HMPREF1078_RS09890 at 580.795 kb on + strand, within HMPREF1078_RS09890 at 580.796 kb on - strand, within HMPREF1078_RS09890 at 580.841 kb on - strand, within HMPREF1078_RS09890 at 580.881 kb on - strand, within HMPREF1078_RS09890 at 580.883 kb on + strand, within HMPREF1078_RS09890 at 580.883 kb on + strand, within HMPREF1078_RS09890 at 580.892 kb on - strand, within HMPREF1078_RS09890 at 580.892 kb on - strand, within HMPREF1078_RS09890 at 580.894 kb on + strand, within HMPREF1078_RS09890 at 580.894 kb on + strand, within HMPREF1078_RS09890 at 580.895 kb on - strand, within HMPREF1078_RS09890 at 580.895 kb on - strand, within HMPREF1078_RS09890 at 580.895 kb on - strand, within HMPREF1078_RS09890 at 580.899 kb on - strand, within HMPREF1078_RS09890 at 580.928 kb on + strand, within HMPREF1078_RS09890 at 580.928 kb on + strand, within HMPREF1078_RS09890 at 580.929 kb on - strand, within HMPREF1078_RS09890 at 580.929 kb on - strand, within HMPREF1078_RS09890 at 581.048 kb on + strand, within HMPREF1078_RS09890 at 581.057 kb on - strand at 581.140 kb on + strand at 581.141 kb on - strand at 581.214 kb on + strand at 581.215 kb on - strand at 581.215 kb on - strand at 581.251 kb on - strand at 581.259 kb on - strand at 581.343 kb on + strand at 581.426 kb on - strand at 581.451 kb on + strand at 581.454 kb on + strand at 581.454 kb on + strand at 581.482 kb on + strand at 581.482 kb on + strand at 581.482 kb on + strand at 581.531 kb on + strand at 581.531 kb on + strand at 581.532 kb on - strand at 581.532 kb on - strand at 581.532 kb on - strand at 581.540 kb on - strand at 581.555 kb on + strand at 581.624 kb on - strand at 581.631 kb on - strand at 581.631 kb on - strand at 581.631 kb on - strand at 581.635 kb on + strand at 581.636 kb on - strand at 581.643 kb on + strand at 581.706 kb on + strand, within HMPREF1078_RS09895 at 581.721 kb on + strand, within HMPREF1078_RS09895 at 581.722 kb on - strand, within HMPREF1078_RS09895 at 581.722 kb on - strand, within HMPREF1078_RS09895 at 581.727 kb on + strand, within HMPREF1078_RS09895 at 581.801 kb on + strand, within HMPREF1078_RS09895 at 581.847 kb on + strand, within HMPREF1078_RS09895 at 581.895 kb on + strand, within HMPREF1078_RS09895 at 581.922 kb on - strand, within HMPREF1078_RS09895 at 581.966 kb on + strand, within HMPREF1078_RS09895 at 582.185 kb on - strand, within HMPREF1078_RS09895 at 582.280 kb on + strand, within HMPREF1078_RS09895 at 582.280 kb on + strand, within HMPREF1078_RS09895 at 582.304 kb on - strand, within HMPREF1078_RS09895 at 582.304 kb on - strand, within HMPREF1078_RS09895 at 582.304 kb on - strand, within HMPREF1078_RS09895 at 582.306 kb on - strand, within HMPREF1078_RS09895 at 582.320 kb on + strand, within HMPREF1078_RS09895 at 582.321 kb on - strand, within HMPREF1078_RS09895 at 582.331 kb on - strand, within HMPREF1078_RS09895 at 582.347 kb on + strand, within HMPREF1078_RS09895 at 582.543 kb on + strand, within HMPREF1078_RS09895 at 582.547 kb on - strand, within HMPREF1078_RS09895 at 582.627 kb on - strand, within HMPREF1078_RS09895 at 582.635 kb on + strand, within HMPREF1078_RS09895 at 582.636 kb on - strand, within HMPREF1078_RS09895 at 582.654 kb on - strand, within HMPREF1078_RS09895 at 582.654 kb on - strand, within HMPREF1078_RS09895 at 582.704 kb on - strand, within HMPREF1078_RS09895 at 582.716 kb on - strand, within HMPREF1078_RS09895 at 582.754 kb on - strand, within HMPREF1078_RS09895 at 582.757 kb on + strand, within HMPREF1078_RS09895 at 582.758 kb on - strand, within HMPREF1078_RS09895 at 582.758 kb on - strand, within HMPREF1078_RS09895 at 582.758 kb on - strand, within HMPREF1078_RS09895 at 582.762 kb on - strand, within HMPREF1078_RS09895 at 582.890 kb on + strand, within HMPREF1078_RS09895 at 582.890 kb on + strand, within HMPREF1078_RS09895 at 583.020 kb on - strand, within HMPREF1078_RS09895 at 583.032 kb on + strand, within HMPREF1078_RS09895 at 583.036 kb on - strand, within HMPREF1078_RS09895 at 583.036 kb on - strand, within HMPREF1078_RS09895 at 583.036 kb on - strand, within HMPREF1078_RS09895 at 583.070 kb on + strand, within HMPREF1078_RS09895 at 583.218 kb on + strand, within HMPREF1078_RS09895 at 583.219 kb on - strand, within HMPREF1078_RS09895 at 583.248 kb on - strand, within HMPREF1078_RS09895 at 583.248 kb on - strand, within HMPREF1078_RS09895 at 583.353 kb on - strand at 583.364 kb on + strand at 583.377 kb on + strand at 583.558 kb on + strand at 583.590 kb on - strand at 583.616 kb on + strand at 583.617 kb on - strand at 583.637 kb on - strand at 583.699 kb on + strand at 583.699 kb on + strand at 583.699 kb on + strand at 583.700 kb on - strand at 583.700 kb on - strand at 583.768 kb on + strand at 583.769 kb on - strand at 583.769 kb on - strand at 583.770 kb on + strand at 583.770 kb on + strand at 583.771 kb on - strand at 583.771 kb on - strand at 583.772 kb on + strand at 583.772 kb on + strand at 583.772 kb on + strand at 583.772 kb on + strand at 583.773 kb on - strand at 583.775 kb on - strand at 583.777 kb on + strand at 583.777 kb on + strand at 583.777 kb on + strand at 583.778 kb on - strand at 583.783 kb on + strand at 583.784 kb on - strand at 583.788 kb on + strand at 583.789 kb on - strand at 583.791 kb on - strand at 583.791 kb on - strand at 583.793 kb on - strand at 583.793 kb on - strand at 583.793 kb on - strand at 583.793 kb on - strand at 583.793 kb on - strand at 583.793 kb on - strand at 583.803 kb on + strand at 583.803 kb on + strand at 583.803 kb on + strand at 583.805 kb on + strand at 583.806 kb on - strand at 583.807 kb on + strand at 583.807 kb on + strand at 583.807 kb on + strand at 583.808 kb on - strand at 583.808 kb on - strand at 583.895 kb on + strand at 583.895 kb on + strand at 583.986 kb on + strand at 583.997 kb on + strand at 583.998 kb on - strand at 584.065 kb on + strand at 584.066 kb on - strand at 584.066 kb on - strand at 584.089 kb on - strand at 584.134 kb on + strand at 584.175 kb on - strand at 584.175 kb on - strand at 584.197 kb on - strand, within HMPREF1078_RS09900 at 584.203 kb on - strand, within HMPREF1078_RS09900 at 584.210 kb on - strand, within HMPREF1078_RS09900 at 584.244 kb on + strand, within HMPREF1078_RS09900 at 584.244 kb on + strand, within HMPREF1078_RS09900 at 584.244 kb on + strand, within HMPREF1078_RS09900 at 584.245 kb on - strand, within HMPREF1078_RS09900 at 584.265 kb on - strand, within HMPREF1078_RS09900 at 584.325 kb on - strand, within HMPREF1078_RS09900 at 584.330 kb on + strand, within HMPREF1078_RS09900 at 584.361 kb on + strand, within HMPREF1078_RS09900 at 584.362 kb on - strand, within HMPREF1078_RS09900 at 584.388 kb on + strand, within HMPREF1078_RS09900 at 584.389 kb on - strand, within HMPREF1078_RS09900 at 584.389 kb on - strand, within HMPREF1078_RS09900 at 584.410 kb on + strand, within HMPREF1078_RS09900 at 584.410 kb on + strand, within HMPREF1078_RS09900 at 584.411 kb on - strand, within HMPREF1078_RS09900 at 584.411 kb on - strand, within HMPREF1078_RS09900 at 584.412 kb on + strand, within HMPREF1078_RS09900 at 584.412 kb on + strand, within HMPREF1078_RS09900 at 584.413 kb on - strand, within HMPREF1078_RS09900 at 584.413 kb on - strand, within HMPREF1078_RS09900 at 584.413 kb on - strand, within HMPREF1078_RS09900 at 584.413 kb on - strand, within HMPREF1078_RS09900 at 584.413 kb on - strand, within HMPREF1078_RS09900 at 584.413 kb on - strand, within HMPREF1078_RS09900 at 584.424 kb on + strand, within HMPREF1078_RS09900 at 584.470 kb on + strand, within HMPREF1078_RS09900 at 584.503 kb on + strand, within HMPREF1078_RS09900
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day3 remove 580,467 + HMPREF1078_RS09890 0.65 -2.6 580,481 + HMPREF1078_RS09890 0.65 +0.1 580,482 - HMPREF1078_RS09890 0.65 -1.8 580,482 - HMPREF1078_RS09890 0.65 -2.1 580,482 - HMPREF1078_RS09890 0.65 -1.1 580,484 + HMPREF1078_RS09890 0.66 -2.1 580,484 + HMPREF1078_RS09890 0.66 -3.1 580,485 - HMPREF1078_RS09890 0.66 -1.1 580,485 - HMPREF1078_RS09890 0.66 -0.9 580,485 - HMPREF1078_RS09890 0.66 +0.3 580,486 + HMPREF1078_RS09890 0.66 -1.9 580,487 - HMPREF1078_RS09890 0.66 -2.9 580,492 - HMPREF1078_RS09890 0.66 -2.6 580,508 - HMPREF1078_RS09890 0.67 -2.5 580,508 - HMPREF1078_RS09890 0.67 +0.2 580,591 + HMPREF1078_RS09890 0.70 -1.4 580,592 - HMPREF1078_RS09890 0.70 -1.5 580,592 - HMPREF1078_RS09890 0.70 +1.2 580,592 - HMPREF1078_RS09890 0.70 -0.6 580,720 - HMPREF1078_RS09890 0.76 -0.8 580,728 + HMPREF1078_RS09890 0.76 -2.2 580,728 + HMPREF1078_RS09890 0.76 -2.6 580,729 - HMPREF1078_RS09890 0.76 -3.3 580,729 - HMPREF1078_RS09890 0.76 -1.4 580,734 + HMPREF1078_RS09890 0.76 -2.4 580,734 + HMPREF1078_RS09890 0.76 -3.0 580,735 - HMPREF1078_RS09890 0.76 -2.5 580,735 - HMPREF1078_RS09890 0.76 -1.6 580,735 - HMPREF1078_RS09890 0.76 -1.8 580,737 + HMPREF1078_RS09890 0.76 -0.6 580,738 - HMPREF1078_RS09890 0.77 -2.2 580,738 - HMPREF1078_RS09890 0.77 -1.6 580,795 + HMPREF1078_RS09890 0.79 +0.8 580,796 - HMPREF1078_RS09890 0.79 +0.1 580,841 - HMPREF1078_RS09890 0.81 -1.1 580,881 - HMPREF1078_RS09890 0.83 -0.1 580,883 + HMPREF1078_RS09890 0.83 -0.6 580,883 + HMPREF1078_RS09890 0.83 +0.5 580,892 - HMPREF1078_RS09890 0.83 -0.5 580,892 - HMPREF1078_RS09890 0.83 -1.7 580,894 + HMPREF1078_RS09890 0.83 -0.0 580,894 + HMPREF1078_RS09890 0.83 +0.7 580,895 - HMPREF1078_RS09890 0.83 -0.8 580,895 - HMPREF1078_RS09890 0.83 -2.8 580,895 - HMPREF1078_RS09890 0.83 -3.7 580,899 - HMPREF1078_RS09890 0.83 -0.6 580,928 + HMPREF1078_RS09890 0.85 -1.3 580,928 + HMPREF1078_RS09890 0.85 -3.1 580,929 - HMPREF1078_RS09890 0.85 +1.4 580,929 - HMPREF1078_RS09890 0.85 +0.2 581,048 + HMPREF1078_RS09890 0.90 -0.9 581,057 - -1.2 581,140 + -4.0 581,141 - -0.8 581,214 + -1.5 581,215 - -0.7 581,215 - -0.6 581,251 - -1.2 581,259 - -3.2 581,343 + -4.0 581,426 - +0.1 581,451 + -1.0 581,454 + +0.1 581,454 + -0.8 581,482 + -2.4 581,482 + +0.2 581,482 + -2.0 581,531 + +0.2 581,531 + +0.4 581,532 - -2.6 581,532 - -2.5 581,532 - -2.4 581,540 - -3.3 581,555 + -0.2 581,624 - -3.3 581,631 - -2.1 581,631 - -1.6 581,631 - -1.6 581,635 + -0.7 581,636 - -1.7 581,643 + +1.4 581,706 + HMPREF1078_RS09895 0.12 -1.6 581,721 + HMPREF1078_RS09895 0.12 +1.4 581,722 - HMPREF1078_RS09895 0.12 -2.6 581,722 - HMPREF1078_RS09895 0.12 -3.8 581,727 + HMPREF1078_RS09895 0.13 -0.1 581,801 + HMPREF1078_RS09895 0.16 +0.9 581,847 + HMPREF1078_RS09895 0.19 -1.3 581,895 + HMPREF1078_RS09895 0.21 +0.8 581,922 - HMPREF1078_RS09895 0.22 -2.9 581,966 + HMPREF1078_RS09895 0.24 -2.1 582,185 - HMPREF1078_RS09895 0.35 -0.9 582,280 + HMPREF1078_RS09895 0.40 -2.3 582,280 + HMPREF1078_RS09895 0.40 +3.1 582,304 - HMPREF1078_RS09895 0.41 -0.9 582,304 - HMPREF1078_RS09895 0.41 -1.2 582,304 - HMPREF1078_RS09895 0.41 -0.5 582,306 - HMPREF1078_RS09895 0.41 +0.4 582,320 + HMPREF1078_RS09895 0.41 -0.5 582,321 - HMPREF1078_RS09895 0.42 -1.8 582,331 - HMPREF1078_RS09895 0.42 -0.8 582,347 + HMPREF1078_RS09895 0.43 +3.1 582,543 + HMPREF1078_RS09895 0.52 +0.1 582,547 - HMPREF1078_RS09895 0.52 +0.8 582,627 - HMPREF1078_RS09895 0.56 -2.1 582,635 + HMPREF1078_RS09895 0.57 +0.9 582,636 - HMPREF1078_RS09895 0.57 -1.1 582,654 - HMPREF1078_RS09895 0.58 +0.4 582,654 - HMPREF1078_RS09895 0.58 +2.1 582,704 - HMPREF1078_RS09895 0.60 -2.7 582,716 - HMPREF1078_RS09895 0.61 +1.9 582,754 - HMPREF1078_RS09895 0.62 +2.1 582,757 + HMPREF1078_RS09895 0.63 +1.2 582,758 - HMPREF1078_RS09895 0.63 +1.2 582,758 - HMPREF1078_RS09895 0.63 -0.3 582,758 - HMPREF1078_RS09895 0.63 +1.3 582,762 - HMPREF1078_RS09895 0.63 -0.5 582,890 + HMPREF1078_RS09895 0.69 -2.0 582,890 + HMPREF1078_RS09895 0.69 -1.3 583,020 - HMPREF1078_RS09895 0.75 +3.5 583,032 + HMPREF1078_RS09895 0.76 -0.9 583,036 - HMPREF1078_RS09895 0.76 -0.1 583,036 - HMPREF1078_RS09895 0.76 +1.1 583,036 - HMPREF1078_RS09895 0.76 -1.7 583,070 + HMPREF1078_RS09895 0.78 -2.5 583,218 + HMPREF1078_RS09895 0.85 -1.3 583,219 - HMPREF1078_RS09895 0.85 -0.6 583,248 - HMPREF1078_RS09895 0.86 +1.0 583,248 - HMPREF1078_RS09895 0.86 -0.6 583,353 - +0.7 583,364 + -1.7 583,377 + -0.8 583,558 + +1.5 583,590 - -0.7 583,616 + -0.8 583,617 - -0.2 583,637 - -2.0 583,699 + +1.8 583,699 + -1.3 583,699 + -0.1 583,700 - +0.7 583,700 - -1.8 583,768 + -0.0 583,769 - -1.1 583,769 - -1.6 583,770 + -1.5 583,770 + +0.4 583,771 - -1.2 583,771 - -2.3 583,772 + -0.3 583,772 + -0.3 583,772 + -3.8 583,772 + -2.9 583,773 - -3.8 583,775 - -3.5 583,777 + -0.1 583,777 + +0.3 583,777 + -2.3 583,778 - -3.2 583,783 + +0.5 583,784 - -0.3 583,788 + -0.5 583,789 - -1.2 583,791 - -3.0 583,791 - -1.6 583,793 - -3.9 583,793 - -1.2 583,793 - -2.8 583,793 - -0.4 583,793 - -1.7 583,793 - -1.1 583,803 + -0.1 583,803 + +0.3 583,803 + +1.9 583,805 + +2.7 583,806 - +0.6 583,807 + -3.5 583,807 + -1.2 583,807 + +0.6 583,808 - +0.7 583,808 - -1.2 583,895 + +1.7 583,895 + -1.1 583,986 + +0.6 583,997 + -1.5 583,998 - -1.7 584,065 + +2.0 584,066 - -2.5 584,066 - -0.9 584,089 - -2.3 584,134 + +0.5 584,175 - -0.6 584,175 - +0.8 584,197 - HMPREF1078_RS09900 0.10 -1.3 584,203 - HMPREF1078_RS09900 0.11 +2.0 584,210 - HMPREF1078_RS09900 0.11 +1.1 584,244 + HMPREF1078_RS09900 0.12 -2.0 584,244 + HMPREF1078_RS09900 0.12 +1.0 584,244 + HMPREF1078_RS09900 0.12 -0.6 584,245 - HMPREF1078_RS09900 0.12 -0.6 584,265 - HMPREF1078_RS09900 0.12 -0.8 584,325 - HMPREF1078_RS09900 0.14 -1.1 584,330 + HMPREF1078_RS09900 0.14 -0.1 584,361 + HMPREF1078_RS09900 0.15 +2.2 584,362 - HMPREF1078_RS09900 0.15 +0.3 584,388 + HMPREF1078_RS09900 0.15 +0.7 584,389 - HMPREF1078_RS09900 0.15 -0.9 584,389 - HMPREF1078_RS09900 0.15 -2.0 584,410 + HMPREF1078_RS09900 0.16 -3.3 584,410 + HMPREF1078_RS09900 0.16 -1.0 584,411 - HMPREF1078_RS09900 0.16 -2.0 584,411 - HMPREF1078_RS09900 0.16 -0.3 584,412 + HMPREF1078_RS09900 0.16 +0.4 584,412 + HMPREF1078_RS09900 0.16 +1.2 584,413 - HMPREF1078_RS09900 0.16 +0.7 584,413 - HMPREF1078_RS09900 0.16 -1.1 584,413 - HMPREF1078_RS09900 0.16 +2.1 584,413 - HMPREF1078_RS09900 0.16 +1.0 584,413 - HMPREF1078_RS09900 0.16 +0.6 584,413 - HMPREF1078_RS09900 0.16 -1.8 584,424 + HMPREF1078_RS09900 0.16 -0.7 584,470 + HMPREF1078_RS09900 0.17 +1.1 584,503 + HMPREF1078_RS09900 0.18 +2.1
Or see this region's nucleotide sequence