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_RS02850 and HMPREF1078_RS19290 are separated by 536 nucleotides HMPREF1078_RS19290 and HMPREF1078_RS20050 overlap by 4 nucleotides HMPREF1078_RS20050 and HMPREF1078_RS02855 are separated by 12 nucleotides HMPREF1078_RS02855 and HMPREF1078_RS02860 overlap by 23 nucleotides
HMPREF1078_RS19285: HMPREF1078_RS19285 - hypothetical protein, at 686,425 to 686,583
_RS19285
HMPREF1078_RS02850: HMPREF1078_RS02850 - hypothetical protein, at 686,569 to 686,757
_RS02850
HMPREF1078_RS19290: HMPREF1078_RS19290 - hypothetical protein, at 687,294 to 687,443
_RS19290
HMPREF1078_RS20050: HMPREF1078_RS20050 - hypothetical protein, at 687,440 to 687,565
_RS20050
HMPREF1078_RS02855: HMPREF1078_RS02855 - hypothetical protein, at 687,578 to 688,087
_RS02855
HMPREF1078_RS02860: HMPREF1078_RS02860 - PD-(D/E)XK nuclease-like domain-containing protein, at 688,065 to 689,270
_RS02860
Position (kb) 687
688
689 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3 at 686.612 kb on - strand, within HMPREF1078_RS02850 at 686.616 kb on - strand, within HMPREF1078_RS02850 at 686.616 kb on - strand, within HMPREF1078_RS02850 at 686.616 kb on - strand, within HMPREF1078_RS02850 at 686.628 kb on + strand, within HMPREF1078_RS02850 at 686.691 kb on - strand, within HMPREF1078_RS02850 at 686.738 kb on - strand, within HMPREF1078_RS02850 at 686.862 kb on - strand at 686.895 kb on - strand at 686.975 kb on - strand at 686.975 kb on - strand at 686.975 kb on - strand at 687.044 kb on - strand at 687.057 kb on - strand at 687.104 kb on - strand at 687.126 kb on - strand at 687.128 kb on - strand at 687.217 kb on - strand at 687.221 kb on - strand at 687.252 kb on - strand at 687.256 kb on - strand at 687.256 kb on - strand at 687.256 kb on - strand at 687.367 kb on - strand, within HMPREF1078_RS19290 at 687.367 kb on - strand, within HMPREF1078_RS19290 at 687.367 kb on - strand, within HMPREF1078_RS19290 at 687.367 kb on - strand, within HMPREF1078_RS19290 at 687.413 kb on - strand, within HMPREF1078_RS19290 at 687.413 kb on - strand, within HMPREF1078_RS19290 at 687.413 kb on - strand, within HMPREF1078_RS19290 at 687.415 kb on - strand, within HMPREF1078_RS19290 at 687.415 kb on - strand, within HMPREF1078_RS19290 at 687.415 kb on - strand, within HMPREF1078_RS19290 at 687.422 kb on - strand, within HMPREF1078_RS19290 at 687.426 kb on - strand, within HMPREF1078_RS19290 at 687.426 kb on - strand, within HMPREF1078_RS19290 at 687.426 kb on - strand, within HMPREF1078_RS19290 at 687.453 kb on - strand, within HMPREF1078_RS20050 at 687.526 kb on - strand, within HMPREF1078_RS20050 at 687.652 kb on - strand, within HMPREF1078_RS02855 at 687.652 kb on - strand, within HMPREF1078_RS02855 at 687.790 kb on + strand, within HMPREF1078_RS02855 at 687.855 kb on + strand, within HMPREF1078_RS02855 at 687.857 kb on + strand, within HMPREF1078_RS02855 at 687.858 kb on - strand, within HMPREF1078_RS02855 at 687.897 kb on + strand, within HMPREF1078_RS02855 at 688.050 kb on - strand at 688.108 kb on + strand at 688.108 kb on + strand at 688.109 kb on - strand at 688.109 kb on - strand at 688.109 kb on - strand at 688.147 kb on + strand at 688.148 kb on - strand at 688.153 kb on - strand at 688.153 kb on - strand at 688.173 kb on + strand at 688.192 kb on + strand, within HMPREF1078_RS02860 at 688.193 kb on - strand, within HMPREF1078_RS02860 at 688.234 kb on - strand, within HMPREF1078_RS02860 at 688.242 kb on - strand, within HMPREF1078_RS02860 at 688.242 kb on - strand, within HMPREF1078_RS02860 at 688.242 kb on - strand, within HMPREF1078_RS02860 at 688.305 kb on + strand, within HMPREF1078_RS02860 at 688.305 kb on + strand, within HMPREF1078_RS02860 at 688.306 kb on - strand, within HMPREF1078_RS02860 at 688.417 kb on - strand, within HMPREF1078_RS02860 at 688.478 kb on - strand, within HMPREF1078_RS02860 at 688.505 kb on + strand, within HMPREF1078_RS02860 at 688.520 kb on - strand, within HMPREF1078_RS02860 at 688.659 kb on + strand, within HMPREF1078_RS02860 at 688.696 kb on + strand, within HMPREF1078_RS02860 at 688.725 kb on - strand, within HMPREF1078_RS02860 at 688.727 kb on + strand, within HMPREF1078_RS02860 at 688.727 kb on + strand, within HMPREF1078_RS02860 at 688.728 kb on - strand, within HMPREF1078_RS02860 at 688.732 kb on - strand, within HMPREF1078_RS02860 at 688.784 kb on + strand, within HMPREF1078_RS02860 at 688.785 kb on - strand, within HMPREF1078_RS02860 at 688.923 kb on - strand, within HMPREF1078_RS02860 at 688.935 kb on - strand, within HMPREF1078_RS02860 at 688.985 kb on - strand, within HMPREF1078_RS02860 at 688.985 kb on - strand, within HMPREF1078_RS02860 at 688.985 kb on - strand, within HMPREF1078_RS02860
Per-strain Table
Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse18; day5 remove 686,612 - HMPREF1078_RS02850 0.23 -2.9 686,616 - HMPREF1078_RS02850 0.25 +0.3 686,616 - HMPREF1078_RS02850 0.25 +0.2 686,616 - HMPREF1078_RS02850 0.25 -1.1 686,628 + HMPREF1078_RS02850 0.31 -1.2 686,691 - HMPREF1078_RS02850 0.65 -1.5 686,738 - HMPREF1078_RS02850 0.89 +0.9 686,862 - -1.4 686,895 - +1.3 686,975 - +0.7 686,975 - -0.8 686,975 - +0.5 687,044 - +2.1 687,057 - -0.5 687,104 - -0.8 687,126 - -1.3 687,128 - +0.5 687,217 - -1.0 687,221 - -0.3 687,252 - +0.5 687,256 - +1.2 687,256 - -0.1 687,256 - -1.5 687,367 - HMPREF1078_RS19290 0.49 -0.7 687,367 - HMPREF1078_RS19290 0.49 +3.1 687,367 - HMPREF1078_RS19290 0.49 -1.2 687,367 - HMPREF1078_RS19290 0.49 -1.5 687,413 - HMPREF1078_RS19290 0.79 -1.9 687,413 - HMPREF1078_RS19290 0.79 -2.5 687,413 - HMPREF1078_RS19290 0.79 +1.2 687,415 - HMPREF1078_RS19290 0.81 -0.5 687,415 - HMPREF1078_RS19290 0.81 +0.5 687,415 - HMPREF1078_RS19290 0.81 -2.4 687,422 - HMPREF1078_RS19290 0.85 -0.7 687,426 - HMPREF1078_RS19290 0.88 -0.8 687,426 - HMPREF1078_RS19290 0.88 -1.7 687,426 - HMPREF1078_RS19290 0.88 -0.2 687,453 - HMPREF1078_RS20050 0.10 -1.5 687,526 - HMPREF1078_RS20050 0.68 -0.2 687,652 - HMPREF1078_RS02855 0.15 -0.9 687,652 - HMPREF1078_RS02855 0.15 -0.1 687,790 + HMPREF1078_RS02855 0.42 +1.5 687,855 + HMPREF1078_RS02855 0.54 -1.5 687,857 + HMPREF1078_RS02855 0.55 -3.6 687,858 - HMPREF1078_RS02855 0.55 -1.1 687,897 + HMPREF1078_RS02855 0.63 +0.5 688,050 - +0.3 688,108 + +0.0 688,108 + -1.4 688,109 - -1.4 688,109 - -0.8 688,109 - -2.4 688,147 + +2.6 688,148 - -1.2 688,153 - +0.2 688,153 - -0.8 688,173 + -1.1 688,192 + HMPREF1078_RS02860 0.11 +1.8 688,193 - HMPREF1078_RS02860 0.11 +0.2 688,234 - HMPREF1078_RS02860 0.14 -0.3 688,242 - HMPREF1078_RS02860 0.15 +1.1 688,242 - HMPREF1078_RS02860 0.15 -1.6 688,242 - HMPREF1078_RS02860 0.15 +0.3 688,305 + HMPREF1078_RS02860 0.20 +1.9 688,305 + HMPREF1078_RS02860 0.20 -0.8 688,306 - HMPREF1078_RS02860 0.20 -0.8 688,417 - HMPREF1078_RS02860 0.29 +0.5 688,478 - HMPREF1078_RS02860 0.34 -0.8 688,505 + HMPREF1078_RS02860 0.36 -0.8 688,520 - HMPREF1078_RS02860 0.38 -0.1 688,659 + HMPREF1078_RS02860 0.49 -0.5 688,696 + HMPREF1078_RS02860 0.52 +1.5 688,725 - HMPREF1078_RS02860 0.55 +2.9 688,727 + HMPREF1078_RS02860 0.55 -1.9 688,727 + HMPREF1078_RS02860 0.55 -0.8 688,728 - HMPREF1078_RS02860 0.55 -1.1 688,732 - HMPREF1078_RS02860 0.55 -0.7 688,784 + HMPREF1078_RS02860 0.60 -1.1 688,785 - HMPREF1078_RS02860 0.60 -1.6 688,923 - HMPREF1078_RS02860 0.71 +1.6 688,935 - HMPREF1078_RS02860 0.72 -1.3 688,985 - HMPREF1078_RS02860 0.76 +0.9 688,985 - HMPREF1078_RS02860 0.76 +0.3 688,985 - HMPREF1078_RS02860 0.76 -2.1
Or see this region's nucleotide sequence