Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; 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 HMPREF1058_RS17370 and HMPREF1058_RS17365 are separated by 67 nucleotides HMPREF1058_RS17365 and HMPREF1058_RS17360 are separated by 527 nucleotides HMPREF1058_RS17360 and HMPREF1058_RS17355 are separated by 362 nucleotides
HMPREF1058_RS17370: HMPREF1058_RS17370 - UpxY family transcription antiterminator, at 459,661 to 460,161
_RS17370
HMPREF1058_RS17365: HMPREF1058_RS17365 - nucleotidyltransferase domain-containing protein, at 460,229 to 460,519
_RS17365
HMPREF1058_RS17360: HMPREF1058_RS17360 - hypothetical protein, at 461,047 to 462,564
_RS17360
HMPREF1058_RS17355: HMPREF1058_RS17355 - glycosyltransferase family 4 protein, at 462,927 to 464,015
_RS17355
Position (kb) 461
462
463 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3
4
5
6 at 460.095 kb on - strand, within HMPREF1058_RS17370 at 460.160 kb on - strand at 460.160 kb on - strand at 460.270 kb on - strand, within HMPREF1058_RS17365 at 460.303 kb on - strand, within HMPREF1058_RS17365 at 460.303 kb on - strand at 460.390 kb on - strand, within HMPREF1058_RS17365 at 460.483 kb on - strand, within HMPREF1058_RS17365 at 460.542 kb on + strand at 460.542 kb on + strand at 460.633 kb on + strand at 460.640 kb on + strand at 460.670 kb on + strand at 460.670 kb on + strand at 460.671 kb on - strand at 460.742 kb on - strand at 460.748 kb on + strand at 460.748 kb on + strand at 460.749 kb on - strand at 460.752 kb on - strand at 460.814 kb on + strand at 460.814 kb on + strand at 460.814 kb on + strand at 460.831 kb on + strand at 460.831 kb on + strand at 460.904 kb on - strand at 460.941 kb on - strand at 460.994 kb on + strand at 460.994 kb on + strand at 460.999 kb on - strand at 461.002 kb on - strand at 461.102 kb on + strand at 461.102 kb on + strand at 461.107 kb on - strand at 461.116 kb on - strand at 461.127 kb on - strand at 461.186 kb on - strand at 461.202 kb on + strand, within HMPREF1058_RS17360 at 461.203 kb on - strand, within HMPREF1058_RS17360 at 461.203 kb on - strand, within HMPREF1058_RS17360 at 461.249 kb on + strand, within HMPREF1058_RS17360 at 461.304 kb on - strand, within HMPREF1058_RS17360 at 461.318 kb on + strand, within HMPREF1058_RS17360 at 461.328 kb on - strand, within HMPREF1058_RS17360 at 461.328 kb on - strand, within HMPREF1058_RS17360 at 461.349 kb on - strand, within HMPREF1058_RS17360 at 461.349 kb on - strand, within HMPREF1058_RS17360 at 461.353 kb on - strand, within HMPREF1058_RS17360 at 461.353 kb on - strand at 461.353 kb on - strand, within HMPREF1058_RS17360 at 461.376 kb on - strand, within HMPREF1058_RS17360 at 461.385 kb on - strand, within HMPREF1058_RS17360 at 461.396 kb on + strand, within HMPREF1058_RS17360 at 461.397 kb on - strand, within HMPREF1058_RS17360 at 461.402 kb on + strand, within HMPREF1058_RS17360 at 461.445 kb on - strand, within HMPREF1058_RS17360 at 461.463 kb on - strand, within HMPREF1058_RS17360 at 461.473 kb on - strand, within HMPREF1058_RS17360 at 461.474 kb on + strand, within HMPREF1058_RS17360 at 461.606 kb on + strand, within HMPREF1058_RS17360 at 461.616 kb on + strand, within HMPREF1058_RS17360 at 461.616 kb on + strand, within HMPREF1058_RS17360 at 461.666 kb on - strand, within HMPREF1058_RS17360 at 461.695 kb on + strand, within HMPREF1058_RS17360 at 461.700 kb on + strand, within HMPREF1058_RS17360 at 461.700 kb on + strand, within HMPREF1058_RS17360 at 461.709 kb on - strand, within HMPREF1058_RS17360 at 461.749 kb on - strand, within HMPREF1058_RS17360 at 461.814 kb on + strand, within HMPREF1058_RS17360 at 461.833 kb on - strand, within HMPREF1058_RS17360 at 461.842 kb on + strand, within HMPREF1058_RS17360 at 461.955 kb on + strand, within HMPREF1058_RS17360 at 462.016 kb on - strand, within HMPREF1058_RS17360 at 462.038 kb on - strand, within HMPREF1058_RS17360 at 462.038 kb on - strand, within HMPREF1058_RS17360 at 462.060 kb on + strand, within HMPREF1058_RS17360 at 462.061 kb on - strand, within HMPREF1058_RS17360 at 462.115 kb on - strand, within HMPREF1058_RS17360 at 462.118 kb on + strand, within HMPREF1058_RS17360 at 462.138 kb on - strand, within HMPREF1058_RS17360 at 462.149 kb on + strand, within HMPREF1058_RS17360 at 462.149 kb on + strand, within HMPREF1058_RS17360 at 462.151 kb on + strand, within HMPREF1058_RS17360 at 462.152 kb on - strand, within HMPREF1058_RS17360 at 462.152 kb on - strand, within HMPREF1058_RS17360 at 462.177 kb on + strand, within HMPREF1058_RS17360 at 462.199 kb on + strand, within HMPREF1058_RS17360 at 462.276 kb on - strand, within HMPREF1058_RS17360 at 462.276 kb on - strand, within HMPREF1058_RS17360 at 462.280 kb on + strand, within HMPREF1058_RS17360 at 462.298 kb on - strand, within HMPREF1058_RS17360 at 462.298 kb on - strand, within HMPREF1058_RS17360 at 462.303 kb on - strand, within HMPREF1058_RS17360 at 462.335 kb on + strand, within HMPREF1058_RS17360 at 462.336 kb on - strand, within HMPREF1058_RS17360 at 462.342 kb on - strand, within HMPREF1058_RS17360 at 462.387 kb on + strand, within HMPREF1058_RS17360 at 462.389 kb on + strand, within HMPREF1058_RS17360 at 462.414 kb on - strand at 462.417 kb on + strand at 462.497 kb on + strand at 462.533 kb on + strand at 462.579 kb on + strand at 462.580 kb on - strand at 462.581 kb on + strand at 462.582 kb on - strand at 462.624 kb on - strand at 462.727 kb on - strand at 462.730 kb on + strand at 462.810 kb on - strand at 462.849 kb on + strand at 462.870 kb on - strand at 462.883 kb on + strand at 462.884 kb on - strand at 462.944 kb on - strand at 463.014 kb on - strand at 463.014 kb on - strand at 463.048 kb on + strand, within HMPREF1058_RS17355 at 463.058 kb on - strand, within HMPREF1058_RS17355 at 463.060 kb on - strand, within HMPREF1058_RS17355 at 463.060 kb on - strand, within HMPREF1058_RS17355 at 463.060 kb on - strand, within HMPREF1058_RS17355 at 463.150 kb on - strand, within HMPREF1058_RS17355 at 463.154 kb on + strand, within HMPREF1058_RS17355 at 463.157 kb on - strand, within HMPREF1058_RS17355 at 463.160 kb on - strand, within HMPREF1058_RS17355 at 463.186 kb on - strand, within HMPREF1058_RS17355 at 463.186 kb on - strand, within HMPREF1058_RS17355 at 463.307 kb on - strand, within HMPREF1058_RS17355 at 463.309 kb on - strand, within HMPREF1058_RS17355 at 463.321 kb on + strand, within HMPREF1058_RS17355 at 463.321 kb on + strand, within HMPREF1058_RS17355 at 463.363 kb on - strand, within HMPREF1058_RS17355 at 463.374 kb on + strand, within HMPREF1058_RS17355 at 463.376 kb on + strand, within HMPREF1058_RS17355 at 463.395 kb on + strand, within HMPREF1058_RS17355 at 463.413 kb on - strand, within HMPREF1058_RS17355 at 463.484 kb on + strand, within HMPREF1058_RS17355 at 463.517 kb on - strand, within HMPREF1058_RS17355 at 463.517 kb on - strand, within HMPREF1058_RS17355 at 463.526 kb on - strand, within HMPREF1058_RS17355
Per-strain Table
Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; day5 remove 460,095 - HMPREF1058_RS17370 0.87 +1.2 460,160 - -1.9 460,160 - -0.5 460,270 - HMPREF1058_RS17365 0.14 +2.5 460,303 - HMPREF1058_RS17365 0.25 -1.2 460,303 - -1.5 460,390 - HMPREF1058_RS17365 0.55 -1.2 460,483 - HMPREF1058_RS17365 0.87 -2.2 460,542 + -0.5 460,542 + -2.6 460,633 + -0.9 460,640 + -0.1 460,670 + +0.7 460,670 + -1.5 460,671 - -0.3 460,742 - -0.5 460,748 + +1.5 460,748 + +0.1 460,749 - -1.5 460,752 - -0.5 460,814 + +2.9 460,814 + -0.9 460,814 + -0.5 460,831 + +0.7 460,831 + -0.2 460,904 - +0.1 460,941 - -2.5 460,994 + -1.9 460,994 + -0.2 460,999 - +0.1 461,002 - -0.4 461,102 + -2.7 461,102 + +0.1 461,107 - +0.1 461,116 - +0.6 461,127 - +0.7 461,186 - +2.8 461,202 + HMPREF1058_RS17360 0.10 -2.5 461,203 - HMPREF1058_RS17360 0.10 -2.0 461,203 - HMPREF1058_RS17360 0.10 +3.0 461,249 + HMPREF1058_RS17360 0.13 +0.9 461,304 - HMPREF1058_RS17360 0.17 -0.2 461,318 + HMPREF1058_RS17360 0.18 +0.4 461,328 - HMPREF1058_RS17360 0.19 +2.4 461,328 - HMPREF1058_RS17360 0.19 -0.3 461,349 - HMPREF1058_RS17360 0.20 +2.8 461,349 - HMPREF1058_RS17360 0.20 +1.9 461,353 - HMPREF1058_RS17360 0.20 +2.4 461,353 - +2.1 461,353 - HMPREF1058_RS17360 0.20 +0.8 461,376 - HMPREF1058_RS17360 0.22 +1.5 461,385 - HMPREF1058_RS17360 0.22 +2.1 461,396 + HMPREF1058_RS17360 0.23 +1.7 461,397 - HMPREF1058_RS17360 0.23 +1.6 461,402 + HMPREF1058_RS17360 0.23 +0.2 461,445 - HMPREF1058_RS17360 0.26 +1.3 461,463 - HMPREF1058_RS17360 0.27 +1.1 461,473 - HMPREF1058_RS17360 0.28 +2.9 461,474 + HMPREF1058_RS17360 0.28 +1.3 461,606 + HMPREF1058_RS17360 0.37 +0.1 461,616 + HMPREF1058_RS17360 0.37 -0.2 461,616 + HMPREF1058_RS17360 0.37 +2.0 461,666 - HMPREF1058_RS17360 0.41 -0.4 461,695 + HMPREF1058_RS17360 0.43 +1.4 461,700 + HMPREF1058_RS17360 0.43 +0.8 461,700 + HMPREF1058_RS17360 0.43 -1.3 461,709 - HMPREF1058_RS17360 0.44 +0.7 461,749 - HMPREF1058_RS17360 0.46 -0.3 461,814 + HMPREF1058_RS17360 0.51 +0.8 461,833 - HMPREF1058_RS17360 0.52 -0.5 461,842 + HMPREF1058_RS17360 0.52 +0.3 461,955 + HMPREF1058_RS17360 0.60 -0.6 462,016 - HMPREF1058_RS17360 0.64 -2.7 462,038 - HMPREF1058_RS17360 0.65 -0.1 462,038 - HMPREF1058_RS17360 0.65 +1.7 462,060 + HMPREF1058_RS17360 0.67 -2.2 462,061 - HMPREF1058_RS17360 0.67 +2.4 462,115 - HMPREF1058_RS17360 0.70 -2.7 462,118 + HMPREF1058_RS17360 0.71 +0.8 462,138 - HMPREF1058_RS17360 0.72 -2.2 462,149 + HMPREF1058_RS17360 0.73 -1.5 462,149 + HMPREF1058_RS17360 0.73 +0.4 462,151 + HMPREF1058_RS17360 0.73 -0.5 462,152 - HMPREF1058_RS17360 0.73 +2.2 462,152 - HMPREF1058_RS17360 0.73 -0.9 462,177 + HMPREF1058_RS17360 0.74 +0.6 462,199 + HMPREF1058_RS17360 0.76 +0.7 462,276 - HMPREF1058_RS17360 0.81 +4.3 462,276 - HMPREF1058_RS17360 0.81 +0.1 462,280 + HMPREF1058_RS17360 0.81 +5.8 462,298 - HMPREF1058_RS17360 0.82 -1.5 462,298 - HMPREF1058_RS17360 0.82 -0.9 462,303 - HMPREF1058_RS17360 0.83 -0.5 462,335 + HMPREF1058_RS17360 0.85 +1.1 462,336 - HMPREF1058_RS17360 0.85 +0.5 462,342 - HMPREF1058_RS17360 0.85 +1.8 462,387 + HMPREF1058_RS17360 0.88 -0.5 462,389 + HMPREF1058_RS17360 0.88 -0.2 462,414 - +0.1 462,417 + -1.5 462,497 + +0.7 462,533 + -2.2 462,579 + -1.9 462,580 - +0.4 462,581 + +0.3 462,582 - -0.6 462,624 - -3.8 462,727 - -1.9 462,730 + -1.2 462,810 - +0.7 462,849 + -0.3 462,870 - -0.9 462,883 + +0.5 462,884 - +0.1 462,944 - +0.8 463,014 - +1.7 463,014 - +0.3 463,048 + HMPREF1058_RS17355 0.11 +1.1 463,058 - HMPREF1058_RS17355 0.12 +4.7 463,060 - HMPREF1058_RS17355 0.12 -0.3 463,060 - HMPREF1058_RS17355 0.12 -1.5 463,060 - HMPREF1058_RS17355 0.12 -0.9 463,150 - HMPREF1058_RS17355 0.20 +1.7 463,154 + HMPREF1058_RS17355 0.21 +0.4 463,157 - HMPREF1058_RS17355 0.21 +1.5 463,160 - HMPREF1058_RS17355 0.21 +4.2 463,186 - HMPREF1058_RS17355 0.24 +3.5 463,186 - HMPREF1058_RS17355 0.24 +1.1 463,307 - HMPREF1058_RS17355 0.35 +2.9 463,309 - HMPREF1058_RS17355 0.35 +2.0 463,321 + HMPREF1058_RS17355 0.36 -1.7 463,321 + HMPREF1058_RS17355 0.36 -0.9 463,363 - HMPREF1058_RS17355 0.40 +0.0 463,374 + HMPREF1058_RS17355 0.41 +0.1 463,376 + HMPREF1058_RS17355 0.41 +0.7 463,395 + HMPREF1058_RS17355 0.43 -0.5 463,413 - HMPREF1058_RS17355 0.45 -1.9 463,484 + HMPREF1058_RS17355 0.51 -1.9 463,517 - HMPREF1058_RS17355 0.54 -2.7 463,517 - HMPREF1058_RS17355 0.54 -0.4 463,526 - HMPREF1058_RS17355 0.55 +2.1
Or see this region's nucleotide sequence