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_RS12530 and HMPREF1078_RS12535 are separated by 104 nucleotides HMPREF1078_RS12535 and HMPREF1078_RS12540 are separated by 38 nucleotides
HMPREF1078_RS12530: HMPREF1078_RS12530 - anaerobic ribonucleoside triphosphate reductase, at 511,202 to 513,409
_RS12530
HMPREF1078_RS12535: HMPREF1078_RS12535 - anaerobic ribonucleoside-triphosphate reductase activating protein, at 513,514 to 514,014
_RS12535
HMPREF1078_RS12540: HMPREF1078_RS12540 - threonine/serine exporter family protein, at 514,053 to 515,402
_RS12540
Position (kb) 513
514
515 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3 at 512.667 kb on - strand, within HMPREF1078_RS12530 at 512.870 kb on + strand, within HMPREF1078_RS12530 at 512.870 kb on + strand, within HMPREF1078_RS12530 at 512.871 kb on - strand, within HMPREF1078_RS12530 at 512.871 kb on - strand, within HMPREF1078_RS12530 at 512.872 kb on + strand, within HMPREF1078_RS12530 at 513.018 kb on - strand, within HMPREF1078_RS12530 at 513.020 kb on + strand, within HMPREF1078_RS12530 at 513.020 kb on + strand, within HMPREF1078_RS12530 at 513.023 kb on - strand, within HMPREF1078_RS12530 at 513.023 kb on - strand, within HMPREF1078_RS12530 at 513.051 kb on - strand, within HMPREF1078_RS12530 at 513.118 kb on + strand, within HMPREF1078_RS12530 at 513.119 kb on - strand, within HMPREF1078_RS12530 at 513.199 kb on + strand at 513.200 kb on - strand at 513.202 kb on + strand at 513.209 kb on + strand at 513.302 kb on - strand at 513.318 kb on + strand at 513.319 kb on - strand at 513.319 kb on - strand at 513.431 kb on - strand at 513.431 kb on - strand at 513.431 kb on - strand at 513.433 kb on - strand at 513.441 kb on - strand at 513.442 kb on + strand at 513.445 kb on + strand at 513.446 kb on - strand at 513.448 kb on - strand at 513.466 kb on + strand at 513.482 kb on + strand at 513.580 kb on + strand, within HMPREF1078_RS12535 at 513.675 kb on - strand, within HMPREF1078_RS12535 at 513.802 kb on + strand, within HMPREF1078_RS12535 at 513.812 kb on - strand, within HMPREF1078_RS12535 at 513.862 kb on + strand, within HMPREF1078_RS12535 at 513.863 kb on - strand, within HMPREF1078_RS12535 at 513.878 kb on + strand, within HMPREF1078_RS12535 at 513.878 kb on + strand, within HMPREF1078_RS12535 at 513.879 kb on - strand, within HMPREF1078_RS12535 at 514.021 kb on + strand at 514.030 kb on + strand at 514.038 kb on - strand at 514.038 kb on - strand at 514.070 kb on + strand at 514.071 kb on - strand at 514.253 kb on + strand, within HMPREF1078_RS12540 at 514.273 kb on + strand, within HMPREF1078_RS12540 at 514.282 kb on - strand, within HMPREF1078_RS12540 at 514.282 kb on - strand, within HMPREF1078_RS12540 at 514.412 kb on - strand, within HMPREF1078_RS12540 at 514.551 kb on - strand, within HMPREF1078_RS12540 at 514.555 kb on + strand, within HMPREF1078_RS12540 at 514.556 kb on - strand, within HMPREF1078_RS12540 at 514.605 kb on + strand, within HMPREF1078_RS12540 at 514.605 kb on + strand, within HMPREF1078_RS12540 at 514.605 kb on + strand, within HMPREF1078_RS12540 at 514.606 kb on - strand, within HMPREF1078_RS12540 at 514.606 kb on - strand, within HMPREF1078_RS12540 at 514.607 kb on + strand, within HMPREF1078_RS12540 at 514.825 kb on + strand, within HMPREF1078_RS12540 at 514.825 kb on + strand, within HMPREF1078_RS12540 at 514.826 kb on - strand, within HMPREF1078_RS12540 at 514.862 kb on + strand, within HMPREF1078_RS12540 at 514.869 kb on - strand, within HMPREF1078_RS12540 at 514.871 kb on - strand, within HMPREF1078_RS12540 at 514.871 kb on - strand, within HMPREF1078_RS12540 at 514.938 kb on + strand, within HMPREF1078_RS12540
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day3 remove 512,667 - HMPREF1078_RS12530 0.66 -2.1 512,870 + HMPREF1078_RS12530 0.76 -2.0 512,870 + HMPREF1078_RS12530 0.76 -3.0 512,871 - HMPREF1078_RS12530 0.76 -2.5 512,871 - HMPREF1078_RS12530 0.76 -0.9 512,872 + HMPREF1078_RS12530 0.76 -2.0 513,018 - HMPREF1078_RS12530 0.82 -2.3 513,020 + HMPREF1078_RS12530 0.82 -3.3 513,020 + HMPREF1078_RS12530 0.82 -1.8 513,023 - HMPREF1078_RS12530 0.82 -3.3 513,023 - HMPREF1078_RS12530 0.82 -1.5 513,051 - HMPREF1078_RS12530 0.84 -1.2 513,118 + HMPREF1078_RS12530 0.87 -0.9 513,119 - HMPREF1078_RS12530 0.87 -2.1 513,199 + -2.4 513,200 - -2.7 513,202 + -3.3 513,209 + -2.3 513,302 - +0.1 513,318 + -2.4 513,319 - -3.8 513,319 - -0.2 513,431 - -4.2 513,431 - +0.1 513,431 - -3.7 513,433 - -4.4 513,441 - -1.1 513,442 + -3.9 513,445 + +0.3 513,446 - +0.6 513,448 - -2.3 513,466 + +0.8 513,482 + -0.4 513,580 + HMPREF1078_RS12535 0.13 -3.8 513,675 - HMPREF1078_RS12535 0.32 +0.1 513,802 + HMPREF1078_RS12535 0.57 -2.2 513,812 - HMPREF1078_RS12535 0.59 -3.4 513,862 + HMPREF1078_RS12535 0.69 -3.1 513,863 - HMPREF1078_RS12535 0.70 -0.6 513,878 + HMPREF1078_RS12535 0.73 -0.9 513,878 + HMPREF1078_RS12535 0.73 -3.5 513,879 - HMPREF1078_RS12535 0.73 -3.4 514,021 + -2.8 514,030 + -1.6 514,038 - -0.1 514,038 - +3.2 514,070 + -3.0 514,071 - +2.1 514,253 + HMPREF1078_RS12540 0.15 -1.8 514,273 + HMPREF1078_RS12540 0.16 -2.5 514,282 - HMPREF1078_RS12540 0.17 -1.2 514,282 - HMPREF1078_RS12540 0.17 +1.3 514,412 - HMPREF1078_RS12540 0.27 +1.5 514,551 - HMPREF1078_RS12540 0.37 -0.4 514,555 + HMPREF1078_RS12540 0.37 -1.6 514,556 - HMPREF1078_RS12540 0.37 -1.8 514,605 + HMPREF1078_RS12540 0.41 -1.1 514,605 + HMPREF1078_RS12540 0.41 -0.1 514,605 + HMPREF1078_RS12540 0.41 +0.0 514,606 - HMPREF1078_RS12540 0.41 +0.8 514,606 - HMPREF1078_RS12540 0.41 +2.7 514,607 + HMPREF1078_RS12540 0.41 +0.4 514,825 + HMPREF1078_RS12540 0.57 +0.5 514,825 + HMPREF1078_RS12540 0.57 -1.4 514,826 - HMPREF1078_RS12540 0.57 -0.9 514,862 + HMPREF1078_RS12540 0.60 +1.7 514,869 - HMPREF1078_RS12540 0.60 +2.1 514,871 - HMPREF1078_RS12540 0.61 -1.7 514,871 - HMPREF1078_RS12540 0.61 -1.2 514,938 + HMPREF1078_RS12540 0.66 -0.6
Or see this region's nucleotide sequence