Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse9; 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_RS16440 and HMPREF1058_RS16435 are separated by 79 nucleotides HMPREF1058_RS16435 and HMPREF1058_RS16430 are separated by 103 nucleotides HMPREF1058_RS16430 and HMPREF1058_RS16425 are separated by 15 nucleotides
HMPREF1058_RS16440: HMPREF1058_RS16440 - endonuclease MutS2, at 667,483 to 669,987
_RS16440
HMPREF1058_RS16435: HMPREF1058_RS16435 - RNA polymerase sigma-70 factor, at 670,067 to 670,618
_RS16435
HMPREF1058_RS16430: HMPREF1058_RS16430 - FecR domain-containing protein, at 670,722 to 671,891
_RS16430
HMPREF1058_RS16425: HMPREF1058_RS16425 - TonB-dependent receptor, at 671,907 to 675,260
_RS16425
Position (kb) 670
671
672 Strain fitness (log2 ratio) -5
-4
-3
-2
-1
0
1
2
3 at 669.725 kb on + strand, within HMPREF1058_RS16440 at 669.806 kb on - strand at 669.837 kb on - strand at 670.103 kb on - strand at 670.143 kb on - strand, within HMPREF1058_RS16435 at 670.146 kb on - strand, within HMPREF1058_RS16435 at 670.149 kb on + strand, within HMPREF1058_RS16435 at 670.150 kb on - strand, within HMPREF1058_RS16435 at 670.281 kb on + strand, within HMPREF1058_RS16435 at 670.281 kb on + strand, within HMPREF1058_RS16435 at 670.283 kb on + strand, within HMPREF1058_RS16435 at 670.337 kb on + strand, within HMPREF1058_RS16435 at 670.473 kb on + strand, within HMPREF1058_RS16435 at 670.474 kb on - strand, within HMPREF1058_RS16435 at 670.521 kb on + strand, within HMPREF1058_RS16435 at 670.521 kb on + strand, within HMPREF1058_RS16435 at 670.521 kb on + strand, within HMPREF1058_RS16435 at 670.521 kb on + strand, within HMPREF1058_RS16435 at 670.522 kb on - strand, within HMPREF1058_RS16435 at 670.522 kb on - strand, within HMPREF1058_RS16435 at 670.522 kb on - strand, within HMPREF1058_RS16435 at 670.525 kb on + strand, within HMPREF1058_RS16435 at 670.525 kb on + strand, within HMPREF1058_RS16435 at 670.612 kb on + strand at 670.613 kb on - strand at 670.628 kb on - strand at 670.695 kb on + strand at 670.696 kb on - strand at 670.740 kb on + strand at 670.740 kb on + strand at 670.741 kb on - strand at 670.756 kb on + strand at 670.781 kb on - strand at 670.971 kb on - strand, within HMPREF1058_RS16430 at 670.982 kb on - strand, within HMPREF1058_RS16430 at 670.982 kb on - strand, within HMPREF1058_RS16430 at 670.986 kb on + strand, within HMPREF1058_RS16430 at 671.006 kb on - strand, within HMPREF1058_RS16430 at 671.141 kb on + strand, within HMPREF1058_RS16430 at 671.144 kb on - strand, within HMPREF1058_RS16430 at 671.177 kb on - strand, within HMPREF1058_RS16430 at 671.204 kb on + strand, within HMPREF1058_RS16430 at 671.205 kb on - strand, within HMPREF1058_RS16430 at 671.224 kb on + strand, within HMPREF1058_RS16430 at 671.224 kb on + strand, within HMPREF1058_RS16430 at 671.257 kb on + strand, within HMPREF1058_RS16430 at 671.262 kb on - strand, within HMPREF1058_RS16430 at 671.265 kb on - strand, within HMPREF1058_RS16430 at 671.292 kb on + strand, within HMPREF1058_RS16430 at 671.293 kb on - strand, within HMPREF1058_RS16430 at 671.299 kb on + strand, within HMPREF1058_RS16430 at 671.299 kb on + strand, within HMPREF1058_RS16430 at 671.300 kb on - strand, within HMPREF1058_RS16430 at 671.300 kb on - strand, within HMPREF1058_RS16430 at 671.305 kb on + strand, within HMPREF1058_RS16430 at 671.406 kb on + strand, within HMPREF1058_RS16430 at 671.439 kb on - strand, within HMPREF1058_RS16430 at 671.439 kb on - strand, within HMPREF1058_RS16430 at 671.440 kb on + strand, within HMPREF1058_RS16430 at 671.440 kb on + strand, within HMPREF1058_RS16430 at 671.441 kb on - strand, within HMPREF1058_RS16430 at 671.442 kb on - strand, within HMPREF1058_RS16430 at 671.623 kb on + strand, within HMPREF1058_RS16430 at 671.629 kb on + strand, within HMPREF1058_RS16430 at 671.666 kb on - strand, within HMPREF1058_RS16430 at 671.791 kb on + strand at 671.883 kb on + strand at 671.884 kb on - strand at 671.907 kb on - strand at 671.926 kb on - strand at 671.945 kb on + strand at 672.105 kb on - strand at 672.140 kb on - strand at 672.160 kb on + strand at 672.246 kb on - strand, within HMPREF1058_RS16425 at 672.348 kb on - strand, within HMPREF1058_RS16425 at 672.365 kb on + strand, within HMPREF1058_RS16425 at 672.406 kb on + strand, within HMPREF1058_RS16425 at 672.406 kb on + strand, within HMPREF1058_RS16425 at 672.407 kb on - strand, within HMPREF1058_RS16425 at 672.413 kb on - strand, within HMPREF1058_RS16425 at 672.413 kb on - strand, within HMPREF1058_RS16425 at 672.419 kb on + strand, within HMPREF1058_RS16425 at 672.421 kb on + strand, within HMPREF1058_RS16425 at 672.444 kb on + strand, within HMPREF1058_RS16425 at 672.445 kb on - strand, within HMPREF1058_RS16425 at 672.445 kb on - strand, within HMPREF1058_RS16425 at 672.448 kb on + strand, within HMPREF1058_RS16425 at 672.449 kb on - strand, within HMPREF1058_RS16425 at 672.449 kb on - strand, within HMPREF1058_RS16425 at 672.449 kb on - strand, within HMPREF1058_RS16425 at 672.490 kb on + strand, within HMPREF1058_RS16425 at 672.737 kb on + strand, within HMPREF1058_RS16425 at 672.737 kb on + strand, within HMPREF1058_RS16425 at 672.746 kb on + strand, within HMPREF1058_RS16425 at 672.759 kb on + strand, within HMPREF1058_RS16425 at 672.759 kb on + strand, within HMPREF1058_RS16425 at 672.764 kb on - strand, within HMPREF1058_RS16425 at 672.764 kb on - strand, within HMPREF1058_RS16425 at 672.803 kb on + strand, within HMPREF1058_RS16425 at 672.830 kb on + strand, within HMPREF1058_RS16425 at 672.865 kb on + strand, within HMPREF1058_RS16425 at 672.865 kb on + strand, within HMPREF1058_RS16425 at 672.865 kb on + strand, within HMPREF1058_RS16425 at 672.865 kb on + strand, within HMPREF1058_RS16425 at 672.875 kb on + strand, within HMPREF1058_RS16425
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse9; day5 remove 669,725 + HMPREF1058_RS16440 0.90 -2.9 669,806 - +1.3 669,837 - -0.6 670,103 - -2.4 670,143 - HMPREF1058_RS16435 0.14 -1.1 670,146 - HMPREF1058_RS16435 0.14 -1.1 670,149 + HMPREF1058_RS16435 0.15 -4.1 670,150 - HMPREF1058_RS16435 0.15 +1.1 670,281 + HMPREF1058_RS16435 0.39 -1.6 670,281 + HMPREF1058_RS16435 0.39 -0.1 670,283 + HMPREF1058_RS16435 0.39 -0.8 670,337 + HMPREF1058_RS16435 0.49 -2.6 670,473 + HMPREF1058_RS16435 0.74 -1.1 670,474 - HMPREF1058_RS16435 0.74 -2.4 670,521 + HMPREF1058_RS16435 0.82 -2.2 670,521 + HMPREF1058_RS16435 0.82 -2.1 670,521 + HMPREF1058_RS16435 0.82 -2.1 670,521 + HMPREF1058_RS16435 0.82 -2.5 670,522 - HMPREF1058_RS16435 0.82 -1.0 670,522 - HMPREF1058_RS16435 0.82 -2.2 670,522 - HMPREF1058_RS16435 0.82 -1.6 670,525 + HMPREF1058_RS16435 0.83 -1.6 670,525 + HMPREF1058_RS16435 0.83 -2.6 670,612 + -2.4 670,613 - -2.4 670,628 - -1.6 670,695 + +3.7 670,696 - -1.9 670,740 + -2.8 670,740 + -2.9 670,741 - -1.8 670,756 + -0.8 670,781 - -3.5 670,971 - HMPREF1058_RS16430 0.21 -3.6 670,982 - HMPREF1058_RS16430 0.22 -3.2 670,982 - HMPREF1058_RS16430 0.22 -1.6 670,986 + HMPREF1058_RS16430 0.23 -3.6 671,006 - HMPREF1058_RS16430 0.24 -1.1 671,141 + HMPREF1058_RS16430 0.36 -0.1 671,144 - HMPREF1058_RS16430 0.36 -2.1 671,177 - HMPREF1058_RS16430 0.39 -4.4 671,204 + HMPREF1058_RS16430 0.41 -1.1 671,205 - HMPREF1058_RS16430 0.41 -1.6 671,224 + HMPREF1058_RS16430 0.43 -0.1 671,224 + HMPREF1058_RS16430 0.43 -1.4 671,257 + HMPREF1058_RS16430 0.46 +0.1 671,262 - HMPREF1058_RS16430 0.46 -0.2 671,265 - HMPREF1058_RS16430 0.46 -1.5 671,292 + HMPREF1058_RS16430 0.49 -2.3 671,293 - HMPREF1058_RS16430 0.49 -2.0 671,299 + HMPREF1058_RS16430 0.49 -1.6 671,299 + HMPREF1058_RS16430 0.49 +0.5 671,300 - HMPREF1058_RS16430 0.49 -1.4 671,300 - HMPREF1058_RS16430 0.49 -3.7 671,305 + HMPREF1058_RS16430 0.50 -2.9 671,406 + HMPREF1058_RS16430 0.58 +0.5 671,439 - HMPREF1058_RS16430 0.61 -4.0 671,439 - HMPREF1058_RS16430 0.61 -1.7 671,440 + HMPREF1058_RS16430 0.61 +1.1 671,440 + HMPREF1058_RS16430 0.61 +1.3 671,441 - HMPREF1058_RS16430 0.61 -2.1 671,442 - HMPREF1058_RS16430 0.62 -0.1 671,623 + HMPREF1058_RS16430 0.77 +2.5 671,629 + HMPREF1058_RS16430 0.78 -0.1 671,666 - HMPREF1058_RS16430 0.81 -1.1 671,791 + +1.5 671,883 + -1.8 671,884 - -5.3 671,907 - -2.1 671,926 - -0.1 671,945 + -2.2 672,105 - -0.1 672,140 - -1.1 672,160 + -1.3 672,246 - HMPREF1058_RS16425 0.10 -2.7 672,348 - HMPREF1058_RS16425 0.13 -1.3 672,365 + HMPREF1058_RS16425 0.14 -2.8 672,406 + HMPREF1058_RS16425 0.15 -1.1 672,406 + HMPREF1058_RS16425 0.15 -4.8 672,407 - HMPREF1058_RS16425 0.15 -3.9 672,413 - HMPREF1058_RS16425 0.15 -2.1 672,413 - HMPREF1058_RS16425 0.15 -0.8 672,419 + HMPREF1058_RS16425 0.15 -0.1 672,421 + HMPREF1058_RS16425 0.15 -2.3 672,444 + HMPREF1058_RS16425 0.16 -1.8 672,445 - HMPREF1058_RS16425 0.16 -2.1 672,445 - HMPREF1058_RS16425 0.16 -0.1 672,448 + HMPREF1058_RS16425 0.16 -2.4 672,449 - HMPREF1058_RS16425 0.16 -1.1 672,449 - HMPREF1058_RS16425 0.16 -3.2 672,449 - HMPREF1058_RS16425 0.16 -2.1 672,490 + HMPREF1058_RS16425 0.17 -1.6 672,737 + HMPREF1058_RS16425 0.25 -1.6 672,737 + HMPREF1058_RS16425 0.25 -1.4 672,746 + HMPREF1058_RS16425 0.25 -2.5 672,759 + HMPREF1058_RS16425 0.25 -2.4 672,759 + HMPREF1058_RS16425 0.25 -0.1 672,764 - HMPREF1058_RS16425 0.26 -1.6 672,764 - HMPREF1058_RS16425 0.26 -1.9 672,803 + HMPREF1058_RS16425 0.27 -1.1 672,830 + HMPREF1058_RS16425 0.28 -2.6 672,865 + HMPREF1058_RS16425 0.29 -3.6 672,865 + HMPREF1058_RS16425 0.29 -2.1 672,865 + HMPREF1058_RS16425 0.29 -0.4 672,865 + HMPREF1058_RS16425 0.29 -1.1 672,875 + HMPREF1058_RS16425 0.29 -2.9
Or see this region's nucleotide sequence