Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day2
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_RS13480 and HMPREF1078_RS13485 are separated by 33 nucleotides HMPREF1078_RS13485 and HMPREF1078_RS13490 overlap by 1 nucleotides HMPREF1078_RS13490 and HMPREF1078_RS13495 are separated by 12 nucleotides HMPREF1078_RS13495 and HMPREF1078_RS13500 are separated by 45 nucleotides
HMPREF1078_RS13480: HMPREF1078_RS13480 - glutamine synthetase family protein, at 141,391 to 142,893
_RS13480
HMPREF1078_RS13485: HMPREF1078_RS13485 - uracil-DNA glycosylase family protein, at 142,927 to 143,520
_RS13485
HMPREF1078_RS13490: HMPREF1078_RS13490 - arsenate reductase family protein, at 143,520 to 143,876
_RS13490
HMPREF1078_RS13495: HMPREF1078_RS13495 - hypothetical protein, at 143,889 to 144,524
_RS13495
HMPREF1078_RS13500: HMPREF1078_RS13500 - sodium:proton antiporter NhaD, at 144,570 to 146,000
_RS13500
Position (kb) 143
144 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3 at 142.547 kb on + strand, within HMPREF1078_RS13480 at 142.630 kb on + strand, within HMPREF1078_RS13480 at 142.630 kb on + strand, within HMPREF1078_RS13480 at 142.631 kb on - strand, within HMPREF1078_RS13480 at 142.631 kb on - strand, within HMPREF1078_RS13480 at 142.631 kb on - strand, within HMPREF1078_RS13480 at 142.688 kb on + strand, within HMPREF1078_RS13480 at 142.755 kb on + strand at 142.802 kb on + strand at 142.809 kb on + strand at 142.810 kb on - strand at 142.824 kb on - strand at 142.824 kb on - strand at 142.898 kb on - strand at 142.928 kb on + strand at 142.931 kb on - strand at 142.939 kb on + strand at 142.939 kb on + strand at 142.940 kb on - strand at 142.959 kb on + strand at 142.959 kb on + strand at 142.959 kb on + strand at 142.959 kb on + strand at 142.960 kb on - strand at 142.960 kb on - strand at 142.960 kb on - strand at 142.960 kb on - strand at 142.960 kb on - strand at 142.960 kb on - strand at 142.961 kb on + strand at 142.961 kb on + strand at 142.961 kb on + strand at 142.962 kb on - strand at 142.962 kb on - strand at 142.964 kb on - strand at 143.250 kb on + strand, within HMPREF1078_RS13485 at 143.330 kb on + strand, within HMPREF1078_RS13485 at 143.331 kb on - strand, within HMPREF1078_RS13485 at 143.331 kb on - strand, within HMPREF1078_RS13485 at 143.344 kb on - strand, within HMPREF1078_RS13485 at 143.394 kb on - strand, within HMPREF1078_RS13485 at 143.449 kb on + strand, within HMPREF1078_RS13485 at 143.527 kb on - strand at 143.781 kb on - strand, within HMPREF1078_RS13490 at 143.781 kb on - strand, within HMPREF1078_RS13490 at 143.781 kb on - strand, within HMPREF1078_RS13490 at 143.794 kb on + strand, within HMPREF1078_RS13490 at 143.795 kb on - strand, within HMPREF1078_RS13490 at 143.804 kb on + strand, within HMPREF1078_RS13490 at 143.859 kb on + strand at 143.869 kb on + strand at 143.870 kb on - strand at 143.877 kb on - strand at 143.877 kb on - strand at 143.877 kb on - strand at 143.878 kb on + strand at 143.878 kb on + strand at 143.878 kb on + strand at 143.878 kb on + strand at 143.878 kb on + strand at 143.879 kb on - strand at 143.879 kb on - strand at 143.879 kb on - strand at 143.879 kb on - strand at 143.890 kb on + strand at 143.947 kb on + strand at 143.948 kb on - strand at 144.054 kb on + strand, within HMPREF1078_RS13495 at 144.054 kb on + strand, within HMPREF1078_RS13495 at 144.088 kb on + strand, within HMPREF1078_RS13495 at 144.179 kb on - strand, within HMPREF1078_RS13495 at 144.179 kb on - strand, within HMPREF1078_RS13495 at 144.179 kb on - strand, within HMPREF1078_RS13495 at 144.179 kb on - strand, within HMPREF1078_RS13495 at 144.179 kb on - strand, within HMPREF1078_RS13495 at 144.191 kb on - strand, within HMPREF1078_RS13495 at 144.312 kb on + strand, within HMPREF1078_RS13495 at 144.313 kb on - strand, within HMPREF1078_RS13495 at 144.313 kb on - strand, within HMPREF1078_RS13495 at 144.328 kb on + strand, within HMPREF1078_RS13495 at 144.344 kb on + strand, within HMPREF1078_RS13495 at 144.368 kb on + strand, within HMPREF1078_RS13495 at 144.369 kb on - strand, within HMPREF1078_RS13495 at 144.378 kb on + strand, within HMPREF1078_RS13495 at 144.378 kb on + strand, within HMPREF1078_RS13495 at 144.379 kb on - strand, within HMPREF1078_RS13495 at 144.379 kb on - strand, within HMPREF1078_RS13495 at 144.379 kb on - strand, within HMPREF1078_RS13495 at 144.379 kb on - strand, within HMPREF1078_RS13495 at 144.379 kb on - strand, within HMPREF1078_RS13495 at 144.379 kb on - strand, within HMPREF1078_RS13495 at 144.381 kb on - strand, within HMPREF1078_RS13495 at 144.399 kb on + strand, within HMPREF1078_RS13495 at 144.400 kb on - strand, within HMPREF1078_RS13495 at 144.400 kb on - strand, within HMPREF1078_RS13495 at 144.400 kb on - strand, within HMPREF1078_RS13495 at 144.424 kb on + strand, within HMPREF1078_RS13495 at 144.424 kb on + strand, within HMPREF1078_RS13495 at 144.424 kb on + strand, within HMPREF1078_RS13495 at 144.425 kb on - strand, within HMPREF1078_RS13495 at 144.427 kb on + strand, within HMPREF1078_RS13495 at 144.529 kb on + strand at 144.531 kb on + strand at 144.532 kb on - strand at 144.532 kb on - strand at 144.536 kb on - strand at 144.542 kb on - strand at 144.542 kb on - strand at 144.554 kb on + strand at 144.554 kb on + strand at 144.559 kb on + strand at 144.574 kb on - strand at 144.579 kb on + strand at 144.579 kb on + strand at 144.579 kb on + strand at 144.580 kb on - strand at 144.582 kb on + strand at 144.585 kb on + strand at 144.585 kb on + strand at 144.585 kb on + strand at 144.586 kb on - strand at 144.595 kb on - strand at 144.601 kb on + strand at 144.602 kb on - strand at 144.602 kb on - strand at 144.602 kb on - strand at 144.658 kb on + strand at 144.672 kb on - strand at 144.748 kb on + strand, within HMPREF1078_RS13500 at 144.748 kb on + strand, within HMPREF1078_RS13500 at 144.749 kb on - strand, within HMPREF1078_RS13500 at 144.792 kb on + strand, within HMPREF1078_RS13500 at 144.794 kb on + strand, within HMPREF1078_RS13500 at 144.794 kb on + strand, within HMPREF1078_RS13500 at 144.794 kb on + strand, within HMPREF1078_RS13500 at 144.794 kb on + strand, within HMPREF1078_RS13500 at 144.795 kb on - strand, within HMPREF1078_RS13500 at 144.796 kb on + strand, within HMPREF1078_RS13500 at 144.796 kb on + strand, within HMPREF1078_RS13500 at 144.797 kb on - strand, within HMPREF1078_RS13500 at 144.797 kb on - strand, within HMPREF1078_RS13500
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day2 remove 142,547 + HMPREF1078_RS13480 0.77 -0.9 142,630 + HMPREF1078_RS13480 0.82 +1.5 142,630 + HMPREF1078_RS13480 0.82 +0.2 142,631 - HMPREF1078_RS13480 0.83 -0.3 142,631 - HMPREF1078_RS13480 0.83 -0.3 142,631 - HMPREF1078_RS13480 0.83 -0.6 142,688 + HMPREF1078_RS13480 0.86 -1.8 142,755 + +0.2 142,802 + +0.0 142,809 + +1.5 142,810 - +1.3 142,824 - +0.3 142,824 - +1.2 142,898 - -0.3 142,928 + +2.6 142,931 - -1.9 142,939 + +2.2 142,939 + -1.5 142,940 - +0.6 142,959 + -1.8 142,959 + +1.4 142,959 + +1.8 142,959 + +0.8 142,960 - +0.7 142,960 - +0.2 142,960 - +0.1 142,960 - -2.1 142,960 - +0.9 142,960 - -0.3 142,961 + +0.6 142,961 + -1.6 142,961 + -2.3 142,962 - +0.4 142,962 - -1.3 142,964 - -1.9 143,250 + HMPREF1078_RS13485 0.54 +2.0 143,330 + HMPREF1078_RS13485 0.68 -1.7 143,331 - HMPREF1078_RS13485 0.68 +1.4 143,331 - HMPREF1078_RS13485 0.68 +1.4 143,344 - HMPREF1078_RS13485 0.70 +3.7 143,394 - HMPREF1078_RS13485 0.79 +1.6 143,449 + HMPREF1078_RS13485 0.88 +0.8 143,527 - +1.3 143,781 - HMPREF1078_RS13490 0.73 +0.3 143,781 - HMPREF1078_RS13490 0.73 -1.3 143,781 - HMPREF1078_RS13490 0.73 +0.7 143,794 + HMPREF1078_RS13490 0.77 +1.2 143,795 - HMPREF1078_RS13490 0.77 -1.0 143,804 + HMPREF1078_RS13490 0.80 -1.2 143,859 + +0.9 143,869 + -3.6 143,870 - +0.2 143,877 - -1.7 143,877 - +2.0 143,877 - -0.4 143,878 + +0.8 143,878 + -0.4 143,878 + +0.5 143,878 + +0.0 143,878 + -2.4 143,879 - -1.1 143,879 - +1.2 143,879 - -1.7 143,879 - +1.9 143,890 + -1.5 143,947 + -2.0 143,948 - -2.7 144,054 + HMPREF1078_RS13495 0.26 -2.2 144,054 + HMPREF1078_RS13495 0.26 -0.4 144,088 + HMPREF1078_RS13495 0.31 -2.3 144,179 - HMPREF1078_RS13495 0.46 -1.1 144,179 - HMPREF1078_RS13495 0.46 -2.7 144,179 - HMPREF1078_RS13495 0.46 -0.1 144,179 - HMPREF1078_RS13495 0.46 -3.7 144,179 - HMPREF1078_RS13495 0.46 -2.4 144,191 - HMPREF1078_RS13495 0.47 -0.6 144,312 + HMPREF1078_RS13495 0.67 -0.1 144,313 - HMPREF1078_RS13495 0.67 -1.4 144,313 - HMPREF1078_RS13495 0.67 -2.3 144,328 + HMPREF1078_RS13495 0.69 -1.3 144,344 + HMPREF1078_RS13495 0.72 -2.3 144,368 + HMPREF1078_RS13495 0.75 -1.3 144,369 - HMPREF1078_RS13495 0.75 -2.2 144,378 + HMPREF1078_RS13495 0.77 +0.9 144,378 + HMPREF1078_RS13495 0.77 -2.5 144,379 - HMPREF1078_RS13495 0.77 -4.2 144,379 - HMPREF1078_RS13495 0.77 -1.6 144,379 - HMPREF1078_RS13495 0.77 -1.7 144,379 - HMPREF1078_RS13495 0.77 -2.1 144,379 - HMPREF1078_RS13495 0.77 -2.0 144,379 - HMPREF1078_RS13495 0.77 -0.6 144,381 - HMPREF1078_RS13495 0.77 -2.2 144,399 + HMPREF1078_RS13495 0.80 -2.9 144,400 - HMPREF1078_RS13495 0.80 -2.0 144,400 - HMPREF1078_RS13495 0.80 -1.0 144,400 - HMPREF1078_RS13495 0.80 -0.8 144,424 + HMPREF1078_RS13495 0.84 -1.4 144,424 + HMPREF1078_RS13495 0.84 -2.4 144,424 + HMPREF1078_RS13495 0.84 -0.8 144,425 - HMPREF1078_RS13495 0.84 +0.1 144,427 + HMPREF1078_RS13495 0.85 -1.5 144,529 + -2.3 144,531 + -0.8 144,532 - -3.0 144,532 - -3.9 144,536 - -1.7 144,542 - +0.6 144,542 - -0.2 144,554 + -0.5 144,554 + -0.4 144,559 + -0.4 144,574 - -0.3 144,579 + +1.4 144,579 + -0.1 144,579 + +0.3 144,580 - -0.4 144,582 + +1.8 144,585 + +0.0 144,585 + -3.3 144,585 + -1.6 144,586 - -2.5 144,595 - -2.3 144,601 + -0.8 144,602 - -0.9 144,602 - -1.5 144,602 - +0.1 144,658 + +0.2 144,672 - -0.7 144,748 + HMPREF1078_RS13500 0.12 -1.1 144,748 + HMPREF1078_RS13500 0.12 +1.3 144,749 - HMPREF1078_RS13500 0.13 +0.4 144,792 + HMPREF1078_RS13500 0.16 -2.0 144,794 + HMPREF1078_RS13500 0.16 +0.5 144,794 + HMPREF1078_RS13500 0.16 -2.7 144,794 + HMPREF1078_RS13500 0.16 +1.7 144,794 + HMPREF1078_RS13500 0.16 +0.9 144,795 - HMPREF1078_RS13500 0.16 +2.5 144,796 + HMPREF1078_RS13500 0.16 -0.2 144,796 + HMPREF1078_RS13500 0.16 +1.3 144,797 - HMPREF1078_RS13500 0.16 +1.7 144,797 - HMPREF1078_RS13500 0.16 -1.3
Or see this region's nucleotide sequence