Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; day4
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_RS01795 and HMPREF1058_RS01790 are separated by 57 nucleotides HMPREF1058_RS01790 and HMPREF1058_RS01785 overlap by 18 nucleotides
HMPREF1058_RS01795: HMPREF1058_RS01795 - type I pullulanase, at 39,139 to 41,133
_RS01795
HMPREF1058_RS01790: HMPREF1058_RS01790 - mannonate dehydratase, at 41,191 to 42,369
_RS01790
HMPREF1058_RS01785: HMPREF1058_RS01785 - patatin-like phospholipase family protein, at 42,352 to 44,571
_RS01785
Position (kb) 41
42
43 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3
4 at 40.193 kb on + strand, within HMPREF1058_RS01795 at 40.220 kb on + strand, within HMPREF1058_RS01795 at 40.221 kb on - strand, within HMPREF1058_RS01795 at 40.404 kb on + strand, within HMPREF1058_RS01795 at 40.419 kb on - strand, within HMPREF1058_RS01795 at 40.489 kb on - strand, within HMPREF1058_RS01795 at 40.510 kb on - strand, within HMPREF1058_RS01795 at 40.512 kb on + strand, within HMPREF1058_RS01795 at 40.529 kb on + strand, within HMPREF1058_RS01795 at 40.547 kb on + strand, within HMPREF1058_RS01795 at 40.552 kb on + strand, within HMPREF1058_RS01795 at 40.552 kb on + strand, within HMPREF1058_RS01795 at 40.557 kb on - strand, within HMPREF1058_RS01795 at 40.731 kb on + strand, within HMPREF1058_RS01795 at 40.740 kb on + strand, within HMPREF1058_RS01795 at 40.766 kb on + strand, within HMPREF1058_RS01795 at 40.823 kb on + strand, within HMPREF1058_RS01795 at 40.824 kb on - strand, within HMPREF1058_RS01795 at 40.827 kb on + strand, within HMPREF1058_RS01795 at 40.827 kb on + strand, within HMPREF1058_RS01795 at 40.874 kb on + strand, within HMPREF1058_RS01795 at 40.874 kb on + strand, within HMPREF1058_RS01795 at 41.026 kb on + strand at 41.049 kb on + strand at 41.122 kb on - strand at 41.123 kb on + strand at 41.131 kb on + strand at 41.132 kb on - strand at 41.167 kb on + strand at 41.174 kb on + strand at 41.186 kb on + strand at 41.291 kb on + strand at 41.292 kb on - strand at 41.450 kb on + strand, within HMPREF1058_RS01790 at 41.489 kb on + strand, within HMPREF1058_RS01790 at 41.495 kb on - strand, within HMPREF1058_RS01790 at 41.496 kb on + strand, within HMPREF1058_RS01790 at 41.604 kb on + strand, within HMPREF1058_RS01790 at 41.639 kb on - strand, within HMPREF1058_RS01790 at 41.683 kb on - strand, within HMPREF1058_RS01790 at 41.721 kb on + strand, within HMPREF1058_RS01790 at 41.721 kb on + strand, within HMPREF1058_RS01790 at 41.722 kb on - strand, within HMPREF1058_RS01790 at 41.723 kb on + strand, within HMPREF1058_RS01790 at 41.745 kb on - strand, within HMPREF1058_RS01790 at 41.756 kb on + strand, within HMPREF1058_RS01790 at 41.757 kb on - strand, within HMPREF1058_RS01790 at 41.786 kb on + strand, within HMPREF1058_RS01790 at 41.809 kb on + strand, within HMPREF1058_RS01790 at 41.810 kb on - strand, within HMPREF1058_RS01790 at 41.888 kb on - strand, within HMPREF1058_RS01790 at 41.894 kb on + strand, within HMPREF1058_RS01790 at 41.895 kb on - strand, within HMPREF1058_RS01790 at 41.895 kb on - strand, within HMPREF1058_RS01790 at 41.898 kb on + strand, within HMPREF1058_RS01790 at 41.898 kb on + strand, within HMPREF1058_RS01790 at 41.898 kb on + strand, within HMPREF1058_RS01790 at 42.060 kb on - strand, within HMPREF1058_RS01790 at 42.076 kb on - strand, within HMPREF1058_RS01790 at 42.101 kb on + strand, within HMPREF1058_RS01790 at 42.101 kb on + strand, within HMPREF1058_RS01790 at 42.320 kb on + strand at 42.321 kb on - strand at 42.378 kb on - strand at 42.381 kb on + strand at 42.381 kb on + strand at 42.382 kb on - strand at 42.408 kb on - strand at 42.438 kb on + strand at 42.457 kb on + strand at 42.458 kb on - strand at 42.478 kb on - strand at 42.521 kb on + strand at 42.522 kb on - strand at 42.700 kb on - strand, within HMPREF1058_RS01785 at 42.836 kb on + strand, within HMPREF1058_RS01785 at 42.836 kb on + strand, within HMPREF1058_RS01785 at 42.974 kb on - strand, within HMPREF1058_RS01785 at 42.993 kb on - strand, within HMPREF1058_RS01785 at 42.994 kb on + strand, within HMPREF1058_RS01785 at 42.995 kb on - strand, within HMPREF1058_RS01785 at 43.087 kb on - strand, within HMPREF1058_RS01785 at 43.120 kb on - strand, within HMPREF1058_RS01785 at 43.138 kb on - strand, within HMPREF1058_RS01785 at 43.139 kb on + strand, within HMPREF1058_RS01785 at 43.139 kb on + strand, within HMPREF1058_RS01785 at 43.140 kb on - strand, within HMPREF1058_RS01785 at 43.233 kb on + strand, within HMPREF1058_RS01785 at 43.282 kb on - strand, within HMPREF1058_RS01785 at 43.312 kb on + strand, within HMPREF1058_RS01785 at 43.359 kb on + strand, within HMPREF1058_RS01785
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; day4 remove 40,193 + HMPREF1058_RS01795 0.53 +0.2 40,220 + HMPREF1058_RS01795 0.54 +1.4 40,221 - HMPREF1058_RS01795 0.54 +0.5 40,404 + HMPREF1058_RS01795 0.63 -2.3 40,419 - HMPREF1058_RS01795 0.64 +1.1 40,489 - HMPREF1058_RS01795 0.68 -0.1 40,510 - HMPREF1058_RS01795 0.69 +0.3 40,512 + HMPREF1058_RS01795 0.69 +3.0 40,529 + HMPREF1058_RS01795 0.70 +3.8 40,547 + HMPREF1058_RS01795 0.71 -3.8 40,552 + HMPREF1058_RS01795 0.71 -1.3 40,552 + HMPREF1058_RS01795 0.71 -1.1 40,557 - HMPREF1058_RS01795 0.71 +0.2 40,731 + HMPREF1058_RS01795 0.80 -0.5 40,740 + HMPREF1058_RS01795 0.80 -0.2 40,766 + HMPREF1058_RS01795 0.82 -0.3 40,823 + HMPREF1058_RS01795 0.84 -1.8 40,824 - HMPREF1058_RS01795 0.84 +1.8 40,827 + HMPREF1058_RS01795 0.85 +1.2 40,827 + HMPREF1058_RS01795 0.85 +2.9 40,874 + HMPREF1058_RS01795 0.87 -0.7 40,874 + HMPREF1058_RS01795 0.87 -1.5 41,026 + +1.5 41,049 + -0.8 41,122 - -0.8 41,123 + +1.9 41,131 + -0.8 41,132 - +1.2 41,167 + +0.4 41,174 + -0.3 41,186 + +0.6 41,291 + +3.3 41,292 - +1.7 41,450 + HMPREF1058_RS01790 0.22 +1.5 41,489 + HMPREF1058_RS01790 0.25 +0.2 41,495 - HMPREF1058_RS01790 0.26 +1.2 41,496 + HMPREF1058_RS01790 0.26 -1.3 41,604 + HMPREF1058_RS01790 0.35 +4.5 41,639 - HMPREF1058_RS01790 0.38 +0.8 41,683 - HMPREF1058_RS01790 0.42 -1.2 41,721 + HMPREF1058_RS01790 0.45 +0.3 41,721 + HMPREF1058_RS01790 0.45 +0.2 41,722 - HMPREF1058_RS01790 0.45 +2.0 41,723 + HMPREF1058_RS01790 0.45 -0.9 41,745 - HMPREF1058_RS01790 0.47 -3.1 41,756 + HMPREF1058_RS01790 0.48 -2.3 41,757 - HMPREF1058_RS01790 0.48 -0.9 41,786 + HMPREF1058_RS01790 0.50 -0.1 41,809 + HMPREF1058_RS01790 0.52 +2.6 41,810 - HMPREF1058_RS01790 0.53 -1.3 41,888 - HMPREF1058_RS01790 0.59 +0.1 41,894 + HMPREF1058_RS01790 0.60 +1.2 41,895 - HMPREF1058_RS01790 0.60 +2.2 41,895 - HMPREF1058_RS01790 0.60 +0.4 41,898 + HMPREF1058_RS01790 0.60 -1.3 41,898 + HMPREF1058_RS01790 0.60 -3.2 41,898 + HMPREF1058_RS01790 0.60 +2.1 42,060 - HMPREF1058_RS01790 0.74 +1.2 42,076 - HMPREF1058_RS01790 0.75 +1.3 42,101 + HMPREF1058_RS01790 0.77 +3.8 42,101 + HMPREF1058_RS01790 0.77 -0.2 42,320 + +1.2 42,321 - +1.1 42,378 - +0.2 42,381 + +0.5 42,381 + -0.4 42,382 - -1.8 42,408 - +0.2 42,438 + -3.2 42,457 + -1.0 42,458 - +3.0 42,478 - -2.6 42,521 + -1.8 42,522 - +0.2 42,700 - HMPREF1058_RS01785 0.16 -2.3 42,836 + HMPREF1058_RS01785 0.22 -0.8 42,836 + HMPREF1058_RS01785 0.22 -2.6 42,974 - HMPREF1058_RS01785 0.28 -0.8 42,993 - HMPREF1058_RS01785 0.29 -1.0 42,994 + HMPREF1058_RS01785 0.29 -2.3 42,995 - HMPREF1058_RS01785 0.29 -0.8 43,087 - HMPREF1058_RS01785 0.33 -3.9 43,120 - HMPREF1058_RS01785 0.35 -0.0 43,138 - HMPREF1058_RS01785 0.35 +0.2 43,139 + HMPREF1058_RS01785 0.35 -0.1 43,139 + HMPREF1058_RS01785 0.35 -0.5 43,140 - HMPREF1058_RS01785 0.35 -3.3 43,233 + HMPREF1058_RS01785 0.40 -1.3 43,282 - HMPREF1058_RS01785 0.42 -0.7 43,312 + HMPREF1058_RS01785 0.43 -2.3 43,359 + HMPREF1058_RS01785 0.45 -3.3
Or see this region's nucleotide sequence