Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; 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_RS04580 and HMPREF1058_RS04575 are separated by 18 nucleotides HMPREF1058_RS04575 and HMPREF1058_RS04570 overlap by 4 nucleotides HMPREF1058_RS04570 and HMPREF1058_RS04565 are separated by 15 nucleotides HMPREF1058_RS04565 and HMPREF1058_RS04560 are separated by 13 nucleotides
HMPREF1058_RS04580: HMPREF1058_RS04580 - hypothetical protein, at 5,777 to 6,175
_RS04580
HMPREF1058_RS04575: HMPREF1058_RS04575 - hypothetical protein, at 6,194 to 6,637
_RS04575
HMPREF1058_RS04570: HMPREF1058_RS04570 - DUF1351 domain-containing protein, at 6,634 to 7,710
_RS04570
HMPREF1058_RS04565: HMPREF1058_RS04565 - hypothetical protein, at 7,726 to 8,388
_RS04565
HMPREF1058_RS04560: HMPREF1058_RS04560 - hypothetical protein, at 8,402 to 8,863
_RS04560
Position (kb) 6
7
8 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3
4 at 5.686 kb on + strand at 5.763 kb on + strand at 5.763 kb on + strand at 5.837 kb on + strand, within HMPREF1058_RS04580 at 5.908 kb on + strand, within HMPREF1058_RS04580 at 5.908 kb on + strand, within HMPREF1058_RS04580 at 5.926 kb on + strand, within HMPREF1058_RS04580 at 5.926 kb on + strand, within HMPREF1058_RS04580 at 6.282 kb on + strand, within HMPREF1058_RS04575 at 6.375 kb on + strand, within HMPREF1058_RS04575 at 6.494 kb on + strand, within HMPREF1058_RS04575 at 6.572 kb on + strand, within HMPREF1058_RS04575 at 6.594 kb on + strand at 6.740 kb on + strand at 6.876 kb on + strand, within HMPREF1058_RS04570 at 7.148 kb on + strand, within HMPREF1058_RS04570 at 7.151 kb on + strand, within HMPREF1058_RS04570 at 7.155 kb on + strand, within HMPREF1058_RS04570 at 7.243 kb on + strand, within HMPREF1058_RS04570 at 7.364 kb on + strand, within HMPREF1058_RS04570 at 7.581 kb on + strand, within HMPREF1058_RS04570 at 7.586 kb on + strand, within HMPREF1058_RS04570 at 7.638 kb on + strand at 7.638 kb on + strand at 7.696 kb on + strand at 7.697 kb on - strand at 7.752 kb on + strand at 7.795 kb on + strand at 7.795 kb on + strand, within HMPREF1058_RS04565 at 7.829 kb on + strand, within HMPREF1058_RS04565 at 7.854 kb on + strand, within HMPREF1058_RS04565 at 7.854 kb on + strand, within HMPREF1058_RS04565 at 7.958 kb on + strand, within HMPREF1058_RS04565 at 7.989 kb on + strand, within HMPREF1058_RS04565 at 8.248 kb on + strand, within HMPREF1058_RS04565 at 8.322 kb on + strand at 8.322 kb on + strand at 8.426 kb on + strand at 8.488 kb on + strand, within HMPREF1058_RS04560 at 8.579 kb on + strand, within HMPREF1058_RS04560 at 8.592 kb on + strand, within HMPREF1058_RS04560
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day4 remove 5,686 + -1.6 5,763 + -0.4 5,763 + -0.8 5,837 + HMPREF1058_RS04580 0.15 -1.8 5,908 + HMPREF1058_RS04580 0.33 -0.4 5,908 + HMPREF1058_RS04580 0.33 +3.4 5,926 + HMPREF1058_RS04580 0.37 +2.2 5,926 + HMPREF1058_RS04580 0.37 +2.2 6,282 + HMPREF1058_RS04575 0.20 -2.4 6,375 + HMPREF1058_RS04575 0.41 +0.8 6,494 + HMPREF1058_RS04575 0.68 -1.4 6,572 + HMPREF1058_RS04575 0.85 -0.8 6,594 + +1.2 6,740 + -2.8 6,876 + HMPREF1058_RS04570 0.22 -1.1 7,148 + HMPREF1058_RS04570 0.48 -1.4 7,151 + HMPREF1058_RS04570 0.48 +1.5 7,155 + HMPREF1058_RS04570 0.48 +0.6 7,243 + HMPREF1058_RS04570 0.57 +0.3 7,364 + HMPREF1058_RS04570 0.68 -1.8 7,581 + HMPREF1058_RS04570 0.88 +1.2 7,586 + HMPREF1058_RS04570 0.88 +4.1 7,638 + -0.8 7,638 + -0.2 7,696 + +1.0 7,697 - -2.6 7,752 + +2.2 7,795 + -1.4 7,795 + HMPREF1058_RS04565 0.10 +0.2 7,829 + HMPREF1058_RS04565 0.16 -0.2 7,854 + HMPREF1058_RS04565 0.19 +0.1 7,854 + HMPREF1058_RS04565 0.19 -1.1 7,958 + HMPREF1058_RS04565 0.35 -0.3 7,989 + HMPREF1058_RS04565 0.40 -1.4 8,248 + HMPREF1058_RS04565 0.79 -0.0 8,322 + -0.4 8,322 + +0.9 8,426 + -0.6 8,488 + HMPREF1058_RS04560 0.19 -0.4 8,579 + HMPREF1058_RS04560 0.38 +1.4 8,592 + HMPREF1058_RS04560 0.41 +0.5
Or see this region's nucleotide sequence