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_RS04565 and HMPREF1058_RS04560 are separated by 13 nucleotides HMPREF1058_RS04560 and HMPREF1058_RS04555 overlap by 4 nucleotides HMPREF1058_RS04555 and HMPREF1058_RS04550 overlap by 1 nucleotides HMPREF1058_RS04550 and HMPREF1058_RS04545 are separated by 21 nucleotides
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
HMPREF1058_RS04555: HMPREF1058_RS04555 - YqaJ viral recombinase family protein, at 8,860 to 9,531
_RS04555
HMPREF1058_RS04550: HMPREF1058_RS04550 - hypothetical protein, at 9,531 to 10,295
_RS04550
HMPREF1058_RS04545: HMPREF1058_RS04545 - hypothetical protein, at 10,317 to 10,553
_RS04545
Position (kb) 8
9
10 Strain fitness (log2 ratio) -2
-1
0
1
2
3 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 8.413 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 at 8.726 kb on + strand, within HMPREF1058_RS04560 at 8.816 kb on + strand, within HMPREF1058_RS04560 at 8.821 kb on + strand at 9.027 kb on + strand, within HMPREF1058_RS04555 at 9.099 kb on + strand, within HMPREF1058_RS04555 at 9.101 kb on + strand, within HMPREF1058_RS04555 at 9.240 kb on + strand, within HMPREF1058_RS04555 at 9.263 kb on + strand, within HMPREF1058_RS04555 at 9.511 kb on + strand at 9.513 kb on + strand at 9.532 kb on + strand at 9.557 kb on + strand at 9.557 kb on + strand at 9.685 kb on + strand, within HMPREF1058_RS04550 at 10.168 kb on + strand, within HMPREF1058_RS04550 at 10.324 kb on + strand at 10.324 kb on + strand at 10.442 kb on + strand, within HMPREF1058_RS04545
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day4 remove 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 8,413 + -0.4 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 8,726 + HMPREF1058_RS04560 0.70 +0.6 8,816 + HMPREF1058_RS04560 0.90 +2.8 8,821 + +1.7 9,027 + HMPREF1058_RS04555 0.25 +1.3 9,099 + HMPREF1058_RS04555 0.36 -1.4 9,101 + HMPREF1058_RS04555 0.36 +0.2 9,240 + HMPREF1058_RS04555 0.57 -2.1 9,263 + HMPREF1058_RS04555 0.60 +1.2 9,511 + -0.8 9,513 + +1.3 9,532 + +0.6 9,557 + +0.4 9,557 + -1.9 9,685 + HMPREF1058_RS04550 0.20 -2.6 10,168 + HMPREF1058_RS04550 0.83 -2.1 10,324 + +1.4 10,324 + +0.8 10,442 + HMPREF1058_RS04545 0.53 +3.5
Or see this region's nucleotide sequence