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_RS11975 and HMPREF1058_RS11970 are separated by 12 nucleotides HMPREF1058_RS11970 and HMPREF1058_RS11965 are separated by 56 nucleotides HMPREF1058_RS11965 and HMPREF1058_RS20655 are separated by 334 nucleotides HMPREF1058_RS20655 and HMPREF1058_RS11960 are separated by 113 nucleotides HMPREF1058_RS11960 and HMPREF1058_RS11955 are separated by 155 nucleotides
HMPREF1058_RS11975: HMPREF1058_RS11975 - outer membrane beta-barrel protein, at 233,476 to 234,123
_RS11975
HMPREF1058_RS11970: HMPREF1058_RS11970 - hypothetical protein, at 234,136 to 234,633
_RS11970
HMPREF1058_RS11965: HMPREF1058_RS11965 - glycoside hydrolase family 88 protein, at 234,690 to 235,988
_RS11965
HMPREF1058_RS20655: HMPREF1058_RS20655 - hypothetical protein, at 236,323 to 236,525
_RS20655
HMPREF1058_RS11960: HMPREF1058_RS11960 - tRNA-Ile, at 236,639 to 236,712
_RS11960
HMPREF1058_RS11955: HMPREF1058_RS11955 - calcium-translocating P-type ATPase, PMCA-type, at 236,868 to 239,498
_RS11955
Position (kb) 234
235
236 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3 at 233.719 kb on + strand, within HMPREF1058_RS11975 at 233.858 kb on + strand, within HMPREF1058_RS11975 at 233.858 kb on + strand, within HMPREF1058_RS11975 at 233.862 kb on + strand, within HMPREF1058_RS11975 at 233.862 kb on + strand, within HMPREF1058_RS11975 at 233.880 kb on - strand, within HMPREF1058_RS11975 at 233.881 kb on + strand, within HMPREF1058_RS11975 at 233.882 kb on - strand, within HMPREF1058_RS11975 at 233.986 kb on + strand, within HMPREF1058_RS11975 at 233.986 kb on + strand, within HMPREF1058_RS11975 at 233.986 kb on + strand, within HMPREF1058_RS11975 at 233.989 kb on - strand, within HMPREF1058_RS11975 at 233.998 kb on + strand, within HMPREF1058_RS11975 at 234.010 kb on + strand, within HMPREF1058_RS11975 at 234.011 kb on - strand, within HMPREF1058_RS11975 at 234.044 kb on + strand, within HMPREF1058_RS11975 at 234.045 kb on - strand, within HMPREF1058_RS11975 at 234.109 kb on - strand at 234.109 kb on - strand at 234.142 kb on - strand at 234.145 kb on + strand at 234.151 kb on - strand at 234.153 kb on + strand at 234.281 kb on + strand, within HMPREF1058_RS11970 at 234.283 kb on + strand, within HMPREF1058_RS11970 at 234.283 kb on + strand, within HMPREF1058_RS11970 at 234.335 kb on - strand, within HMPREF1058_RS11970 at 234.366 kb on - strand, within HMPREF1058_RS11970 at 234.366 kb on - strand, within HMPREF1058_RS11970 at 234.367 kb on + strand, within HMPREF1058_RS11970 at 234.387 kb on + strand at 234.429 kb on + strand, within HMPREF1058_RS11970 at 234.440 kb on - strand, within HMPREF1058_RS11970 at 234.474 kb on + strand, within HMPREF1058_RS11970 at 234.475 kb on - strand, within HMPREF1058_RS11970 at 234.491 kb on + strand, within HMPREF1058_RS11970 at 234.507 kb on + strand, within HMPREF1058_RS11970 at 234.508 kb on - strand, within HMPREF1058_RS11970 at 234.544 kb on - strand, within HMPREF1058_RS11970 at 234.632 kb on - strand at 234.632 kb on - strand at 234.636 kb on + strand at 234.637 kb on - strand at 234.637 kb on - strand at 234.637 kb on - strand at 234.733 kb on + strand at 234.768 kb on + strand at 234.816 kb on - strand at 234.821 kb on - strand, within HMPREF1058_RS11965 at 234.842 kb on + strand, within HMPREF1058_RS11965 at 234.842 kb on + strand, within HMPREF1058_RS11965 at 234.843 kb on - strand, within HMPREF1058_RS11965 at 234.843 kb on - strand, within HMPREF1058_RS11965 at 234.921 kb on + strand, within HMPREF1058_RS11965 at 234.921 kb on + strand, within HMPREF1058_RS11965 at 234.922 kb on - strand, within HMPREF1058_RS11965 at 234.978 kb on + strand, within HMPREF1058_RS11965 at 234.986 kb on + strand, within HMPREF1058_RS11965 at 234.992 kb on + strand, within HMPREF1058_RS11965 at 234.999 kb on - strand, within HMPREF1058_RS11965 at 235.076 kb on + strand, within HMPREF1058_RS11965 at 235.118 kb on + strand, within HMPREF1058_RS11965 at 235.208 kb on + strand, within HMPREF1058_RS11965 at 235.223 kb on - strand, within HMPREF1058_RS11965 at 235.234 kb on + strand, within HMPREF1058_RS11965 at 235.268 kb on + strand, within HMPREF1058_RS11965 at 235.270 kb on + strand, within HMPREF1058_RS11965 at 235.320 kb on - strand, within HMPREF1058_RS11965 at 235.464 kb on - strand, within HMPREF1058_RS11965 at 235.555 kb on + strand, within HMPREF1058_RS11965 at 235.563 kb on - strand, within HMPREF1058_RS11965 at 235.613 kb on + strand, within HMPREF1058_RS11965 at 235.618 kb on + strand, within HMPREF1058_RS11965 at 235.619 kb on - strand, within HMPREF1058_RS11965 at 235.634 kb on - strand, within HMPREF1058_RS11965 at 235.681 kb on + strand, within HMPREF1058_RS11965 at 235.733 kb on + strand, within HMPREF1058_RS11965 at 235.768 kb on + strand, within HMPREF1058_RS11965 at 235.830 kb on - strand, within HMPREF1058_RS11965 at 235.840 kb on - strand, within HMPREF1058_RS11965 at 235.863 kb on - strand at 235.892 kb on + strand at 235.988 kb on + strand at 235.989 kb on - strand at 235.989 kb on - strand at 235.989 kb on - strand at 236.017 kb on + strand at 236.065 kb on + strand at 236.065 kb on + strand at 236.082 kb on - strand at 236.160 kb on + strand at 236.161 kb on - strand at 236.231 kb on + strand at 236.260 kb on + strand at 236.270 kb on + strand at 236.295 kb on + strand at 236.299 kb on - strand at 236.539 kb on - strand at 236.539 kb on - strand at 236.541 kb on - strand at 236.541 kb on - strand at 236.542 kb on + strand at 236.542 kb on + strand at 236.542 kb on + strand at 236.575 kb on + strand at 236.575 kb on + strand at 236.576 kb on - strand at 236.576 kb on - strand at 236.576 kb on - strand at 236.578 kb on - strand at 236.578 kb on - strand at 236.824 kb on + strand
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; day4 remove 233,719 + HMPREF1058_RS11975 0.38 -0.6 233,858 + HMPREF1058_RS11975 0.59 -0.6 233,858 + HMPREF1058_RS11975 0.59 -0.3 233,862 + HMPREF1058_RS11975 0.60 -0.4 233,862 + HMPREF1058_RS11975 0.60 +0.4 233,880 - HMPREF1058_RS11975 0.62 -1.7 233,881 + HMPREF1058_RS11975 0.62 +1.3 233,882 - HMPREF1058_RS11975 0.63 +0.1 233,986 + HMPREF1058_RS11975 0.79 -1.3 233,986 + HMPREF1058_RS11975 0.79 -0.9 233,986 + HMPREF1058_RS11975 0.79 +1.5 233,989 - HMPREF1058_RS11975 0.79 -2.6 233,998 + HMPREF1058_RS11975 0.81 -1.9 234,010 + HMPREF1058_RS11975 0.82 -0.3 234,011 - HMPREF1058_RS11975 0.83 +0.0 234,044 + HMPREF1058_RS11975 0.88 -2.9 234,045 - HMPREF1058_RS11975 0.88 -0.6 234,109 - -1.3 234,109 - -0.3 234,142 - +1.2 234,145 + -1.9 234,151 - +0.1 234,153 + +0.7 234,281 + HMPREF1058_RS11970 0.29 +0.5 234,283 + HMPREF1058_RS11970 0.30 -0.1 234,283 + HMPREF1058_RS11970 0.30 -0.7 234,335 - HMPREF1058_RS11970 0.40 +0.7 234,366 - HMPREF1058_RS11970 0.46 -1.7 234,366 - HMPREF1058_RS11970 0.46 +1.5 234,367 + HMPREF1058_RS11970 0.46 -0.1 234,387 + -1.3 234,429 + HMPREF1058_RS11970 0.59 -0.0 234,440 - HMPREF1058_RS11970 0.61 -0.3 234,474 + HMPREF1058_RS11970 0.68 -0.3 234,475 - HMPREF1058_RS11970 0.68 +0.6 234,491 + HMPREF1058_RS11970 0.71 -2.2 234,507 + HMPREF1058_RS11970 0.74 +0.2 234,508 - HMPREF1058_RS11970 0.75 -0.5 234,544 - HMPREF1058_RS11970 0.82 -0.7 234,632 - -1.1 234,632 - -1.0 234,636 + +0.8 234,637 - -0.3 234,637 - +1.2 234,637 - -0.1 234,733 + +1.1 234,768 + +1.7 234,816 - +2.0 234,821 - HMPREF1058_RS11965 0.10 -0.5 234,842 + HMPREF1058_RS11965 0.12 -1.3 234,842 + HMPREF1058_RS11965 0.12 -2.3 234,843 - HMPREF1058_RS11965 0.12 +0.5 234,843 - HMPREF1058_RS11965 0.12 -1.0 234,921 + HMPREF1058_RS11965 0.18 +3.5 234,921 + HMPREF1058_RS11965 0.18 +1.1 234,922 - HMPREF1058_RS11965 0.18 -0.8 234,978 + HMPREF1058_RS11965 0.22 -1.5 234,986 + HMPREF1058_RS11965 0.23 +0.3 234,992 + HMPREF1058_RS11965 0.23 -2.1 234,999 - HMPREF1058_RS11965 0.24 +0.2 235,076 + HMPREF1058_RS11965 0.30 +1.1 235,118 + HMPREF1058_RS11965 0.33 -0.7 235,208 + HMPREF1058_RS11965 0.40 -0.7 235,223 - HMPREF1058_RS11965 0.41 +1.7 235,234 + HMPREF1058_RS11965 0.42 +0.5 235,268 + HMPREF1058_RS11965 0.44 +0.4 235,270 + HMPREF1058_RS11965 0.45 -1.9 235,320 - HMPREF1058_RS11965 0.48 -0.4 235,464 - HMPREF1058_RS11965 0.60 +2.6 235,555 + HMPREF1058_RS11965 0.67 +0.1 235,563 - HMPREF1058_RS11965 0.67 -0.1 235,613 + HMPREF1058_RS11965 0.71 -0.3 235,618 + HMPREF1058_RS11965 0.71 +0.9 235,619 - HMPREF1058_RS11965 0.72 -2.1 235,634 - HMPREF1058_RS11965 0.73 -0.2 235,681 + HMPREF1058_RS11965 0.76 -0.3 235,733 + HMPREF1058_RS11965 0.80 -0.3 235,768 + HMPREF1058_RS11965 0.83 +1.4 235,830 - HMPREF1058_RS11965 0.88 -0.9 235,840 - HMPREF1058_RS11965 0.89 +1.2 235,863 - -1.0 235,892 + -0.6 235,988 + -0.9 235,989 - +0.0 235,989 - -0.4 235,989 - -2.0 236,017 + -0.9 236,065 + +1.8 236,065 + -1.4 236,082 - -0.3 236,160 + -0.4 236,161 - -0.3 236,231 + -3.4 236,260 + -0.8 236,270 + +1.0 236,295 + -4.4 236,299 - -1.1 236,539 - -1.9 236,539 - -1.3 236,541 - +1.9 236,541 - +0.8 236,542 + +1.2 236,542 + -0.3 236,542 + +3.7 236,575 + +2.5 236,575 + -0.0 236,576 - -1.6 236,576 - +2.4 236,576 - -1.2 236,578 - +1.2 236,578 - -2.0 236,824 + +0.5
Or see this region's nucleotide sequence