Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; 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 HMPREF1078_RS06170 and HMPREF1078_RS06175 are separated by 34 nucleotides HMPREF1078_RS06175 and HMPREF1078_RS06180 are separated by 56 nucleotides HMPREF1078_RS06180 and HMPREF1078_RS06185 are separated by 88 nucleotides
HMPREF1078_RS06170: HMPREF1078_RS06170 - lipopolysaccharide biosynthesis protein, at 588,671 to 590,179
_RS06170
HMPREF1078_RS06175: HMPREF1078_RS06175 - Holliday junction branch migration DNA helicase RuvB, at 590,214 to 591,239
_RS06175
HMPREF1078_RS06180: HMPREF1078_RS06180 - outer membrane beta-barrel protein, at 591,296 to 591,904
_RS06180
HMPREF1078_RS06185: HMPREF1078_RS06185 - glycosyltransferase family 87 protein, at 591,993 to 593,180
_RS06185
Position (kb) 590
591
592 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3 at 590.221 kb on - strand at 590.221 kb on - strand at 590.265 kb on - strand at 590.267 kb on - strand at 590.267 kb on - strand at 590.267 kb on - strand at 590.427 kb on - strand, within HMPREF1078_RS06175 at 590.427 kb on - strand, within HMPREF1078_RS06175 at 590.442 kb on - strand, within HMPREF1078_RS06175 at 590.442 kb on - strand, within HMPREF1078_RS06175 at 590.693 kb on - strand, within HMPREF1078_RS06175 at 590.867 kb on - strand, within HMPREF1078_RS06175 at 591.016 kb on - strand, within HMPREF1078_RS06175 at 591.018 kb on - strand, within HMPREF1078_RS06175 at 591.018 kb on - strand, within HMPREF1078_RS06175 at 591.033 kb on - strand, within HMPREF1078_RS06175 at 591.220 kb on - strand at 591.220 kb on - strand at 591.222 kb on - strand at 591.222 kb on - strand at 591.270 kb on - strand at 591.270 kb on - strand at 591.319 kb on + strand at 591.355 kb on + strand at 591.356 kb on - strand at 591.357 kb on + strand, within HMPREF1078_RS06180 at 591.357 kb on + strand, within HMPREF1078_RS06180 at 591.374 kb on + strand, within HMPREF1078_RS06180 at 591.374 kb on + strand, within HMPREF1078_RS06180 at 591.375 kb on - strand, within HMPREF1078_RS06180 at 591.396 kb on + strand, within HMPREF1078_RS06180 at 591.396 kb on + strand, within HMPREF1078_RS06180 at 591.487 kb on + strand, within HMPREF1078_RS06180 at 591.487 kb on + strand, within HMPREF1078_RS06180 at 591.487 kb on + strand, within HMPREF1078_RS06180 at 591.491 kb on - strand, within HMPREF1078_RS06180 at 591.491 kb on - strand, within HMPREF1078_RS06180 at 591.491 kb on - strand, within HMPREF1078_RS06180 at 591.511 kb on + strand, within HMPREF1078_RS06180 at 591.512 kb on - strand, within HMPREF1078_RS06180 at 591.524 kb on + strand, within HMPREF1078_RS06180 at 591.525 kb on - strand, within HMPREF1078_RS06180 at 591.525 kb on - strand, within HMPREF1078_RS06180 at 591.530 kb on + strand, within HMPREF1078_RS06180 at 591.553 kb on + strand, within HMPREF1078_RS06180 at 591.555 kb on + strand, within HMPREF1078_RS06180 at 591.583 kb on - strand, within HMPREF1078_RS06180 at 591.606 kb on + strand, within HMPREF1078_RS06180 at 591.607 kb on - strand, within HMPREF1078_RS06180 at 591.666 kb on + strand, within HMPREF1078_RS06180 at 591.666 kb on + strand, within HMPREF1078_RS06180 at 591.668 kb on + strand, within HMPREF1078_RS06180 at 591.668 kb on + strand, within HMPREF1078_RS06180 at 591.669 kb on - strand, within HMPREF1078_RS06180 at 591.669 kb on - strand, within HMPREF1078_RS06180 at 591.669 kb on - strand, within HMPREF1078_RS06180 at 591.669 kb on - strand, within HMPREF1078_RS06180 at 591.671 kb on + strand, within HMPREF1078_RS06180 at 591.671 kb on + strand, within HMPREF1078_RS06180 at 591.752 kb on + strand, within HMPREF1078_RS06180 at 591.755 kb on - strand, within HMPREF1078_RS06180 at 591.755 kb on - strand, within HMPREF1078_RS06180 at 591.755 kb on - strand, within HMPREF1078_RS06180 at 591.755 kb on - strand, within HMPREF1078_RS06180 at 591.757 kb on + strand, within HMPREF1078_RS06180 at 591.758 kb on - strand, within HMPREF1078_RS06180 at 591.758 kb on - strand, within HMPREF1078_RS06180 at 591.793 kb on + strand, within HMPREF1078_RS06180 at 591.794 kb on - strand, within HMPREF1078_RS06180 at 591.794 kb on - strand, within HMPREF1078_RS06180 at 591.796 kb on - strand, within HMPREF1078_RS06180 at 591.818 kb on + strand, within HMPREF1078_RS06180 at 591.818 kb on + strand, within HMPREF1078_RS06180 at 591.818 kb on + strand, within HMPREF1078_RS06180 at 591.818 kb on + strand, within HMPREF1078_RS06180 at 591.818 kb on + strand, within HMPREF1078_RS06180 at 591.819 kb on - strand, within HMPREF1078_RS06180 at 591.819 kb on - strand, within HMPREF1078_RS06180 at 591.819 kb on - strand, within HMPREF1078_RS06180 at 591.819 kb on - strand, within HMPREF1078_RS06180 at 591.860 kb on + strand at 591.860 kb on + strand at 591.861 kb on - strand at 591.882 kb on - strand at 591.904 kb on + strand at 591.905 kb on - strand at 591.972 kb on + strand at 591.973 kb on - strand at 591.973 kb on - strand at 591.976 kb on - strand at 591.978 kb on + strand at 592.030 kb on + strand at 592.031 kb on - strand at 592.031 kb on - strand at 592.031 kb on - strand at 592.032 kb on - strand at 592.040 kb on + strand at 592.041 kb on - strand at 592.041 kb on - strand at 592.078 kb on + strand at 592.088 kb on + strand at 592.091 kb on + strand at 592.091 kb on + strand at 592.092 kb on - strand at 592.092 kb on - strand at 592.116 kb on + strand, within HMPREF1078_RS06185 at 592.124 kb on + strand, within HMPREF1078_RS06185 at 592.131 kb on + strand, within HMPREF1078_RS06185 at 592.132 kb on - strand, within HMPREF1078_RS06185 at 592.132 kb on - strand, within HMPREF1078_RS06185 at 592.132 kb on - strand, within HMPREF1078_RS06185 at 592.172 kb on + strand, within HMPREF1078_RS06185 at 592.174 kb on + strand, within HMPREF1078_RS06185 at 592.202 kb on + strand, within HMPREF1078_RS06185 at 592.202 kb on + strand, within HMPREF1078_RS06185 at 592.202 kb on + strand, within HMPREF1078_RS06185 at 592.205 kb on - strand, within HMPREF1078_RS06185 at 592.212 kb on - strand, within HMPREF1078_RS06185 at 592.235 kb on + strand, within HMPREF1078_RS06185 at 592.235 kb on + strand, within HMPREF1078_RS06185 at 592.236 kb on - strand, within HMPREF1078_RS06185 at 592.238 kb on - strand, within HMPREF1078_RS06185 at 592.238 kb on - strand, within HMPREF1078_RS06185
Per-strain Table
Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; day4 remove 590,221 - +0.9 590,221 - -0.8 590,265 - +1.1 590,267 - -0.9 590,267 - -1.5 590,267 - +0.1 590,427 - HMPREF1078_RS06175 0.21 -2.8 590,427 - HMPREF1078_RS06175 0.21 -0.5 590,442 - HMPREF1078_RS06175 0.22 +0.1 590,442 - HMPREF1078_RS06175 0.22 -1.8 590,693 - HMPREF1078_RS06175 0.47 -1.5 590,867 - HMPREF1078_RS06175 0.64 -1.5 591,016 - HMPREF1078_RS06175 0.78 -2.1 591,018 - HMPREF1078_RS06175 0.78 -0.9 591,018 - HMPREF1078_RS06175 0.78 -1.5 591,033 - HMPREF1078_RS06175 0.80 +1.1 591,220 - -0.5 591,220 - -2.3 591,222 - -0.9 591,222 - -2.1 591,270 - -1.4 591,270 - -0.7 591,319 + -1.5 591,355 + -1.1 591,356 - -0.9 591,357 + HMPREF1078_RS06180 0.10 -0.1 591,357 + HMPREF1078_RS06180 0.10 -0.3 591,374 + HMPREF1078_RS06180 0.13 +1.1 591,374 + HMPREF1078_RS06180 0.13 -0.9 591,375 - HMPREF1078_RS06180 0.13 +0.2 591,396 + HMPREF1078_RS06180 0.16 +0.5 591,396 + HMPREF1078_RS06180 0.16 +0.1 591,487 + HMPREF1078_RS06180 0.31 -0.3 591,487 + HMPREF1078_RS06180 0.31 +0.7 591,487 + HMPREF1078_RS06180 0.31 -0.1 591,491 - HMPREF1078_RS06180 0.32 -0.2 591,491 - HMPREF1078_RS06180 0.32 +3.6 591,491 - HMPREF1078_RS06180 0.32 +1.4 591,511 + HMPREF1078_RS06180 0.35 +0.2 591,512 - HMPREF1078_RS06180 0.35 +0.9 591,524 + HMPREF1078_RS06180 0.37 +0.5 591,525 - HMPREF1078_RS06180 0.38 +1.6 591,525 - HMPREF1078_RS06180 0.38 -0.6 591,530 + HMPREF1078_RS06180 0.38 -0.4 591,553 + HMPREF1078_RS06180 0.42 -0.3 591,555 + HMPREF1078_RS06180 0.43 -0.1 591,583 - HMPREF1078_RS06180 0.47 -1.1 591,606 + HMPREF1078_RS06180 0.51 -1.8 591,607 - HMPREF1078_RS06180 0.51 -2.3 591,666 + HMPREF1078_RS06180 0.61 -0.0 591,666 + HMPREF1078_RS06180 0.61 -2.4 591,668 + HMPREF1078_RS06180 0.61 -1.7 591,668 + HMPREF1078_RS06180 0.61 -0.1 591,669 - HMPREF1078_RS06180 0.61 -2.9 591,669 - HMPREF1078_RS06180 0.61 +1.1 591,669 - HMPREF1078_RS06180 0.61 -0.1 591,669 - HMPREF1078_RS06180 0.61 -2.9 591,671 + HMPREF1078_RS06180 0.62 -2.9 591,671 + HMPREF1078_RS06180 0.62 +0.1 591,752 + HMPREF1078_RS06180 0.75 -0.9 591,755 - HMPREF1078_RS06180 0.75 -0.5 591,755 - HMPREF1078_RS06180 0.75 +0.1 591,755 - HMPREF1078_RS06180 0.75 +1.1 591,755 - HMPREF1078_RS06180 0.75 -0.6 591,757 + HMPREF1078_RS06180 0.76 +2.8 591,758 - HMPREF1078_RS06180 0.76 -0.9 591,758 - HMPREF1078_RS06180 0.76 +0.1 591,793 + HMPREF1078_RS06180 0.82 -0.9 591,794 - HMPREF1078_RS06180 0.82 +2.2 591,794 - HMPREF1078_RS06180 0.82 -1.5 591,796 - HMPREF1078_RS06180 0.82 +0.4 591,818 + HMPREF1078_RS06180 0.86 -0.9 591,818 + HMPREF1078_RS06180 0.86 -0.5 591,818 + HMPREF1078_RS06180 0.86 -2.2 591,818 + HMPREF1078_RS06180 0.86 -0.0 591,818 + HMPREF1078_RS06180 0.86 +0.6 591,819 - HMPREF1078_RS06180 0.86 -1.3 591,819 - HMPREF1078_RS06180 0.86 +0.1 591,819 - HMPREF1078_RS06180 0.86 -0.5 591,819 - HMPREF1078_RS06180 0.86 +1.5 591,860 + +0.5 591,860 + -2.5 591,861 - -0.2 591,882 - -0.7 591,904 + +1.1 591,905 - +0.9 591,972 + +0.1 591,973 - +2.3 591,973 - +0.1 591,976 - -0.2 591,978 + -0.0 592,030 + -0.8 592,031 - -1.1 592,031 - +1.2 592,031 - -1.1 592,032 - +0.9 592,040 + -2.2 592,041 - -1.3 592,041 - -0.3 592,078 + +0.1 592,088 + +1.1 592,091 + -0.3 592,091 + -0.4 592,092 - +0.3 592,092 - -0.5 592,116 + HMPREF1078_RS06185 0.10 -2.3 592,124 + HMPREF1078_RS06185 0.11 -2.3 592,131 + HMPREF1078_RS06185 0.12 +1.1 592,132 - HMPREF1078_RS06185 0.12 +1.1 592,132 - HMPREF1078_RS06185 0.12 -0.4 592,132 - HMPREF1078_RS06185 0.12 -0.4 592,172 + HMPREF1078_RS06185 0.15 -0.3 592,174 + HMPREF1078_RS06185 0.15 -1.6 592,202 + HMPREF1078_RS06185 0.18 -1.3 592,202 + HMPREF1078_RS06185 0.18 -1.8 592,202 + HMPREF1078_RS06185 0.18 -1.3 592,205 - HMPREF1078_RS06185 0.18 -0.2 592,212 - HMPREF1078_RS06185 0.18 +0.1 592,235 + HMPREF1078_RS06185 0.20 +1.6 592,235 + HMPREF1078_RS06185 0.20 -0.5 592,236 - HMPREF1078_RS06185 0.20 +0.5 592,238 - HMPREF1078_RS06185 0.21 -0.3 592,238 - HMPREF1078_RS06185 0.21 +0.4
Or see this region's nucleotide sequence