Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; 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_RS13275 and HMPREF1058_RS13270 are separated by 63 nucleotides HMPREF1058_RS13270 and HMPREF1058_RS13265 are separated by 148 nucleotides
HMPREF1058_RS13275: HMPREF1058_RS13275 - glycoside hydrolase family 28 protein, at 1,539,561 to 1,540,967
_RS13275
HMPREF1058_RS13270: HMPREF1058_RS13270 - GTP-binding protein, at 1,541,031 to 1,542,281
_RS13270
HMPREF1058_RS13265: HMPREF1058_RS13265 - alpha-L-fucosidase, at 1,542,430 to 1,543,755
_RS13265
Position (kb) 1541
1542
1543 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3
4
5
6 at 1540.043 kb on + strand, within HMPREF1058_RS13275 at 1540.050 kb on - strand, within HMPREF1058_RS13275 at 1540.061 kb on + strand, within HMPREF1058_RS13275 at 1540.062 kb on - strand, within HMPREF1058_RS13275 at 1540.098 kb on - strand, within HMPREF1058_RS13275 at 1540.098 kb on - strand, within HMPREF1058_RS13275 at 1540.132 kb on + strand, within HMPREF1058_RS13275 at 1540.166 kb on + strand, within HMPREF1058_RS13275 at 1540.208 kb on + strand, within HMPREF1058_RS13275 at 1540.216 kb on + strand, within HMPREF1058_RS13275 at 1540.217 kb on - strand, within HMPREF1058_RS13275 at 1540.217 kb on - strand, within HMPREF1058_RS13275 at 1540.217 kb on - strand, within HMPREF1058_RS13275 at 1540.249 kb on + strand, within HMPREF1058_RS13275 at 1540.288 kb on + strand, within HMPREF1058_RS13275 at 1540.371 kb on - strand, within HMPREF1058_RS13275 at 1540.371 kb on - strand, within HMPREF1058_RS13275 at 1540.381 kb on + strand, within HMPREF1058_RS13275 at 1540.382 kb on - strand, within HMPREF1058_RS13275 at 1540.395 kb on - strand, within HMPREF1058_RS13275 at 1540.427 kb on + strand, within HMPREF1058_RS13275 at 1540.465 kb on + strand, within HMPREF1058_RS13275 at 1540.466 kb on - strand, within HMPREF1058_RS13275 at 1540.486 kb on + strand, within HMPREF1058_RS13275 at 1540.553 kb on + strand, within HMPREF1058_RS13275 at 1540.553 kb on + strand, within HMPREF1058_RS13275 at 1540.664 kb on + strand, within HMPREF1058_RS13275 at 1540.676 kb on - strand, within HMPREF1058_RS13275 at 1540.768 kb on + strand, within HMPREF1058_RS13275 at 1540.768 kb on + strand, within HMPREF1058_RS13275 at 1540.769 kb on - strand, within HMPREF1058_RS13275 at 1540.769 kb on - strand, within HMPREF1058_RS13275 at 1540.858 kb on + strand at 1540.883 kb on - strand at 1540.921 kb on + strand at 1540.939 kb on - strand at 1540.940 kb on + strand at 1540.941 kb on - strand at 1541.015 kb on - strand at 1541.032 kb on + strand at 1541.033 kb on - strand at 1541.108 kb on + strand at 1541.120 kb on - strand at 1541.123 kb on + strand at 1541.123 kb on + strand at 1541.169 kb on + strand, within HMPREF1058_RS13270 at 1541.258 kb on + strand, within HMPREF1058_RS13270 at 1541.304 kb on - strand, within HMPREF1058_RS13270 at 1541.306 kb on + strand, within HMPREF1058_RS13270 at 1541.307 kb on - strand, within HMPREF1058_RS13270 at 1541.372 kb on - strand, within HMPREF1058_RS13270 at 1541.382 kb on - strand, within HMPREF1058_RS13270 at 1541.393 kb on - strand, within HMPREF1058_RS13270 at 1541.409 kb on - strand, within HMPREF1058_RS13270 at 1541.409 kb on - strand, within HMPREF1058_RS13270 at 1541.563 kb on + strand, within HMPREF1058_RS13270 at 1541.568 kb on + strand, within HMPREF1058_RS13270 at 1541.569 kb on - strand at 1541.569 kb on - strand, within HMPREF1058_RS13270 at 1541.604 kb on + strand, within HMPREF1058_RS13270 at 1541.694 kb on + strand, within HMPREF1058_RS13270 at 1541.694 kb on + strand, within HMPREF1058_RS13270 at 1541.879 kb on + strand, within HMPREF1058_RS13270 at 1541.879 kb on + strand, within HMPREF1058_RS13270 at 1541.933 kb on - strand, within HMPREF1058_RS13270 at 1541.955 kb on - strand, within HMPREF1058_RS13270 at 1541.957 kb on + strand, within HMPREF1058_RS13270 at 1541.958 kb on - strand, within HMPREF1058_RS13270 at 1541.993 kb on + strand, within HMPREF1058_RS13270 at 1542.003 kb on - strand, within HMPREF1058_RS13270 at 1542.064 kb on - strand, within HMPREF1058_RS13270 at 1542.081 kb on - strand, within HMPREF1058_RS13270 at 1542.119 kb on + strand, within HMPREF1058_RS13270 at 1542.120 kb on - strand, within HMPREF1058_RS13270 at 1542.134 kb on + strand, within HMPREF1058_RS13270 at 1542.153 kb on + strand, within HMPREF1058_RS13270 at 1542.197 kb on + strand at 1542.233 kb on + strand at 1542.248 kb on - strand at 1542.249 kb on + strand at 1542.249 kb on + strand at 1542.296 kb on + strand at 1542.297 kb on - strand at 1542.314 kb on + strand at 1542.384 kb on - strand at 1542.394 kb on + strand at 1542.420 kb on + strand at 1542.573 kb on + strand, within HMPREF1058_RS13265 at 1542.584 kb on + strand, within HMPREF1058_RS13265 at 1542.604 kb on + strand, within HMPREF1058_RS13265 at 1542.604 kb on + strand, within HMPREF1058_RS13265 at 1542.634 kb on - strand, within HMPREF1058_RS13265 at 1542.634 kb on - strand, within HMPREF1058_RS13265 at 1542.749 kb on - strand, within HMPREF1058_RS13265 at 1542.749 kb on - strand, within HMPREF1058_RS13265 at 1542.749 kb on - strand, within HMPREF1058_RS13265 at 1542.749 kb on - strand, within HMPREF1058_RS13265 at 1542.749 kb on - strand, within HMPREF1058_RS13265 at 1542.750 kb on + strand, within HMPREF1058_RS13265 at 1542.750 kb on + strand, within HMPREF1058_RS13265 at 1542.751 kb on - strand, within HMPREF1058_RS13265 at 1542.751 kb on - strand, within HMPREF1058_RS13265 at 1542.751 kb on - strand, within HMPREF1058_RS13265 at 1542.756 kb on + strand, within HMPREF1058_RS13265 at 1542.756 kb on + strand, within HMPREF1058_RS13265 at 1542.822 kb on - strand, within HMPREF1058_RS13265 at 1542.822 kb on - strand, within HMPREF1058_RS13265 at 1542.848 kb on + strand, within HMPREF1058_RS13265 at 1542.848 kb on + strand, within HMPREF1058_RS13265 at 1542.849 kb on - strand, within HMPREF1058_RS13265 at 1543.089 kb on - strand, within HMPREF1058_RS13265 at 1543.121 kb on - strand, within HMPREF1058_RS13265 at 1543.158 kb on - strand, within HMPREF1058_RS13265 at 1543.158 kb on - strand, within HMPREF1058_RS13265 at 1543.161 kb on + strand, within HMPREF1058_RS13265 at 1543.263 kb on - strand, within HMPREF1058_RS13265
Per-strain Table
Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; day4 remove 1,540,043 + HMPREF1058_RS13275 0.34 +0.0 1,540,050 - HMPREF1058_RS13275 0.35 -0.5 1,540,061 + HMPREF1058_RS13275 0.36 -1.6 1,540,062 - HMPREF1058_RS13275 0.36 +0.6 1,540,098 - HMPREF1058_RS13275 0.38 -2.2 1,540,098 - HMPREF1058_RS13275 0.38 -0.6 1,540,132 + HMPREF1058_RS13275 0.41 +1.0 1,540,166 + HMPREF1058_RS13275 0.43 -1.3 1,540,208 + HMPREF1058_RS13275 0.46 +0.7 1,540,216 + HMPREF1058_RS13275 0.47 +0.3 1,540,217 - HMPREF1058_RS13275 0.47 +0.4 1,540,217 - HMPREF1058_RS13275 0.47 -1.6 1,540,217 - HMPREF1058_RS13275 0.47 -0.3 1,540,249 + HMPREF1058_RS13275 0.49 -0.4 1,540,288 + HMPREF1058_RS13275 0.52 -2.0 1,540,371 - HMPREF1058_RS13275 0.58 +0.0 1,540,371 - HMPREF1058_RS13275 0.58 -0.5 1,540,381 + HMPREF1058_RS13275 0.58 +0.4 1,540,382 - HMPREF1058_RS13275 0.58 +2.1 1,540,395 - HMPREF1058_RS13275 0.59 -1.3 1,540,427 + HMPREF1058_RS13275 0.62 +1.0 1,540,465 + HMPREF1058_RS13275 0.64 -0.7 1,540,466 - HMPREF1058_RS13275 0.64 +0.3 1,540,486 + HMPREF1058_RS13275 0.66 +0.0 1,540,553 + HMPREF1058_RS13275 0.71 -3.2 1,540,553 + HMPREF1058_RS13275 0.71 -0.1 1,540,664 + HMPREF1058_RS13275 0.78 +0.7 1,540,676 - HMPREF1058_RS13275 0.79 -1.3 1,540,768 + HMPREF1058_RS13275 0.86 -1.6 1,540,768 + HMPREF1058_RS13275 0.86 -4.2 1,540,769 - HMPREF1058_RS13275 0.86 -1.4 1,540,769 - HMPREF1058_RS13275 0.86 -0.6 1,540,858 + +1.6 1,540,883 - +0.4 1,540,921 + -2.2 1,540,939 - -4.6 1,540,940 + -1.4 1,540,941 - -2.3 1,541,015 - +0.9 1,541,032 + -2.0 1,541,033 - +0.1 1,541,108 + +0.0 1,541,120 - +1.0 1,541,123 + +0.6 1,541,123 + -2.6 1,541,169 + HMPREF1058_RS13270 0.11 +5.5 1,541,258 + HMPREF1058_RS13270 0.18 -2.0 1,541,304 - HMPREF1058_RS13270 0.22 -1.0 1,541,306 + HMPREF1058_RS13270 0.22 +2.0 1,541,307 - HMPREF1058_RS13270 0.22 -1.1 1,541,372 - HMPREF1058_RS13270 0.27 -0.4 1,541,382 - HMPREF1058_RS13270 0.28 +0.1 1,541,393 - HMPREF1058_RS13270 0.29 -0.2 1,541,409 - HMPREF1058_RS13270 0.30 +0.0 1,541,409 - HMPREF1058_RS13270 0.30 +0.9 1,541,563 + HMPREF1058_RS13270 0.43 +5.9 1,541,568 + HMPREF1058_RS13270 0.43 +2.7 1,541,569 - -2.0 1,541,569 - HMPREF1058_RS13270 0.43 +0.9 1,541,604 + HMPREF1058_RS13270 0.46 +1.0 1,541,694 + HMPREF1058_RS13270 0.53 -0.3 1,541,694 + HMPREF1058_RS13270 0.53 +0.6 1,541,879 + HMPREF1058_RS13270 0.68 -0.2 1,541,879 + HMPREF1058_RS13270 0.68 +0.5 1,541,933 - HMPREF1058_RS13270 0.72 -2.0 1,541,955 - HMPREF1058_RS13270 0.74 +0.3 1,541,957 + HMPREF1058_RS13270 0.74 -0.5 1,541,958 - HMPREF1058_RS13270 0.74 +0.6 1,541,993 + HMPREF1058_RS13270 0.77 +0.2 1,542,003 - HMPREF1058_RS13270 0.78 +2.9 1,542,064 - HMPREF1058_RS13270 0.83 +0.0 1,542,081 - HMPREF1058_RS13270 0.84 -3.8 1,542,119 + HMPREF1058_RS13270 0.87 -1.2 1,542,120 - HMPREF1058_RS13270 0.87 +0.8 1,542,134 + HMPREF1058_RS13270 0.88 +0.6 1,542,153 + HMPREF1058_RS13270 0.90 -1.0 1,542,197 + -3.3 1,542,233 + +1.0 1,542,248 - -2.3 1,542,249 + +1.0 1,542,249 + +0.2 1,542,296 + -1.3 1,542,297 - -0.4 1,542,314 + -1.0 1,542,384 - -0.6 1,542,394 + -0.2 1,542,420 + -1.3 1,542,573 + HMPREF1058_RS13265 0.11 +0.0 1,542,584 + HMPREF1058_RS13265 0.12 +3.0 1,542,604 + HMPREF1058_RS13265 0.13 -3.9 1,542,604 + HMPREF1058_RS13265 0.13 -2.0 1,542,634 - HMPREF1058_RS13265 0.15 +0.7 1,542,634 - HMPREF1058_RS13265 0.15 +0.0 1,542,749 - HMPREF1058_RS13265 0.24 -0.2 1,542,749 - HMPREF1058_RS13265 0.24 +0.3 1,542,749 - HMPREF1058_RS13265 0.24 -0.7 1,542,749 - HMPREF1058_RS13265 0.24 -0.5 1,542,749 - HMPREF1058_RS13265 0.24 -2.6 1,542,750 + HMPREF1058_RS13265 0.24 +0.8 1,542,750 + HMPREF1058_RS13265 0.24 +2.4 1,542,751 - HMPREF1058_RS13265 0.24 +1.3 1,542,751 - HMPREF1058_RS13265 0.24 -1.0 1,542,751 - HMPREF1058_RS13265 0.24 +1.4 1,542,756 + HMPREF1058_RS13265 0.25 +0.4 1,542,756 + HMPREF1058_RS13265 0.25 -3.7 1,542,822 - HMPREF1058_RS13265 0.30 -2.9 1,542,822 - HMPREF1058_RS13265 0.30 +0.8 1,542,848 + HMPREF1058_RS13265 0.32 -1.0 1,542,848 + HMPREF1058_RS13265 0.32 -2.0 1,542,849 - HMPREF1058_RS13265 0.32 -0.4 1,543,089 - HMPREF1058_RS13265 0.50 +2.7 1,543,121 - HMPREF1058_RS13265 0.52 +0.4 1,543,158 - HMPREF1058_RS13265 0.55 +1.3 1,543,158 - HMPREF1058_RS13265 0.55 -3.0 1,543,161 + HMPREF1058_RS13265 0.55 -0.4 1,543,263 - HMPREF1058_RS13265 0.63 -0.6
Or see this region's nucleotide sequence