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_RS13285 and HMPREF1058_RS13280 are separated by 1 nucleotides HMPREF1058_RS13280 and HMPREF1058_RS21600 overlap by 18 nucleotides HMPREF1058_RS21600 and HMPREF1058_RS13275 are separated by 290 nucleotides HMPREF1058_RS13275 and HMPREF1058_RS13270 are separated by 63 nucleotides
HMPREF1058_RS13285: HMPREF1058_RS13285 - glycoside hydrolase family 88 protein, at 1,537,656 to 1,538,882
_RS13285
HMPREF1058_RS13280: HMPREF1058_RS13280 - ATP-binding protein, at 1,538,884 to 1,539,126
_RS13280
HMPREF1058_RS21600: HMPREF1058_RS21600 - histidine kinase, at 1,539,109 to 1,539,270
_RS21600
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
Position (kb) 1539
1540
1541 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3
4 at 1538.621 kb on + strand, within HMPREF1058_RS13285 at 1538.623 kb on + strand, within HMPREF1058_RS13285 at 1538.685 kb on + strand, within HMPREF1058_RS13285 at 1538.699 kb on + strand, within HMPREF1058_RS13285 at 1538.700 kb on - strand, within HMPREF1058_RS13285 at 1538.711 kb on - strand, within HMPREF1058_RS13285 at 1538.800 kb on + strand at 1538.801 kb on - strand at 1538.801 kb on - strand at 1538.827 kb on - strand at 1538.880 kb on + strand at 1538.880 kb on + strand at 1538.881 kb on - strand at 1538.887 kb on + strand at 1538.887 kb on + strand at 1538.968 kb on - strand, within HMPREF1058_RS13280 at 1538.968 kb on - strand, within HMPREF1058_RS13280 at 1539.001 kb on + strand, within HMPREF1058_RS13280 at 1539.001 kb on + strand, within HMPREF1058_RS13280 at 1539.049 kb on + strand, within HMPREF1058_RS13280 at 1539.122 kb on - strand at 1539.126 kb on + strand at 1539.159 kb on + strand, within HMPREF1058_RS21600 at 1539.203 kb on + strand, within HMPREF1058_RS21600 at 1539.215 kb on - strand, within HMPREF1058_RS21600 at 1539.215 kb on - strand, within HMPREF1058_RS21600 at 1539.223 kb on - strand, within HMPREF1058_RS21600 at 1539.268 kb on + strand at 1539.269 kb on - strand at 1539.275 kb on + strand at 1539.276 kb on - strand at 1539.276 kb on - strand at 1539.276 kb on - strand at 1539.277 kb on + strand at 1539.278 kb on - strand at 1539.278 kb on - strand at 1539.293 kb on - strand at 1539.304 kb on + strand at 1539.310 kb on + strand at 1539.352 kb on + strand at 1539.353 kb on - strand at 1539.356 kb on + strand at 1539.356 kb on + strand at 1539.357 kb on - strand at 1539.367 kb on + strand at 1539.367 kb on + strand at 1539.367 kb on + strand at 1539.378 kb on - strand at 1539.412 kb on + strand at 1539.438 kb on + strand at 1539.489 kb on + strand at 1539.490 kb on - strand at 1539.490 kb on - strand at 1539.491 kb on + strand at 1539.492 kb on - strand at 1539.574 kb on + strand at 1539.578 kb on + strand at 1539.591 kb on - strand at 1539.592 kb on + strand at 1539.601 kb on - strand at 1539.625 kb on + strand at 1539.746 kb on - strand, within HMPREF1058_RS13275 at 1539.746 kb on - strand, within HMPREF1058_RS13275 at 1539.770 kb on - strand, within HMPREF1058_RS13275 at 1539.913 kb on - strand, within HMPREF1058_RS13275 at 1539.917 kb on - strand, within HMPREF1058_RS13275 at 1539.920 kb on + strand, within HMPREF1058_RS13275 at 1539.921 kb on - strand, within HMPREF1058_RS13275 at 1539.953 kb on - strand, within HMPREF1058_RS13275 at 1539.982 kb on - strand, within HMPREF1058_RS13275 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
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; day4 remove 1,538,621 + HMPREF1058_RS13285 0.79 -0.2 1,538,623 + HMPREF1058_RS13285 0.79 -1.5 1,538,685 + HMPREF1058_RS13285 0.84 +0.2 1,538,699 + HMPREF1058_RS13285 0.85 +0.7 1,538,700 - HMPREF1058_RS13285 0.85 +0.5 1,538,711 - HMPREF1058_RS13285 0.86 +2.2 1,538,800 + +0.2 1,538,801 - -0.6 1,538,801 - -1.3 1,538,827 - -0.1 1,538,880 + -1.3 1,538,880 + +1.3 1,538,881 - +3.4 1,538,887 + -0.3 1,538,887 + -1.2 1,538,968 - HMPREF1058_RS13280 0.35 -2.6 1,538,968 - HMPREF1058_RS13280 0.35 +0.0 1,539,001 + HMPREF1058_RS13280 0.48 -1.3 1,539,001 + HMPREF1058_RS13280 0.48 -2.0 1,539,049 + HMPREF1058_RS13280 0.68 -1.3 1,539,122 - +0.2 1,539,126 + +1.0 1,539,159 + HMPREF1058_RS21600 0.31 +0.5 1,539,203 + HMPREF1058_RS21600 0.58 -4.3 1,539,215 - HMPREF1058_RS21600 0.65 -1.9 1,539,215 - HMPREF1058_RS21600 0.65 -1.3 1,539,223 - HMPREF1058_RS21600 0.70 +1.1 1,539,268 + +1.8 1,539,269 - +0.3 1,539,275 + +1.1 1,539,276 - -1.3 1,539,276 - -0.2 1,539,276 - +1.3 1,539,277 + +0.8 1,539,278 - +1.0 1,539,278 - -0.1 1,539,293 - -0.3 1,539,304 + +1.1 1,539,310 + -2.6 1,539,352 + -2.2 1,539,353 - +2.1 1,539,356 + -2.1 1,539,356 + +1.3 1,539,357 - -0.3 1,539,367 + -0.4 1,539,367 + -2.3 1,539,367 + +0.8 1,539,378 - +1.0 1,539,412 + +0.1 1,539,438 + +0.6 1,539,489 + -1.0 1,539,490 - -0.6 1,539,490 - -0.6 1,539,491 + -0.2 1,539,492 - +0.2 1,539,574 + -2.7 1,539,578 + +0.4 1,539,591 - +0.8 1,539,592 + +0.4 1,539,601 - +1.0 1,539,625 + +1.0 1,539,746 - HMPREF1058_RS13275 0.13 +1.1 1,539,746 - HMPREF1058_RS13275 0.13 -1.0 1,539,770 - HMPREF1058_RS13275 0.15 +1.8 1,539,913 - HMPREF1058_RS13275 0.25 -0.5 1,539,917 - HMPREF1058_RS13275 0.25 +0.8 1,539,920 + HMPREF1058_RS13275 0.26 +0.0 1,539,921 - HMPREF1058_RS13275 0.26 +0.3 1,539,953 - HMPREF1058_RS13275 0.28 +1.5 1,539,982 - HMPREF1058_RS13275 0.30 -2.9 1,540,043 + HMPREF1058_RS13275 0.34 -1.4 1,540,050 - HMPREF1058_RS13275 0.35 -0.2 1,540,061 + HMPREF1058_RS13275 0.36 -1.9 1,540,062 - HMPREF1058_RS13275 0.36 +0.8 1,540,098 - HMPREF1058_RS13275 0.38 -0.3 1,540,098 - HMPREF1058_RS13275 0.38 +0.0 1,540,132 + HMPREF1058_RS13275 0.41 -0.7 1,540,166 + HMPREF1058_RS13275 0.43 +0.5 1,540,208 + HMPREF1058_RS13275 0.46 +2.2 1,540,216 + HMPREF1058_RS13275 0.47 +0.9 1,540,217 - HMPREF1058_RS13275 0.47 -0.5 1,540,217 - HMPREF1058_RS13275 0.47 -0.8 1,540,217 - HMPREF1058_RS13275 0.47 -0.6 1,540,249 + HMPREF1058_RS13275 0.49 -0.7 1,540,288 + HMPREF1058_RS13275 0.52 -2.3 1,540,371 - HMPREF1058_RS13275 0.58 +0.9 1,540,371 - HMPREF1058_RS13275 0.58 +0.4 1,540,381 + HMPREF1058_RS13275 0.58 -0.4 1,540,382 - HMPREF1058_RS13275 0.58 +1.9 1,540,395 - HMPREF1058_RS13275 0.59 -0.2 1,540,427 + HMPREF1058_RS13275 0.62 -0.3 1,540,465 + HMPREF1058_RS13275 0.64 -1.3 1,540,466 - HMPREF1058_RS13275 0.64 -0.9 1,540,486 + HMPREF1058_RS13275 0.66 +0.5 1,540,553 + HMPREF1058_RS13275 0.71 -1.1 1,540,553 + HMPREF1058_RS13275 0.71 -0.9 1,540,664 + HMPREF1058_RS13275 0.78 -0.8 1,540,676 - HMPREF1058_RS13275 0.79 -2.6 1,540,768 + HMPREF1058_RS13275 0.86 +1.3 1,540,768 + HMPREF1058_RS13275 0.86 -0.7 1,540,769 - HMPREF1058_RS13275 0.86 +0.6 1,540,769 - HMPREF1058_RS13275 0.86 +1.2 1,540,858 + -0.3 1,540,883 - +0.5 1,540,921 + -3.4 1,540,939 - -2.5 1,540,940 + -1.0 1,540,941 - -2.6 1,541,015 - +1.0 1,541,032 + -2.3 1,541,033 - +0.9 1,541,108 + +0.7 1,541,120 - -0.8 1,541,123 + +0.7 1,541,123 + -0.7 1,541,169 + HMPREF1058_RS13270 0.11 +2.8 1,541,258 + HMPREF1058_RS13270 0.18 -2.3 1,541,304 - HMPREF1058_RS13270 0.22 -1.3 1,541,306 + HMPREF1058_RS13270 0.22 -1.9 1,541,307 - HMPREF1058_RS13270 0.22 +0.1 1,541,372 - HMPREF1058_RS13270 0.27 +0.2 1,541,382 - HMPREF1058_RS13270 0.28 -0.2 1,541,393 - HMPREF1058_RS13270 0.29 +0.7 1,541,409 - HMPREF1058_RS13270 0.30 -0.3 1,541,409 - HMPREF1058_RS13270 0.30 -0.0 1,541,563 + HMPREF1058_RS13270 0.43 +4.1 1,541,568 + HMPREF1058_RS13270 0.43 -1.3 1,541,569 - -2.3 1,541,569 - HMPREF1058_RS13270 0.43 +0.1 1,541,604 + HMPREF1058_RS13270 0.46 -0.0 1,541,694 + HMPREF1058_RS13270 0.53 -1.4 1,541,694 + HMPREF1058_RS13270 0.53 +0.6 1,541,879 + HMPREF1058_RS13270 0.68 +0.5 1,541,879 + HMPREF1058_RS13270 0.68 +0.7 1,541,933 - HMPREF1058_RS13270 0.72 -0.3 1,541,955 - HMPREF1058_RS13270 0.74 +0.3 1,541,957 + HMPREF1058_RS13270 0.74 +0.7 1,541,958 - HMPREF1058_RS13270 0.74 -0.2
Or see this region's nucleotide sequence