Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; 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_RS02160 and HMPREF1058_RS02155 are separated by 27 nucleotides HMPREF1058_RS02155 and HMPREF1058_RS02150 overlap by 4 nucleotides HMPREF1058_RS02150 and HMPREF1058_RS02145 overlap by 8 nucleotides HMPREF1058_RS02145 and HMPREF1058_RS02140 are separated by 161 nucleotides
HMPREF1058_RS02160: HMPREF1058_RS02160 - hypothetical protein, at 268,188 to 269,972
_RS02160
HMPREF1058_RS02155: HMPREF1058_RS02155 - ParB-like nuclease domain-containing protein, at 270,000 to 270,512
_RS02155
HMPREF1058_RS02150: HMPREF1058_RS02150 - DUF3440 domain-containing protein, at 270,509 to 271,810
_RS02150
HMPREF1058_RS02145: HMPREF1058_RS02145 - hypothetical protein, at 271,803 to 272,195
_RS02145
HMPREF1058_RS02140: HMPREF1058_RS02140 - NADP-specific glutamate dehydrogenase, at 272,357 to 273,694
_RS02140
Position (kb) 270
271
272 Strain fitness (log2 ratio) -6
-5
-4
-3
-2
-1
0
1
2
3 at 269.607 kb on + strand, within HMPREF1058_RS02160 at 269.607 kb on + strand, within HMPREF1058_RS02160 at 269.607 kb on + strand, within HMPREF1058_RS02160 at 269.607 kb on + strand, within HMPREF1058_RS02160 at 269.608 kb on - strand, within HMPREF1058_RS02160 at 269.608 kb on - strand, within HMPREF1058_RS02160 at 269.630 kb on + strand, within HMPREF1058_RS02160 at 269.650 kb on + strand, within HMPREF1058_RS02160 at 269.676 kb on + strand, within HMPREF1058_RS02160 at 269.750 kb on + strand, within HMPREF1058_RS02160 at 269.751 kb on - strand, within HMPREF1058_RS02160 at 269.752 kb on + strand, within HMPREF1058_RS02160 at 269.753 kb on - strand, within HMPREF1058_RS02160 at 269.753 kb on - strand, within HMPREF1058_RS02160 at 269.861 kb on - strand at 269.861 kb on - strand at 269.865 kb on - strand at 269.865 kb on - strand at 269.865 kb on - strand at 269.901 kb on - strand at 269.950 kb on - strand at 269.950 kb on - strand at 269.953 kb on - strand at 269.956 kb on - strand at 269.966 kb on - strand at 269.984 kb on - strand at 269.984 kb on - strand at 270.070 kb on - strand, within HMPREF1058_RS02155 at 270.095 kb on + strand, within HMPREF1058_RS02155 at 270.153 kb on + strand, within HMPREF1058_RS02155 at 270.153 kb on + strand, within HMPREF1058_RS02155 at 270.253 kb on - strand, within HMPREF1058_RS02155 at 270.328 kb on + strand, within HMPREF1058_RS02155 at 270.328 kb on + strand, within HMPREF1058_RS02155 at 270.328 kb on + strand, within HMPREF1058_RS02155 at 270.329 kb on - strand, within HMPREF1058_RS02155 at 270.330 kb on + strand, within HMPREF1058_RS02155 at 270.330 kb on + strand, within HMPREF1058_RS02155 at 270.331 kb on - strand, within HMPREF1058_RS02155 at 270.347 kb on + strand, within HMPREF1058_RS02155 at 270.352 kb on + strand, within HMPREF1058_RS02155 at 270.357 kb on + strand, within HMPREF1058_RS02155 at 270.369 kb on - strand, within HMPREF1058_RS02155 at 270.371 kb on + strand, within HMPREF1058_RS02155 at 270.372 kb on - strand, within HMPREF1058_RS02155 at 270.372 kb on - strand, within HMPREF1058_RS02155 at 270.437 kb on + strand, within HMPREF1058_RS02155 at 270.438 kb on - strand, within HMPREF1058_RS02155 at 270.484 kb on + strand at 270.485 kb on - strand at 270.529 kb on - strand at 270.593 kb on - strand at 270.596 kb on + strand at 270.597 kb on - strand at 270.597 kb on - strand at 270.628 kb on + strand at 270.628 kb on + strand at 270.634 kb on + strand at 270.636 kb on + strand at 270.668 kb on + strand, within HMPREF1058_RS02150 at 270.668 kb on + strand, within HMPREF1058_RS02150 at 270.677 kb on + strand, within HMPREF1058_RS02150 at 270.731 kb on + strand, within HMPREF1058_RS02150 at 270.767 kb on + strand, within HMPREF1058_RS02150 at 270.767 kb on + strand, within HMPREF1058_RS02150 at 270.869 kb on + strand, within HMPREF1058_RS02150 at 270.880 kb on - strand, within HMPREF1058_RS02150 at 270.883 kb on + strand, within HMPREF1058_RS02150 at 270.883 kb on + strand, within HMPREF1058_RS02150 at 270.883 kb on + strand, within HMPREF1058_RS02150 at 270.884 kb on - strand, within HMPREF1058_RS02150 at 270.885 kb on + strand, within HMPREF1058_RS02150 at 270.900 kb on + strand, within HMPREF1058_RS02150 at 270.901 kb on - strand, within HMPREF1058_RS02150 at 270.986 kb on + strand, within HMPREF1058_RS02150 at 271.006 kb on + strand, within HMPREF1058_RS02150 at 271.023 kb on + strand, within HMPREF1058_RS02150 at 271.025 kb on + strand, within HMPREF1058_RS02150 at 271.104 kb on + strand, within HMPREF1058_RS02150 at 271.146 kb on + strand, within HMPREF1058_RS02150 at 271.147 kb on - strand, within HMPREF1058_RS02150 at 271.157 kb on + strand, within HMPREF1058_RS02150 at 271.158 kb on - strand, within HMPREF1058_RS02150 at 271.159 kb on + strand, within HMPREF1058_RS02150 at 271.159 kb on + strand, within HMPREF1058_RS02150 at 271.180 kb on - strand, within HMPREF1058_RS02150 at 271.184 kb on - strand, within HMPREF1058_RS02150 at 271.268 kb on - strand, within HMPREF1058_RS02150 at 271.268 kb on - strand, within HMPREF1058_RS02150 at 271.399 kb on - strand, within HMPREF1058_RS02150 at 271.463 kb on - strand, within HMPREF1058_RS02150 at 271.486 kb on - strand, within HMPREF1058_RS02150 at 271.498 kb on + strand, within HMPREF1058_RS02150 at 271.551 kb on - strand, within HMPREF1058_RS02150 at 271.551 kb on - strand, within HMPREF1058_RS02150 at 271.585 kb on - strand, within HMPREF1058_RS02150 at 271.614 kb on + strand, within HMPREF1058_RS02150 at 271.626 kb on + strand, within HMPREF1058_RS02150 at 271.627 kb on - strand, within HMPREF1058_RS02150 at 271.629 kb on - strand, within HMPREF1058_RS02150 at 271.629 kb on - strand, within HMPREF1058_RS02150 at 271.666 kb on - strand, within HMPREF1058_RS02150 at 271.672 kb on + strand, within HMPREF1058_RS02150 at 271.677 kb on - strand, within HMPREF1058_RS02150 at 271.723 kb on - strand at 271.726 kb on + strand at 271.793 kb on - strand at 271.886 kb on + strand, within HMPREF1058_RS02145 at 271.916 kb on - strand, within HMPREF1058_RS02145 at 271.917 kb on + strand, within HMPREF1058_RS02145 at 271.984 kb on + strand, within HMPREF1058_RS02145 at 271.985 kb on - strand, within HMPREF1058_RS02145 at 271.985 kb on - strand, within HMPREF1058_RS02145 at 271.988 kb on - strand, within HMPREF1058_RS02145 at 271.988 kb on - strand, within HMPREF1058_RS02145 at 272.065 kb on + strand, within HMPREF1058_RS02145 at 272.157 kb on + strand at 272.179 kb on - strand at 272.200 kb on + strand at 272.237 kb on + strand at 272.253 kb on + strand at 272.306 kb on - strand at 272.306 kb on - strand at 272.319 kb on - strand at 272.347 kb on + strand at 272.347 kb on + strand at 272.390 kb on + strand at 272.428 kb on - strand at 272.435 kb on - strand at 272.435 kb on - strand at 272.457 kb on + strand at 272.489 kb on - strand at 272.489 kb on - strand at 272.498 kb on + strand, within HMPREF1058_RS02140 at 272.503 kb on + strand, within HMPREF1058_RS02140 at 272.510 kb on + strand, within HMPREF1058_RS02140 at 272.569 kb on + strand, within HMPREF1058_RS02140 at 272.570 kb on - strand, within HMPREF1058_RS02140 at 272.573 kb on + strand, within HMPREF1058_RS02140 at 272.607 kb on + strand, within HMPREF1058_RS02140 at 272.608 kb on - strand, within HMPREF1058_RS02140 at 272.608 kb on - strand, within HMPREF1058_RS02140 at 272.660 kb on - strand, within HMPREF1058_RS02140 at 272.704 kb on + strand, within HMPREF1058_RS02140 at 272.724 kb on - strand, within HMPREF1058_RS02140 at 272.756 kb on - strand, within HMPREF1058_RS02140 at 272.756 kb on - strand, within HMPREF1058_RS02140 at 272.760 kb on - strand, within HMPREF1058_RS02140 at 272.760 kb on - strand, within HMPREF1058_RS02140 at 272.765 kb on - strand, within HMPREF1058_RS02140 at 272.803 kb on + strand, within HMPREF1058_RS02140
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4 remove 269,607 + HMPREF1058_RS02160 0.79 +0.0 269,607 + HMPREF1058_RS02160 0.79 +2.6 269,607 + HMPREF1058_RS02160 0.79 +0.3 269,607 + HMPREF1058_RS02160 0.79 +1.4 269,608 - HMPREF1058_RS02160 0.80 +1.5 269,608 - HMPREF1058_RS02160 0.80 +1.8 269,630 + HMPREF1058_RS02160 0.81 -1.7 269,650 + HMPREF1058_RS02160 0.82 +0.9 269,676 + HMPREF1058_RS02160 0.83 +0.3 269,750 + HMPREF1058_RS02160 0.88 +0.6 269,751 - HMPREF1058_RS02160 0.88 +0.9 269,752 + HMPREF1058_RS02160 0.88 -1.4 269,753 - HMPREF1058_RS02160 0.88 -1.1 269,753 - HMPREF1058_RS02160 0.88 +0.9 269,861 - +1.0 269,861 - +1.4 269,865 - +2.6 269,865 - +2.1 269,865 - +2.3 269,901 - -3.0 269,950 - -0.3 269,950 - -1.7 269,953 - -1.6 269,956 - -0.2 269,966 - +0.5 269,984 - +0.9 269,984 - +0.2 270,070 - HMPREF1058_RS02155 0.14 -1.7 270,095 + HMPREF1058_RS02155 0.19 -1.7 270,153 + HMPREF1058_RS02155 0.30 -2.9 270,153 + HMPREF1058_RS02155 0.30 -5.7 270,253 - HMPREF1058_RS02155 0.49 -2.7 270,328 + HMPREF1058_RS02155 0.64 -4.4 270,328 + HMPREF1058_RS02155 0.64 -4.1 270,328 + HMPREF1058_RS02155 0.64 -3.7 270,329 - HMPREF1058_RS02155 0.64 -4.4 270,330 + HMPREF1058_RS02155 0.64 -3.8 270,330 + HMPREF1058_RS02155 0.64 -0.1 270,331 - HMPREF1058_RS02155 0.65 -0.1 270,347 + HMPREF1058_RS02155 0.68 -3.9 270,352 + HMPREF1058_RS02155 0.69 -3.6 270,357 + HMPREF1058_RS02155 0.70 -2.4 270,369 - HMPREF1058_RS02155 0.72 -2.1 270,371 + HMPREF1058_RS02155 0.72 -2.4 270,372 - HMPREF1058_RS02155 0.73 -3.3 270,372 - HMPREF1058_RS02155 0.73 -2.4 270,437 + HMPREF1058_RS02155 0.85 -2.7 270,438 - HMPREF1058_RS02155 0.85 -2.4 270,484 + -1.1 270,485 - -4.1 270,529 - -3.0 270,593 - -3.4 270,596 + -3.4 270,597 - -2.4 270,597 - -4.9 270,628 + -5.4 270,628 + -2.4 270,634 + -1.1 270,636 + -2.7 270,668 + HMPREF1058_RS02150 0.12 -3.8 270,668 + HMPREF1058_RS02150 0.12 -2.4 270,677 + HMPREF1058_RS02150 0.13 -2.4 270,731 + HMPREF1058_RS02150 0.17 -2.9 270,767 + HMPREF1058_RS02150 0.20 -1.1 270,767 + HMPREF1058_RS02150 0.20 -2.4 270,869 + HMPREF1058_RS02150 0.28 -3.3 270,880 - HMPREF1058_RS02150 0.28 -3.1 270,883 + HMPREF1058_RS02150 0.29 -3.8 270,883 + HMPREF1058_RS02150 0.29 -1.1 270,883 + HMPREF1058_RS02150 0.29 -5.3 270,884 - HMPREF1058_RS02150 0.29 -1.7 270,885 + HMPREF1058_RS02150 0.29 -2.7 270,900 + HMPREF1058_RS02150 0.30 -3.7 270,901 - HMPREF1058_RS02150 0.30 -3.1 270,986 + HMPREF1058_RS02150 0.37 -0.1 271,006 + HMPREF1058_RS02150 0.38 -5.4 271,023 + HMPREF1058_RS02150 0.39 -2.9 271,025 + HMPREF1058_RS02150 0.40 -1.1 271,104 + HMPREF1058_RS02150 0.46 -2.7 271,146 + HMPREF1058_RS02150 0.49 -2.9 271,147 - HMPREF1058_RS02150 0.49 -3.4 271,157 + HMPREF1058_RS02150 0.50 -2.7 271,158 - HMPREF1058_RS02150 0.50 -2.7 271,159 + HMPREF1058_RS02150 0.50 -4.2 271,159 + HMPREF1058_RS02150 0.50 -3.4 271,180 - HMPREF1058_RS02150 0.52 -6.2 271,184 - HMPREF1058_RS02150 0.52 -3.3 271,268 - HMPREF1058_RS02150 0.58 -3.6 271,268 - HMPREF1058_RS02150 0.58 -4.4 271,399 - HMPREF1058_RS02150 0.68 -4.6 271,463 - HMPREF1058_RS02150 0.73 -5.3 271,486 - HMPREF1058_RS02150 0.75 -1.1 271,498 + HMPREF1058_RS02150 0.76 -3.9 271,551 - HMPREF1058_RS02150 0.80 -2.7 271,551 - HMPREF1058_RS02150 0.80 -1.7 271,585 - HMPREF1058_RS02150 0.83 -3.1 271,614 + HMPREF1058_RS02150 0.85 -1.1 271,626 + HMPREF1058_RS02150 0.86 -0.1 271,627 - HMPREF1058_RS02150 0.86 -1.1 271,629 - HMPREF1058_RS02150 0.86 -3.7 271,629 - HMPREF1058_RS02150 0.86 -3.6 271,666 - HMPREF1058_RS02150 0.89 -2.4 271,672 + HMPREF1058_RS02150 0.89 -2.4 271,677 - HMPREF1058_RS02150 0.90 -1.7 271,723 - -3.3 271,726 + -2.7 271,793 - -4.6 271,886 + HMPREF1058_RS02145 0.21 -3.6 271,916 - HMPREF1058_RS02145 0.29 +0.3 271,917 + HMPREF1058_RS02145 0.29 -4.3 271,984 + HMPREF1058_RS02145 0.46 -1.1 271,985 - HMPREF1058_RS02145 0.46 +1.1 271,985 - HMPREF1058_RS02145 0.46 +3.6 271,988 - HMPREF1058_RS02145 0.47 +1.4 271,988 - HMPREF1058_RS02145 0.47 +1.0 272,065 + HMPREF1058_RS02145 0.67 -3.1 272,157 + -3.1 272,179 - +3.4 272,200 + -1.1 272,237 + -2.4 272,253 + -1.7 272,306 - -0.8 272,306 - -0.4 272,319 - +2.3 272,347 + +0.5 272,347 + -1.1 272,390 + -2.7 272,428 - -1.1 272,435 - -2.8 272,435 - -0.1 272,457 + -3.4 272,489 - -4.0 272,489 - -3.4 272,498 + HMPREF1058_RS02140 0.11 -2.4 272,503 + HMPREF1058_RS02140 0.11 -1.1 272,510 + HMPREF1058_RS02140 0.11 -3.6 272,569 + HMPREF1058_RS02140 0.16 -4.2 272,570 - HMPREF1058_RS02140 0.16 -2.9 272,573 + HMPREF1058_RS02140 0.16 -1.1 272,607 + HMPREF1058_RS02140 0.19 -2.4 272,608 - HMPREF1058_RS02140 0.19 -4.0 272,608 - HMPREF1058_RS02140 0.19 -3.4 272,660 - HMPREF1058_RS02140 0.23 -2.7 272,704 + HMPREF1058_RS02140 0.26 -3.4 272,724 - HMPREF1058_RS02140 0.27 -2.3 272,756 - HMPREF1058_RS02140 0.30 -2.1 272,756 - HMPREF1058_RS02140 0.30 -1.1 272,760 - HMPREF1058_RS02140 0.30 -1.1 272,760 - HMPREF1058_RS02140 0.30 -2.8 272,765 - HMPREF1058_RS02140 0.30 -0.1 272,803 + HMPREF1058_RS02140 0.33 -4.4
Or see this region's nucleotide sequence