Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse4; day2
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_RS17410 and HMPREF1058_RS17405 are separated by 49 nucleotides HMPREF1058_RS17405 and HMPREF1058_RS17400 are separated by 8 nucleotides HMPREF1058_RS17400 and HMPREF1058_RS17395 are separated by 108 nucleotides HMPREF1058_RS17395 and HMPREF1058_RS21415 overlap by 4 nucleotides HMPREF1058_RS21415 and HMPREF1058_RS17390 are separated by 40 nucleotides
HMPREF1058_RS17410: HMPREF1058_RS17410 - undecaprenyl-phosphate glucose phosphotransferase, at 450,190 to 451,593
_RS17410
HMPREF1058_RS17405: HMPREF1058_RS17405 - polysaccharide export protein, at 451,643 to 452,434
_RS17405
HMPREF1058_RS17400: HMPREF1058_RS17400 - tyrosine-protein kinase, at 452,443 to 454,854
_RS17400
HMPREF1058_RS17395: HMPREF1058_RS17395 - N-acetylmuramoyl-L-alanine amidase, at 454,963 to 455,412
_RS17395
HMPREF1058_RS21415: HMPREF1058_RS21415 - smalltalk protein, at 455,409 to 455,510
_RS21415
HMPREF1058_RS17390: HMPREF1058_RS17390 - HU family DNA-binding protein, at 455,551 to 455,979
_RS17390
Position (kb) 452
453
454
455 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3
4
5
6 at 451.499 kb on + strand at 451.499 kb on + strand at 451.504 kb on + strand at 451.539 kb on + strand at 451.540 kb on - strand at 451.542 kb on + strand at 451.624 kb on + strand at 451.625 kb on - strand at 451.740 kb on - strand, within HMPREF1058_RS17405 at 451.772 kb on + strand, within HMPREF1058_RS17405 at 451.773 kb on - strand, within HMPREF1058_RS17405 at 451.919 kb on + strand, within HMPREF1058_RS17405 at 452.030 kb on + strand, within HMPREF1058_RS17405 at 452.058 kb on + strand, within HMPREF1058_RS17405 at 452.059 kb on - strand, within HMPREF1058_RS17405 at 452.140 kb on + strand, within HMPREF1058_RS17405 at 452.141 kb on - strand, within HMPREF1058_RS17405 at 452.178 kb on + strand, within HMPREF1058_RS17405 at 452.179 kb on - strand, within HMPREF1058_RS17405 at 452.285 kb on + strand, within HMPREF1058_RS17405 at 452.286 kb on - strand, within HMPREF1058_RS17405 at 452.286 kb on - strand, within HMPREF1058_RS17405 at 452.351 kb on - strand, within HMPREF1058_RS17405 at 452.443 kb on - strand at 452.553 kb on + strand at 452.584 kb on + strand at 452.584 kb on + strand at 452.963 kb on - strand, within HMPREF1058_RS17400 at 453.132 kb on + strand, within HMPREF1058_RS17400 at 453.133 kb on - strand, within HMPREF1058_RS17400 at 453.874 kb on - strand, within HMPREF1058_RS17400 at 453.950 kb on - strand, within HMPREF1058_RS17400 at 453.998 kb on - strand, within HMPREF1058_RS17400 at 454.000 kb on - strand, within HMPREF1058_RS17400 at 454.080 kb on - strand, within HMPREF1058_RS17400 at 454.080 kb on - strand, within HMPREF1058_RS17400 at 454.118 kb on + strand, within HMPREF1058_RS17400 at 454.118 kb on + strand, within HMPREF1058_RS17400 at 454.166 kb on + strand, within HMPREF1058_RS17400 at 454.178 kb on + strand, within HMPREF1058_RS17400 at 454.183 kb on + strand, within HMPREF1058_RS17400 at 454.183 kb on + strand, within HMPREF1058_RS17400 at 454.183 kb on + strand at 454.184 kb on - strand, within HMPREF1058_RS17400 at 454.184 kb on - strand, within HMPREF1058_RS17400 at 454.186 kb on - strand, within HMPREF1058_RS17400 at 454.186 kb on - strand, within HMPREF1058_RS17400 at 454.470 kb on + strand, within HMPREF1058_RS17400 at 454.471 kb on - strand, within HMPREF1058_RS17400 at 454.550 kb on - strand, within HMPREF1058_RS17400 at 454.551 kb on + strand, within HMPREF1058_RS17400 at 454.627 kb on + strand at 454.627 kb on + strand at 454.627 kb on + strand at 454.627 kb on + strand at 454.628 kb on - strand at 454.645 kb on + strand at 454.710 kb on - strand at 454.710 kb on - strand at 454.714 kb on - strand at 454.778 kb on - strand at 455.060 kb on - strand, within HMPREF1058_RS17395 at 455.192 kb on + strand, within HMPREF1058_RS17395 at 455.217 kb on + strand, within HMPREF1058_RS17395 at 455.501 kb on + strand at 455.553 kb on - strand at 455.687 kb on + strand, within HMPREF1058_RS17390 at 455.687 kb on + strand, within HMPREF1058_RS17390 at 455.688 kb on - strand, within HMPREF1058_RS17390 at 455.688 kb on - strand, within HMPREF1058_RS17390 at 455.688 kb on - strand, within HMPREF1058_RS17390 at 455.756 kb on - strand, within HMPREF1058_RS17390
Per-strain Table
Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse4; day2 remove 451,499 + +1.6 451,499 + +0.5 451,504 + -2.0 451,539 + +0.1 451,540 - +1.1 451,542 + -2.8 451,624 + -2.2 451,625 - +0.9 451,740 - HMPREF1058_RS17405 0.12 -2.4 451,772 + HMPREF1058_RS17405 0.16 +6.0 451,773 - HMPREF1058_RS17405 0.16 +0.4 451,919 + HMPREF1058_RS17405 0.35 +0.9 452,030 + HMPREF1058_RS17405 0.49 +1.5 452,058 + HMPREF1058_RS17405 0.52 +1.2 452,059 - HMPREF1058_RS17405 0.53 +0.4 452,140 + HMPREF1058_RS17405 0.63 +2.1 452,141 - HMPREF1058_RS17405 0.63 -1.2 452,178 + HMPREF1058_RS17405 0.68 -2.6 452,179 - HMPREF1058_RS17405 0.68 +1.8 452,285 + HMPREF1058_RS17405 0.81 +0.4 452,286 - HMPREF1058_RS17405 0.81 +0.6 452,286 - HMPREF1058_RS17405 0.81 +1.4 452,351 - HMPREF1058_RS17405 0.89 -3.0 452,443 - -0.5 452,553 + -3.5 452,584 + +0.2 452,584 + +2.2 452,963 - HMPREF1058_RS17400 0.22 +1.5 453,132 + HMPREF1058_RS17400 0.29 +1.0 453,133 - HMPREF1058_RS17400 0.29 +2.3 453,874 - HMPREF1058_RS17400 0.59 -0.6 453,950 - HMPREF1058_RS17400 0.62 +1.4 453,998 - HMPREF1058_RS17400 0.64 +1.2 454,000 - HMPREF1058_RS17400 0.65 +1.8 454,080 - HMPREF1058_RS17400 0.68 -0.1 454,080 - HMPREF1058_RS17400 0.68 +0.1 454,118 + HMPREF1058_RS17400 0.69 -1.6 454,118 + HMPREF1058_RS17400 0.69 +0.4 454,166 + HMPREF1058_RS17400 0.71 -0.6 454,178 + HMPREF1058_RS17400 0.72 -0.6 454,183 + HMPREF1058_RS17400 0.72 +0.7 454,183 + HMPREF1058_RS17400 0.72 -1.3 454,183 + +1.4 454,184 - HMPREF1058_RS17400 0.72 +1.3 454,184 - HMPREF1058_RS17400 0.72 +1.8 454,186 - HMPREF1058_RS17400 0.72 +0.9 454,186 - HMPREF1058_RS17400 0.72 -0.4 454,470 + HMPREF1058_RS17400 0.84 -1.4 454,471 - HMPREF1058_RS17400 0.84 +1.0 454,550 - HMPREF1058_RS17400 0.87 +2.3 454,551 + HMPREF1058_RS17400 0.87 -3.8 454,627 + +0.2 454,627 + -0.6 454,627 + -2.0 454,627 + +1.7 454,628 - +0.6 454,645 + -0.7 454,710 - +0.4 454,710 - +0.9 454,714 - +1.1 454,778 - +1.1 455,060 - HMPREF1058_RS17395 0.22 +1.0 455,192 + HMPREF1058_RS17395 0.51 +0.9 455,217 + HMPREF1058_RS17395 0.56 -0.8 455,501 + -0.4 455,553 - -2.0 455,687 + HMPREF1058_RS17390 0.32 +0.4 455,687 + HMPREF1058_RS17390 0.32 -1.2 455,688 - HMPREF1058_RS17390 0.32 -1.2 455,688 - HMPREF1058_RS17390 0.32 -1.6 455,688 - HMPREF1058_RS17390 0.32 +0.8 455,756 - HMPREF1058_RS17390 0.48 +0.4
Or see this region's nucleotide sequence