Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse3; day1
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_RS05625 and HMPREF1058_RS05620 overlap by 8 nucleotides HMPREF1058_RS05620 and HMPREF1058_RS05615 overlap by 4 nucleotides HMPREF1058_RS05615 and HMPREF1058_RS05610 are separated by 405 nucleotides
HMPREF1058_RS05625: HMPREF1058_RS05625 - HipA domain-containing protein, at 117,559 to 118,500
_RS05625
HMPREF1058_RS05620: HMPREF1058_RS05620 - HipA N-terminal domain-containing protein, at 118,493 to 118,831
_RS05620
HMPREF1058_RS05615: HMPREF1058_RS05615 - helix-turn-helix transcriptional regulator, at 118,828 to 119,034
_RS05615
HMPREF1058_RS05610: HMPREF1058_RS05610 - DUF2971 domain-containing protein, at 119,440 to 120,447
_RS05610
Position (kb) 118
119 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3
4 at 117.529 kb on - strand at 117.532 kb on + strand at 117.532 kb on + strand at 117.532 kb on + strand at 117.533 kb on - strand at 117.536 kb on + strand at 117.536 kb on + strand at 117.537 kb on - strand at 117.552 kb on + strand at 117.560 kb on + strand at 117.681 kb on - strand, within HMPREF1058_RS05625 at 117.684 kb on + strand, within HMPREF1058_RS05625 at 117.685 kb on - strand, within HMPREF1058_RS05625 at 117.700 kb on + strand, within HMPREF1058_RS05625 at 117.706 kb on + strand, within HMPREF1058_RS05625 at 117.716 kb on - strand, within HMPREF1058_RS05625 at 117.829 kb on + strand, within HMPREF1058_RS05625 at 117.829 kb on + strand, within HMPREF1058_RS05625 at 117.830 kb on - strand, within HMPREF1058_RS05625 at 117.856 kb on + strand, within HMPREF1058_RS05625 at 118.007 kb on + strand, within HMPREF1058_RS05625 at 118.007 kb on + strand, within HMPREF1058_RS05625 at 118.118 kb on - strand, within HMPREF1058_RS05625 at 118.122 kb on + strand, within HMPREF1058_RS05625 at 118.122 kb on + strand, within HMPREF1058_RS05625 at 118.156 kb on + strand, within HMPREF1058_RS05625 at 118.156 kb on + strand, within HMPREF1058_RS05625 at 118.157 kb on - strand, within HMPREF1058_RS05625 at 118.245 kb on + strand, within HMPREF1058_RS05625 at 118.246 kb on - strand, within HMPREF1058_RS05625 at 118.246 kb on - strand, within HMPREF1058_RS05625 at 118.269 kb on + strand, within HMPREF1058_RS05625 at 118.390 kb on - strand, within HMPREF1058_RS05625 at 118.390 kb on - strand, within HMPREF1058_RS05625 at 118.405 kb on + strand, within HMPREF1058_RS05625 at 118.409 kb on - strand at 118.450 kb on - strand at 118.485 kb on - strand at 118.486 kb on + strand at 118.487 kb on - strand at 118.623 kb on - strand, within HMPREF1058_RS05620 at 118.678 kb on + strand, within HMPREF1058_RS05620 at 118.678 kb on + strand, within HMPREF1058_RS05620 at 118.678 kb on + strand, within HMPREF1058_RS05620 at 118.817 kb on - strand at 118.992 kb on - strand, within HMPREF1058_RS05615 at 119.019 kb on + strand at 119.029 kb on - strand at 119.079 kb on + strand at 119.150 kb on - strand at 119.150 kb on - strand at 119.150 kb on - strand at 119.164 kb on - strand at 119.166 kb on - strand at 119.204 kb on + strand at 119.205 kb on - strand at 119.205 kb on - strand at 119.207 kb on - strand at 119.213 kb on + strand at 119.244 kb on + strand at 119.244 kb on + strand at 119.245 kb on - strand at 119.246 kb on + strand at 119.256 kb on - strand at 119.265 kb on + strand at 119.385 kb on - strand at 119.390 kb on + strand at 119.401 kb on - strand at 119.401 kb on - strand at 119.435 kb on + strand at 119.451 kb on + strand at 119.452 kb on - strand at 119.527 kb on + strand at 119.636 kb on + strand, within HMPREF1058_RS05610 at 119.641 kb on + strand, within HMPREF1058_RS05610 at 119.667 kb on + strand, within HMPREF1058_RS05610 at 119.694 kb on - strand, within HMPREF1058_RS05610 at 119.707 kb on + strand, within HMPREF1058_RS05610 at 119.714 kb on + strand, within HMPREF1058_RS05610 at 119.765 kb on + strand, within HMPREF1058_RS05610
Per-strain Table
Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse3; day1 remove 117,529 - -0.4 117,532 + -2.4 117,532 + +1.3 117,532 + +1.8 117,533 - +2.6 117,536 + -1.7 117,536 + -1.7 117,537 - -1.7 117,552 + -0.4 117,560 + -1.1 117,681 - HMPREF1058_RS05625 0.13 -0.4 117,684 + HMPREF1058_RS05625 0.13 -3.8 117,685 - HMPREF1058_RS05625 0.13 -1.4 117,700 + HMPREF1058_RS05625 0.15 -0.4 117,706 + HMPREF1058_RS05625 0.16 +3.9 117,716 - HMPREF1058_RS05625 0.17 -0.3 117,829 + HMPREF1058_RS05625 0.29 +1.8 117,829 + HMPREF1058_RS05625 0.29 -2.2 117,830 - HMPREF1058_RS05625 0.29 -0.4 117,856 + HMPREF1058_RS05625 0.32 +0.8 118,007 + HMPREF1058_RS05625 0.48 -1.0 118,007 + HMPREF1058_RS05625 0.48 -1.4 118,118 - HMPREF1058_RS05625 0.59 -1.0 118,122 + HMPREF1058_RS05625 0.60 -2.2 118,122 + HMPREF1058_RS05625 0.60 +0.9 118,156 + HMPREF1058_RS05625 0.63 +0.6 118,156 + HMPREF1058_RS05625 0.63 -0.4 118,157 - HMPREF1058_RS05625 0.63 -1.0 118,245 + HMPREF1058_RS05625 0.73 +2.1 118,246 - HMPREF1058_RS05625 0.73 +1.0 118,246 - HMPREF1058_RS05625 0.73 -2.4 118,269 + HMPREF1058_RS05625 0.75 +1.1 118,390 - HMPREF1058_RS05625 0.88 +0.9 118,390 - HMPREF1058_RS05625 0.88 +0.3 118,405 + HMPREF1058_RS05625 0.90 +2.1 118,409 - -2.0 118,450 - +0.6 118,485 - -0.4 118,486 + -0.4 118,487 - +0.9 118,623 - HMPREF1058_RS05620 0.38 +1.6 118,678 + HMPREF1058_RS05620 0.55 -1.4 118,678 + HMPREF1058_RS05620 0.55 -3.2 118,678 + HMPREF1058_RS05620 0.55 +0.2 118,817 - +0.6 118,992 - HMPREF1058_RS05615 0.79 -3.3 119,019 + +1.0 119,029 - -3.0 119,079 + -2.2 119,150 - -1.7 119,150 - -1.0 119,150 - +1.4 119,164 - -3.0 119,166 - +1.1 119,204 + +2.9 119,205 - +0.6 119,205 - -0.4 119,207 - -2.4 119,213 + +1.6 119,244 + -1.7 119,244 + -0.5 119,245 - +0.9 119,246 + +0.7 119,256 - +1.1 119,265 + -2.2 119,385 - +2.0 119,390 + -1.0 119,401 - -1.0 119,401 - -1.7 119,435 + -2.2 119,451 + +4.3 119,452 - +1.5 119,527 + -3.1 119,636 + HMPREF1058_RS05610 0.19 +2.2 119,641 + HMPREF1058_RS05610 0.20 +1.1 119,667 + HMPREF1058_RS05610 0.23 +0.0 119,694 - HMPREF1058_RS05610 0.25 +0.6 119,707 + HMPREF1058_RS05610 0.26 +2.3 119,714 + HMPREF1058_RS05610 0.27 +1.7 119,765 + HMPREF1058_RS05610 0.32 -1.0
Or see this region's nucleotide sequence