Experiment: Plant=switchgrass; PlantTreatment=high_phosphate; Sample=rhizosphere; GrowthSubstrate=Agar_0.5%; Collection=LB_with_kan50; Time=3weeks; NumberPlantsPooled=10
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 BPHYT_RS18980 and BPHYT_RS18985 overlap by 4 nucleotides BPHYT_RS18985 and BPHYT_RS18990 are separated by 16 nucleotides BPHYT_RS18990 and BPHYT_RS18995 are separated by 43 nucleotides BPHYT_RS18995 and BPHYT_RS19000 are separated by 69 nucleotides
BPHYT_RS18980: BPHYT_RS18980 - chemotaxis protein CheR, at 4,262,268 to 4,263,224
_RS18980
BPHYT_RS18985: BPHYT_RS18985 - hypothetical protein, at 4,263,221 to 4,263,412
_RS18985
BPHYT_RS18990: BPHYT_RS18990 - chemotaxis protein, at 4,263,429 to 4,265,282
_RS18990
BPHYT_RS18995: BPHYT_RS18995 - purine-binding chemotaxis protein, at 4,265,326 to 4,265,862
_RS18995
BPHYT_RS19000: BPHYT_RS19000 - chemotaxis protein CheA, at 4,265,932 to 4,268,232
_RS19000
Position (kb) 4263
4264
4265
4266 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3
4 at 4262.504 kb on - strand, within BPHYT_RS18980 at 4262.704 kb on + strand, within BPHYT_RS18980 at 4262.705 kb on - strand, within BPHYT_RS18980 at 4262.705 kb on - strand, within BPHYT_RS18980 at 4263.058 kb on + strand, within BPHYT_RS18980 at 4263.059 kb on - strand, within BPHYT_RS18980 at 4263.243 kb on + strand, within BPHYT_RS18985 at 4263.243 kb on + strand, within BPHYT_RS18985 at 4263.283 kb on + strand, within BPHYT_RS18985 at 4263.284 kb on - strand, within BPHYT_RS18985 at 4263.430 kb on + strand at 4263.431 kb on - strand at 4263.590 kb on + strand at 4263.717 kb on - strand, within BPHYT_RS18990 at 4264.157 kb on + strand, within BPHYT_RS18990 at 4264.157 kb on + strand, within BPHYT_RS18990 at 4264.922 kb on + strand, within BPHYT_RS18990 at 4264.923 kb on - strand, within BPHYT_RS18990 at 4265.202 kb on + strand at 4265.244 kb on + strand at 4265.604 kb on + strand, within BPHYT_RS18995 at 4265.604 kb on + strand, within BPHYT_RS18995 at 4265.604 kb on + strand, within BPHYT_RS18995 at 4265.605 kb on - strand, within BPHYT_RS18995 at 4265.605 kb on - strand, within BPHYT_RS18995 at 4265.697 kb on - strand, within BPHYT_RS18995 at 4265.754 kb on + strand, within BPHYT_RS18995 at 4265.755 kb on - strand, within BPHYT_RS18995 at 4265.755 kb on - strand, within BPHYT_RS18995 at 4265.808 kb on + strand, within BPHYT_RS18995 at 4265.899 kb on + strand at 4265.899 kb on + strand at 4265.899 kb on + strand at 4265.899 kb on + strand at 4265.900 kb on - strand at 4265.900 kb on - strand at 4265.900 kb on - strand at 4265.906 kb on + strand at 4266.224 kb on + strand, within BPHYT_RS19000 at 4266.269 kb on + strand, within BPHYT_RS19000 at 4266.269 kb on + strand, within BPHYT_RS19000 at 4266.269 kb on + strand at 4266.269 kb on + strand, within BPHYT_RS19000 at 4266.269 kb on + strand, within BPHYT_RS19000 at 4266.269 kb on + strand, within BPHYT_RS19000 at 4266.270 kb on - strand, within BPHYT_RS19000
Per-strain Table
Position Strand Gene LocusTag Fraction Plant=switchgrass; PlantTreatment=high_phosphate; Sample=rhizosphere; GrowthSubstrate=Agar_0.5%; Collection=LB_with_kan50; Time=3weeks; NumberPlantsPooled=10 remove 4,262,504 - BPHYT_RS18980 0.25 -0.8 4,262,704 + BPHYT_RS18980 0.46 -0.0 4,262,705 - BPHYT_RS18980 0.46 +0.7 4,262,705 - BPHYT_RS18980 0.46 +0.1 4,263,058 + BPHYT_RS18980 0.83 -0.2 4,263,059 - BPHYT_RS18980 0.83 +0.6 4,263,243 + BPHYT_RS18985 0.11 -1.1 4,263,243 + BPHYT_RS18985 0.11 -1.0 4,263,283 + BPHYT_RS18985 0.32 +1.1 4,263,284 - BPHYT_RS18985 0.33 +0.7 4,263,430 + -0.1 4,263,431 - -1.8 4,263,590 + -2.4 4,263,717 - BPHYT_RS18990 0.16 -0.7 4,264,157 + BPHYT_RS18990 0.39 -1.0 4,264,157 + BPHYT_RS18990 0.39 +0.1 4,264,922 + BPHYT_RS18990 0.81 -2.7 4,264,923 - BPHYT_RS18990 0.81 +0.3 4,265,202 + +0.7 4,265,244 + -1.8 4,265,604 + BPHYT_RS18995 0.52 +0.6 4,265,604 + BPHYT_RS18995 0.52 -0.5 4,265,604 + BPHYT_RS18995 0.52 -1.3 4,265,605 - BPHYT_RS18995 0.52 -0.5 4,265,605 - BPHYT_RS18995 0.52 +3.6 4,265,697 - BPHYT_RS18995 0.69 +1.6 4,265,754 + BPHYT_RS18995 0.80 +2.4 4,265,755 - BPHYT_RS18995 0.80 +0.5 4,265,755 - BPHYT_RS18995 0.80 -1.7 4,265,808 + BPHYT_RS18995 0.90 +0.1 4,265,899 + +0.7 4,265,899 + +0.7 4,265,899 + +0.9 4,265,899 + +0.1 4,265,900 - -1.5 4,265,900 - -4.2 4,265,900 - -0.5 4,265,906 + -1.3 4,266,224 + BPHYT_RS19000 0.13 -0.9 4,266,269 + BPHYT_RS19000 0.15 -1.2 4,266,269 + BPHYT_RS19000 0.15 -0.7 4,266,269 + +4.5 4,266,269 + BPHYT_RS19000 0.15 -0.9 4,266,269 + BPHYT_RS19000 0.15 -1.0 4,266,269 + BPHYT_RS19000 0.15 +0.1 4,266,270 - BPHYT_RS19000 0.15 +0.4
Or see this region's nucleotide sequence