Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; day3
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 HMPREF1078_RS16390 and HMPREF1078_RS16395 are separated by 86 nucleotides HMPREF1078_RS16395 and HMPREF1078_RS16400 overlap by 4 nucleotides HMPREF1078_RS16400 and HMPREF1078_RS16405 are separated by 37 nucleotides
HMPREF1078_RS16390: HMPREF1078_RS16390 - TM2 domain-containing protein, at 417,559 to 417,897
_RS16390
HMPREF1078_RS16395: HMPREF1078_RS16395 - riboflavin synthase, at 417,984 to 418,586
_RS16395
HMPREF1078_RS16400: HMPREF1078_RS16400 - nitroreductase family protein, at 418,583 to 419,128
_RS16400
HMPREF1078_RS16405: HMPREF1078_RS16405 - MATE family efflux transporter, at 419,166 to 420,521
_RS16405
Position (kb) 418
419
420 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3 at 417.583 kb on + strand at 417.641 kb on + strand, within HMPREF1078_RS16390 at 417.641 kb on + strand, within HMPREF1078_RS16390 at 417.642 kb on - strand, within HMPREF1078_RS16390 at 417.642 kb on - strand, within HMPREF1078_RS16390 at 417.642 kb on - strand, within HMPREF1078_RS16390 at 417.653 kb on - strand, within HMPREF1078_RS16390 at 417.653 kb on - strand, within HMPREF1078_RS16390 at 417.675 kb on + strand, within HMPREF1078_RS16390 at 417.675 kb on + strand, within HMPREF1078_RS16390 at 417.675 kb on + strand, within HMPREF1078_RS16390 at 417.726 kb on - strand, within HMPREF1078_RS16390 at 417.730 kb on + strand, within HMPREF1078_RS16390 at 417.731 kb on - strand, within HMPREF1078_RS16390 at 417.753 kb on + strand, within HMPREF1078_RS16390 at 417.754 kb on - strand, within HMPREF1078_RS16390 at 417.880 kb on + strand at 417.886 kb on - strand at 417.903 kb on - strand at 417.906 kb on - strand at 417.909 kb on + strand at 417.918 kb on + strand at 417.920 kb on + strand at 417.920 kb on + strand at 417.920 kb on + strand at 417.921 kb on - strand at 417.921 kb on - strand at 417.931 kb on + strand at 417.933 kb on + strand at 417.934 kb on - strand at 417.946 kb on + strand at 418.673 kb on - strand, within HMPREF1078_RS16400 at 418.729 kb on + strand, within HMPREF1078_RS16400 at 418.824 kb on + strand, within HMPREF1078_RS16400 at 418.824 kb on + strand, within HMPREF1078_RS16400 at 418.824 kb on + strand, within HMPREF1078_RS16400 at 418.824 kb on + strand, within HMPREF1078_RS16400 at 418.825 kb on - strand, within HMPREF1078_RS16400 at 418.825 kb on - strand, within HMPREF1078_RS16400 at 418.828 kb on + strand, within HMPREF1078_RS16400 at 418.829 kb on - strand, within HMPREF1078_RS16400 at 418.829 kb on - strand, within HMPREF1078_RS16400 at 418.829 kb on - strand, within HMPREF1078_RS16400 at 418.970 kb on - strand, within HMPREF1078_RS16400 at 418.970 kb on - strand, within HMPREF1078_RS16400 at 418.970 kb on - strand, within HMPREF1078_RS16400 at 419.080 kb on + strand at 419.080 kb on + strand at 419.080 kb on + strand at 419.080 kb on + strand at 419.111 kb on - strand at 419.115 kb on - strand at 419.115 kb on - strand at 419.123 kb on + strand at 419.147 kb on + strand at 419.148 kb on - strand at 419.176 kb on + strand at 419.177 kb on - strand at 419.177 kb on - strand at 419.205 kb on + strand at 419.210 kb on + strand at 419.210 kb on + strand at 419.210 kb on + strand at 419.211 kb on - strand at 419.211 kb on - strand at 419.211 kb on - strand at 419.213 kb on - strand at 419.299 kb on + strand at 419.300 kb on - strand at 419.302 kb on + strand, within HMPREF1078_RS16405 at 419.316 kb on - strand, within HMPREF1078_RS16405 at 419.393 kb on - strand, within HMPREF1078_RS16405 at 419.412 kb on + strand, within HMPREF1078_RS16405 at 419.413 kb on - strand, within HMPREF1078_RS16405 at 419.413 kb on - strand, within HMPREF1078_RS16405 at 419.413 kb on - strand, within HMPREF1078_RS16405 at 419.437 kb on - strand, within HMPREF1078_RS16405 at 419.444 kb on - strand, within HMPREF1078_RS16405 at 419.444 kb on - strand, within HMPREF1078_RS16405 at 419.469 kb on + strand, within HMPREF1078_RS16405 at 419.469 kb on + strand, within HMPREF1078_RS16405 at 419.469 kb on + strand, within HMPREF1078_RS16405 at 419.469 kb on + strand, within HMPREF1078_RS16405 at 419.470 kb on - strand, within HMPREF1078_RS16405 at 419.470 kb on - strand, within HMPREF1078_RS16405 at 419.508 kb on + strand, within HMPREF1078_RS16405 at 419.532 kb on + strand, within HMPREF1078_RS16405 at 419.544 kb on + strand, within HMPREF1078_RS16405 at 419.545 kb on - strand, within HMPREF1078_RS16405 at 419.545 kb on - strand, within HMPREF1078_RS16405 at 419.546 kb on + strand, within HMPREF1078_RS16405 at 419.555 kb on - strand, within HMPREF1078_RS16405 at 419.561 kb on + strand, within HMPREF1078_RS16405 at 419.568 kb on + strand, within HMPREF1078_RS16405 at 419.568 kb on + strand, within HMPREF1078_RS16405 at 419.832 kb on - strand, within HMPREF1078_RS16405 at 419.865 kb on - strand, within HMPREF1078_RS16405 at 419.871 kb on + strand, within HMPREF1078_RS16405 at 419.872 kb on - strand, within HMPREF1078_RS16405 at 419.875 kb on + strand, within HMPREF1078_RS16405 at 419.875 kb on + strand, within HMPREF1078_RS16405 at 419.875 kb on + strand, within HMPREF1078_RS16405 at 419.888 kb on + strand, within HMPREF1078_RS16405 at 419.888 kb on + strand, within HMPREF1078_RS16405 at 419.888 kb on + strand, within HMPREF1078_RS16405 at 419.889 kb on - strand, within HMPREF1078_RS16405 at 419.889 kb on - strand, within HMPREF1078_RS16405 at 419.937 kb on + strand, within HMPREF1078_RS16405 at 419.952 kb on + strand, within HMPREF1078_RS16405 at 419.959 kb on - strand, within HMPREF1078_RS16405 at 419.959 kb on - strand, within HMPREF1078_RS16405 at 420.069 kb on + strand, within HMPREF1078_RS16405 at 420.090 kb on + strand, within HMPREF1078_RS16405 at 420.091 kb on - strand, within HMPREF1078_RS16405 at 420.100 kb on + strand, within HMPREF1078_RS16405 at 420.126 kb on - strand, within HMPREF1078_RS16405
Per-strain Table
Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; day3 remove 417,583 + -1.4 417,641 + HMPREF1078_RS16390 0.24 -0.6 417,641 + HMPREF1078_RS16390 0.24 -1.0 417,642 - HMPREF1078_RS16390 0.24 -2.7 417,642 - HMPREF1078_RS16390 0.24 -2.4 417,642 - HMPREF1078_RS16390 0.24 -1.4 417,653 - HMPREF1078_RS16390 0.28 -2.2 417,653 - HMPREF1078_RS16390 0.28 -0.0 417,675 + HMPREF1078_RS16390 0.34 +1.4 417,675 + HMPREF1078_RS16390 0.34 +1.0 417,675 + HMPREF1078_RS16390 0.34 -0.0 417,726 - HMPREF1078_RS16390 0.49 -0.3 417,730 + HMPREF1078_RS16390 0.50 +0.5 417,731 - HMPREF1078_RS16390 0.51 -1.3 417,753 + HMPREF1078_RS16390 0.57 -0.8 417,754 - HMPREF1078_RS16390 0.58 -0.3 417,880 + -1.4 417,886 - +0.3 417,903 - -0.5 417,906 - +1.4 417,909 + -1.0 417,918 + -1.6 417,920 + +0.7 417,920 + -0.6 417,920 + -1.8 417,921 - -0.0 417,921 - +1.0 417,931 + -0.5 417,933 + -1.6 417,934 - -3.6 417,946 + -0.9 418,673 - HMPREF1078_RS16400 0.16 -0.1 418,729 + HMPREF1078_RS16400 0.27 -4.4 418,824 + HMPREF1078_RS16400 0.44 -1.0 418,824 + HMPREF1078_RS16400 0.44 -1.4 418,824 + HMPREF1078_RS16400 0.44 -3.7 418,824 + HMPREF1078_RS16400 0.44 -2.2 418,825 - HMPREF1078_RS16400 0.44 -0.6 418,825 - HMPREF1078_RS16400 0.44 -2.6 418,828 + HMPREF1078_RS16400 0.45 -2.9 418,829 - HMPREF1078_RS16400 0.45 +0.4 418,829 - HMPREF1078_RS16400 0.45 +1.0 418,829 - HMPREF1078_RS16400 0.45 -0.6 418,970 - HMPREF1078_RS16400 0.71 -2.7 418,970 - HMPREF1078_RS16400 0.71 -1.0 418,970 - HMPREF1078_RS16400 0.71 -1.6 419,080 + -2.7 419,080 + -1.9 419,080 + -0.9 419,080 + -1.6 419,111 - -3.2 419,115 - -3.0 419,115 - -2.9 419,123 + -1.6 419,147 + +0.2 419,148 - -0.3 419,176 + -0.3 419,177 - +1.3 419,177 - +0.7 419,205 + -0.5 419,210 + -0.2 419,210 + +0.2 419,210 + -1.4 419,211 - -1.2 419,211 - -1.0 419,211 - -0.3 419,213 - -0.0 419,299 + -1.5 419,300 - -1.4 419,302 + HMPREF1078_RS16405 0.10 +1.1 419,316 - HMPREF1078_RS16405 0.11 -2.2 419,393 - HMPREF1078_RS16405 0.17 -3.3 419,412 + HMPREF1078_RS16405 0.18 +1.0 419,413 - HMPREF1078_RS16405 0.18 -0.6 419,413 - HMPREF1078_RS16405 0.18 -2.6 419,413 - HMPREF1078_RS16405 0.18 -0.2 419,437 - HMPREF1078_RS16405 0.20 -0.5 419,444 - HMPREF1078_RS16405 0.21 -2.6 419,444 - HMPREF1078_RS16405 0.21 -0.4 419,469 + HMPREF1078_RS16405 0.22 -0.6 419,469 + HMPREF1078_RS16405 0.22 -2.5 419,469 + HMPREF1078_RS16405 0.22 +0.6 419,469 + HMPREF1078_RS16405 0.22 -2.7 419,470 - HMPREF1078_RS16405 0.22 +0.1 419,470 - HMPREF1078_RS16405 0.22 +1.0 419,508 + HMPREF1078_RS16405 0.25 -1.0 419,532 + HMPREF1078_RS16405 0.27 +3.3 419,544 + HMPREF1078_RS16405 0.28 -2.2 419,545 - HMPREF1078_RS16405 0.28 +0.4 419,545 - HMPREF1078_RS16405 0.28 -1.1 419,546 + HMPREF1078_RS16405 0.28 -0.4 419,555 - HMPREF1078_RS16405 0.29 -0.5 419,561 + HMPREF1078_RS16405 0.29 +0.2 419,568 + HMPREF1078_RS16405 0.30 -1.4 419,568 + HMPREF1078_RS16405 0.30 -3.2 419,832 - HMPREF1078_RS16405 0.49 +1.8 419,865 - HMPREF1078_RS16405 0.52 -1.2 419,871 + HMPREF1078_RS16405 0.52 +1.0 419,872 - HMPREF1078_RS16405 0.52 -1.4 419,875 + HMPREF1078_RS16405 0.52 -1.6 419,875 + HMPREF1078_RS16405 0.52 +0.4 419,875 + HMPREF1078_RS16405 0.52 -0.2 419,888 + HMPREF1078_RS16405 0.53 -0.0 419,888 + HMPREF1078_RS16405 0.53 -1.4 419,888 + HMPREF1078_RS16405 0.53 -0.9 419,889 - HMPREF1078_RS16405 0.53 -2.6 419,889 - HMPREF1078_RS16405 0.53 -2.4 419,937 + HMPREF1078_RS16405 0.57 +0.4 419,952 + HMPREF1078_RS16405 0.58 -1.6 419,959 - HMPREF1078_RS16405 0.58 +1.0 419,959 - HMPREF1078_RS16405 0.58 -2.6 420,069 + HMPREF1078_RS16405 0.67 -1.3 420,090 + HMPREF1078_RS16405 0.68 -0.5 420,091 - HMPREF1078_RS16405 0.68 +1.0 420,100 + HMPREF1078_RS16405 0.69 -1.9 420,126 - HMPREF1078_RS16405 0.71 -0.6
Or see this region's nucleotide sequence