Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; 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 HMPREF1078_RS07215 and HMPREF1078_RS07220 are separated by 3 nucleotides HMPREF1078_RS07220 and HMPREF1078_RS07225 are separated by 111 nucleotides HMPREF1078_RS07225 and HMPREF1078_RS19825 are separated by 46 nucleotides HMPREF1078_RS19825 and HMPREF1078_RS19830 are separated by 15 nucleotides
HMPREF1078_RS07215: HMPREF1078_RS07215 - 2-oxoacid:acceptor oxidoreductase subunit alpha, at 865,393 to 867,249
_RS07215
HMPREF1078_RS07220: HMPREF1078_RS07220 - 2-oxoacid:ferredoxin oxidoreductase subunit beta, at 867,253 to 868,269
_RS07220
HMPREF1078_RS07225: HMPREF1078_RS07225 - nucleotidyltransferase family protein, at 868,381 to 868,674
_RS07225
HMPREF1078_RS19825: HMPREF1078_RS19825 - hypothetical protein, at 868,721 to 868,897
_RS19825
HMPREF1078_RS19830: HMPREF1078_RS19830 - DUF86 domain-containing protein, at 868,913 to 869,062
_RS19830
Position (kb) 867
868
869 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3 at 866.286 kb on + strand, within HMPREF1078_RS07215 at 866.439 kb on + strand, within HMPREF1078_RS07215 at 866.583 kb on + strand, within HMPREF1078_RS07215 at 866.583 kb on + strand, within HMPREF1078_RS07215 at 866.583 kb on + strand, within HMPREF1078_RS07215 at 866.584 kb on - strand, within HMPREF1078_RS07215 at 866.584 kb on - strand, within HMPREF1078_RS07215 at 866.584 kb on - strand, within HMPREF1078_RS07215 at 866.584 kb on - strand, within HMPREF1078_RS07215 at 866.684 kb on - strand, within HMPREF1078_RS07215 at 866.684 kb on - strand, within HMPREF1078_RS07215 at 866.684 kb on - strand, within HMPREF1078_RS07215 at 866.695 kb on + strand, within HMPREF1078_RS07215 at 866.764 kb on - strand, within HMPREF1078_RS07215 at 866.829 kb on + strand, within HMPREF1078_RS07215 at 866.971 kb on + strand, within HMPREF1078_RS07215 at 866.971 kb on + strand, within HMPREF1078_RS07215 at 866.971 kb on + strand, within HMPREF1078_RS07215 at 866.972 kb on - strand, within HMPREF1078_RS07215 at 867.088 kb on + strand at 867.136 kb on + strand at 867.304 kb on + strand at 867.304 kb on + strand at 867.304 kb on + strand at 867.304 kb on + strand at 867.305 kb on - strand at 867.308 kb on + strand at 867.308 kb on + strand at 867.309 kb on - strand at 867.309 kb on - strand at 867.375 kb on - strand, within HMPREF1078_RS07220 at 867.390 kb on + strand, within HMPREF1078_RS07220 at 867.390 kb on + strand, within HMPREF1078_RS07220 at 867.394 kb on - strand, within HMPREF1078_RS07220 at 867.394 kb on - strand, within HMPREF1078_RS07220 at 867.394 kb on - strand, within HMPREF1078_RS07220 at 867.402 kb on + strand, within HMPREF1078_RS07220 at 867.403 kb on - strand, within HMPREF1078_RS07220 at 867.436 kb on + strand, within HMPREF1078_RS07220 at 867.437 kb on - strand, within HMPREF1078_RS07220 at 867.437 kb on - strand, within HMPREF1078_RS07220 at 867.439 kb on + strand, within HMPREF1078_RS07220 at 867.439 kb on + strand, within HMPREF1078_RS07220 at 867.440 kb on - strand, within HMPREF1078_RS07220 at 867.451 kb on + strand, within HMPREF1078_RS07220 at 867.452 kb on - strand, within HMPREF1078_RS07220 at 867.452 kb on - strand, within HMPREF1078_RS07220 at 867.452 kb on - strand, within HMPREF1078_RS07220 at 867.463 kb on - strand, within HMPREF1078_RS07220 at 867.635 kb on + strand, within HMPREF1078_RS07220 at 867.635 kb on + strand, within HMPREF1078_RS07220 at 867.636 kb on - strand, within HMPREF1078_RS07220 at 867.636 kb on - strand, within HMPREF1078_RS07220 at 867.636 kb on - strand, within HMPREF1078_RS07220 at 867.636 kb on - strand, within HMPREF1078_RS07220 at 867.636 kb on - strand, within HMPREF1078_RS07220 at 867.637 kb on + strand, within HMPREF1078_RS07220 at 867.637 kb on + strand, within HMPREF1078_RS07220 at 867.638 kb on - strand, within HMPREF1078_RS07220 at 867.638 kb on - strand, within HMPREF1078_RS07220 at 867.638 kb on - strand, within HMPREF1078_RS07220 at 867.658 kb on + strand, within HMPREF1078_RS07220 at 867.832 kb on - strand, within HMPREF1078_RS07220 at 867.886 kb on - strand, within HMPREF1078_RS07220 at 868.037 kb on + strand, within HMPREF1078_RS07220 at 868.038 kb on + strand, within HMPREF1078_RS07220 at 868.059 kb on - strand, within HMPREF1078_RS07220 at 868.120 kb on - strand, within HMPREF1078_RS07220 at 868.165 kb on + strand, within HMPREF1078_RS07220 at 868.165 kb on + strand, within HMPREF1078_RS07220 at 868.165 kb on + strand, within HMPREF1078_RS07220 at 868.166 kb on - strand, within HMPREF1078_RS07220 at 868.263 kb on - strand at 868.330 kb on - strand at 868.345 kb on + strand at 868.346 kb on - strand at 868.376 kb on + strand at 868.376 kb on + strand at 868.403 kb on + strand at 868.420 kb on + strand, within HMPREF1078_RS07225 at 868.420 kb on + strand, within HMPREF1078_RS07225 at 868.421 kb on - strand, within HMPREF1078_RS07225 at 868.524 kb on + strand, within HMPREF1078_RS07225 at 868.543 kb on + strand, within HMPREF1078_RS07225 at 868.547 kb on - strand, within HMPREF1078_RS07225 at 868.547 kb on - strand, within HMPREF1078_RS07225 at 868.574 kb on + strand, within HMPREF1078_RS07225 at 868.575 kb on - strand, within HMPREF1078_RS07225 at 868.672 kb on + strand at 868.684 kb on - strand at 868.690 kb on + strand at 868.691 kb on - strand at 868.705 kb on + strand at 868.707 kb on + strand at 868.707 kb on + strand at 868.707 kb on + strand at 868.708 kb on - strand at 868.771 kb on + strand, within HMPREF1078_RS19825 at 868.816 kb on - strand, within HMPREF1078_RS19825 at 868.872 kb on + strand, within HMPREF1078_RS19825 at 868.873 kb on - strand, within HMPREF1078_RS19825 at 868.961 kb on - strand, within HMPREF1078_RS19830 at 868.976 kb on - strand, within HMPREF1078_RS19830 at 868.981 kb on + strand, within HMPREF1078_RS19830 at 868.981 kb on + strand, within HMPREF1078_RS19830 at 868.982 kb on - strand, within HMPREF1078_RS19830 at 868.986 kb on + strand, within HMPREF1078_RS19830 at 868.987 kb on - strand, within HMPREF1078_RS19830 at 868.987 kb on - strand, within HMPREF1078_RS19830 at 868.987 kb on - strand, within HMPREF1078_RS19830 at 869.028 kb on + strand, within HMPREF1078_RS19830 at 869.028 kb on + strand, within HMPREF1078_RS19830 at 869.029 kb on - strand, within HMPREF1078_RS19830 at 869.050 kb on + strand at 869.050 kb on + strand at 869.051 kb on - strand at 869.051 kb on - strand at 869.051 kb on - strand at 869.051 kb on - strand at 869.084 kb on + strand at 869.085 kb on - strand at 869.100 kb on - strand at 869.165 kb on + strand at 869.165 kb on + strand at 869.165 kb on + strand at 869.165 kb on + strand at 869.252 kb on + strand at 869.252 kb on + strand
Per-strain Table
Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse17; day4 remove 866,286 + HMPREF1078_RS07215 0.48 +0.0 866,439 + HMPREF1078_RS07215 0.56 -3.6 866,583 + HMPREF1078_RS07215 0.64 -3.7 866,583 + HMPREF1078_RS07215 0.64 -3.2 866,583 + HMPREF1078_RS07215 0.64 -1.8 866,584 - HMPREF1078_RS07215 0.64 -1.1 866,584 - HMPREF1078_RS07215 0.64 -2.4 866,584 - HMPREF1078_RS07215 0.64 -0.5 866,584 - HMPREF1078_RS07215 0.64 -3.5 866,684 - HMPREF1078_RS07215 0.70 -1.3 866,684 - HMPREF1078_RS07215 0.70 -3.7 866,684 - HMPREF1078_RS07215 0.70 -1.8 866,695 + HMPREF1078_RS07215 0.70 -1.5 866,764 - HMPREF1078_RS07215 0.74 -2.2 866,829 + HMPREF1078_RS07215 0.77 +1.0 866,971 + HMPREF1078_RS07215 0.85 -2.1 866,971 + HMPREF1078_RS07215 0.85 -2.1 866,971 + HMPREF1078_RS07215 0.85 -1.0 866,972 - HMPREF1078_RS07215 0.85 -1.8 867,088 + -0.8 867,136 + -2.0 867,304 + -4.0 867,304 + +3.0 867,304 + -2.7 867,304 + -0.8 867,305 - -2.6 867,308 + -2.5 867,308 + -1.0 867,309 - -1.5 867,309 - +0.3 867,375 - HMPREF1078_RS07220 0.12 -1.2 867,390 + HMPREF1078_RS07220 0.13 -4.1 867,390 + HMPREF1078_RS07220 0.13 -1.8 867,394 - HMPREF1078_RS07220 0.14 -0.5 867,394 - HMPREF1078_RS07220 0.14 -2.1 867,394 - HMPREF1078_RS07220 0.14 -0.5 867,402 + HMPREF1078_RS07220 0.15 -0.5 867,403 - HMPREF1078_RS07220 0.15 -3.3 867,436 + HMPREF1078_RS07220 0.18 -1.5 867,437 - HMPREF1078_RS07220 0.18 +1.0 867,437 - HMPREF1078_RS07220 0.18 -3.4 867,439 + HMPREF1078_RS07220 0.18 +0.0 867,439 + HMPREF1078_RS07220 0.18 -1.0 867,440 - HMPREF1078_RS07220 0.18 -1.3 867,451 + HMPREF1078_RS07220 0.19 +0.5 867,452 - HMPREF1078_RS07220 0.20 -2.8 867,452 - HMPREF1078_RS07220 0.20 -1.0 867,452 - HMPREF1078_RS07220 0.20 -1.5 867,463 - HMPREF1078_RS07220 0.21 -2.0 867,635 + HMPREF1078_RS07220 0.38 -2.8 867,635 + HMPREF1078_RS07220 0.38 -0.5 867,636 - HMPREF1078_RS07220 0.38 -4.1 867,636 - HMPREF1078_RS07220 0.38 -2.4 867,636 - HMPREF1078_RS07220 0.38 +0.0 867,636 - HMPREF1078_RS07220 0.38 +1.0 867,636 - HMPREF1078_RS07220 0.38 -1.8 867,637 + HMPREF1078_RS07220 0.38 -1.4 867,637 + HMPREF1078_RS07220 0.38 -1.1 867,638 - HMPREF1078_RS07220 0.38 -0.5 867,638 - HMPREF1078_RS07220 0.38 -2.4 867,638 - HMPREF1078_RS07220 0.38 +1.0 867,658 + HMPREF1078_RS07220 0.40 -2.4 867,832 - HMPREF1078_RS07220 0.57 -2.7 867,886 - HMPREF1078_RS07220 0.62 -3.4 868,037 + HMPREF1078_RS07220 0.77 -1.8 868,038 + HMPREF1078_RS07220 0.77 -2.4 868,059 - HMPREF1078_RS07220 0.79 -2.7 868,120 - HMPREF1078_RS07220 0.85 +0.0 868,165 + HMPREF1078_RS07220 0.90 -1.5 868,165 + HMPREF1078_RS07220 0.90 -1.8 868,165 + HMPREF1078_RS07220 0.90 +0.3 868,166 - HMPREF1078_RS07220 0.90 -0.7 868,263 - -0.2 868,330 - -1.6 868,345 + -1.0 868,346 - -0.5 868,376 + -1.3 868,376 + -3.3 868,403 + +0.8 868,420 + HMPREF1078_RS07225 0.13 +0.1 868,420 + HMPREF1078_RS07225 0.13 -0.8 868,421 - HMPREF1078_RS07225 0.14 -0.3 868,524 + HMPREF1078_RS07225 0.49 +1.8 868,543 + HMPREF1078_RS07225 0.55 +1.2 868,547 - HMPREF1078_RS07225 0.56 +1.3 868,547 - HMPREF1078_RS07225 0.56 +0.0 868,574 + HMPREF1078_RS07225 0.66 -2.0 868,575 - HMPREF1078_RS07225 0.66 +1.1 868,672 + -0.3 868,684 - -0.8 868,690 + -1.4 868,691 - -0.1 868,705 + -0.8 868,707 + +0.8 868,707 + +0.2 868,707 + +1.3 868,708 - -0.3 868,771 + HMPREF1078_RS19825 0.28 -1.9 868,816 - HMPREF1078_RS19825 0.54 +0.0 868,872 + HMPREF1078_RS19825 0.85 -0.5 868,873 - HMPREF1078_RS19825 0.86 +1.0 868,961 - HMPREF1078_RS19830 0.32 +0.5 868,976 - HMPREF1078_RS19830 0.42 +2.0 868,981 + HMPREF1078_RS19830 0.45 +0.2 868,981 + HMPREF1078_RS19830 0.45 +3.4 868,982 - HMPREF1078_RS19830 0.46 +1.1 868,986 + HMPREF1078_RS19830 0.49 -0.6 868,987 - HMPREF1078_RS19830 0.49 -1.8 868,987 - HMPREF1078_RS19830 0.49 -2.1 868,987 - HMPREF1078_RS19830 0.49 -0.2 869,028 + HMPREF1078_RS19830 0.77 -0.2 869,028 + HMPREF1078_RS19830 0.77 +0.7 869,029 - HMPREF1078_RS19830 0.77 -2.2 869,050 + +0.7 869,050 + -1.3 869,051 - -1.3 869,051 - +0.3 869,051 - +0.7 869,051 - -0.5 869,084 + -0.2 869,085 - -1.0 869,100 - +1.6 869,165 + +0.0 869,165 + +0.8 869,165 + -1.8 869,165 + -0.9 869,252 + -0.7 869,252 + +0.5
Or see this region's nucleotide sequence