Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day6
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_RS05320 and HMPREF1058_RS05315 are separated by 242 nucleotides HMPREF1058_RS05315 and HMPREF1058_RS21350 are separated by 111 nucleotides HMPREF1058_RS21350 and HMPREF1058_RS21355 overlap by 28 nucleotides HMPREF1058_RS21355 and HMPREF1058_RS05300 are separated by 207 nucleotides HMPREF1058_RS05300 and HMPREF1058_RS05295 are separated by 15 nucleotides
HMPREF1058_RS05320: HMPREF1058_RS05320 - restriction endonuclease, at 190,790 to 191,644
_RS05320
HMPREF1058_RS05315: HMPREF1058_RS05315 - helix-turn-helix transcriptional regulator, at 191,887 to 192,063
_RS05315
HMPREF1058_RS21350: HMPREF1058_RS21350 - type I restriction-modification system subunit M N-terminal domain-containing protein, at 192,175 to 192,675
_RS21350
HMPREF1058_RS21355: HMPREF1058_RS21355 - mobilization protein, at 192,648 to 193,073
_RS21355
HMPREF1058_RS05300: HMPREF1058_RS05300 - helix-turn-helix transcriptional regulator, at 193,281 to 193,511
_RS05300
HMPREF1058_RS05295: HMPREF1058_RS05295 - RNA-directed DNA polymerase, at 193,527 to 195,143
_RS05295
Position (kb) 192
193 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3 at 191.320 kb on - strand, within HMPREF1058_RS05320 at 191.379 kb on - strand, within HMPREF1058_RS05320 at 191.428 kb on + strand, within HMPREF1058_RS05320 at 191.444 kb on - strand, within HMPREF1058_RS05320 at 191.453 kb on - strand, within HMPREF1058_RS05320 at 191.510 kb on + strand, within HMPREF1058_RS05320 at 191.511 kb on - strand, within HMPREF1058_RS05320 at 191.511 kb on - strand, within HMPREF1058_RS05320 at 191.602 kb on - strand at 191.602 kb on - strand at 191.712 kb on + strand at 191.731 kb on + strand at 191.731 kb on + strand at 191.783 kb on - strand at 191.824 kb on - strand at 191.824 kb on - strand at 191.856 kb on - strand at 191.856 kb on - strand at 191.870 kb on + strand at 192.022 kb on - strand, within HMPREF1058_RS05315 at 192.075 kb on - strand at 192.075 kb on - strand at 192.075 kb on - strand at 192.075 kb on - strand at 192.078 kb on - strand at 192.078 kb on - strand at 192.082 kb on - strand at 192.157 kb on - strand at 192.262 kb on - strand, within HMPREF1058_RS21350 at 192.263 kb on + strand, within HMPREF1058_RS21350 at 192.264 kb on - strand, within HMPREF1058_RS21350 at 192.288 kb on - strand, within HMPREF1058_RS21350 at 192.357 kb on - strand, within HMPREF1058_RS21350 at 192.430 kb on + strand, within HMPREF1058_RS21350 at 192.542 kb on + strand, within HMPREF1058_RS21350 at 192.542 kb on + strand, within HMPREF1058_RS21350 at 192.543 kb on - strand, within HMPREF1058_RS21350 at 192.543 kb on - strand, within HMPREF1058_RS21350 at 192.543 kb on - strand, within HMPREF1058_RS21350 at 192.543 kb on - strand, within HMPREF1058_RS21350 at 192.543 kb on - strand, within HMPREF1058_RS21350 at 192.598 kb on - strand, within HMPREF1058_RS21350 at 192.598 kb on - strand, within HMPREF1058_RS21350 at 192.673 kb on + strand at 192.674 kb on - strand at 192.678 kb on - strand at 192.678 kb on - strand at 192.678 kb on - strand at 192.702 kb on + strand, within HMPREF1058_RS21355 at 192.734 kb on - strand, within HMPREF1058_RS21355 at 192.734 kb on - strand, within HMPREF1058_RS21355 at 192.824 kb on + strand, within HMPREF1058_RS21355 at 192.840 kb on - strand, within HMPREF1058_RS21355 at 193.035 kb on + strand at 193.036 kb on - strand at 193.036 kb on - strand at 193.058 kb on + strand at 193.089 kb on - strand at 193.089 kb on - strand at 193.094 kb on - strand at 193.147 kb on - strand at 193.151 kb on - strand at 193.273 kb on - strand at 193.275 kb on - strand at 193.295 kb on + strand at 193.315 kb on + strand, within HMPREF1058_RS05300 at 193.395 kb on - strand, within HMPREF1058_RS05300 at 193.450 kb on + strand, within HMPREF1058_RS05300 at 193.451 kb on - strand, within HMPREF1058_RS05300 at 193.469 kb on + strand, within HMPREF1058_RS05300 at 193.495 kb on + strand at 193.509 kb on + strand at 193.509 kb on + strand at 193.563 kb on - strand at 193.563 kb on - strand at 193.646 kb on - strand at 193.648 kb on + strand
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day6 remove 191,320 - HMPREF1058_RS05320 0.62 -1.7 191,379 - HMPREF1058_RS05320 0.69 +1.8 191,428 + HMPREF1058_RS05320 0.75 -0.5 191,444 - HMPREF1058_RS05320 0.76 -0.2 191,453 - HMPREF1058_RS05320 0.78 -1.7 191,510 + HMPREF1058_RS05320 0.84 -1.0 191,511 - HMPREF1058_RS05320 0.84 +1.8 191,511 - HMPREF1058_RS05320 0.84 -1.3 191,602 - -4.3 191,602 - -0.0 191,712 + +0.7 191,731 + -2.4 191,731 + -2.4 191,783 - -0.4 191,824 - -0.5 191,824 - +1.1 191,856 - -1.7 191,856 - +0.6 191,870 + -1.7 192,022 - HMPREF1058_RS05315 0.76 -0.7 192,075 - -0.4 192,075 - -1.1 192,075 - -1.1 192,075 - -1.7 192,078 - +1.9 192,078 - +1.3 192,082 - +1.1 192,157 - +0.2 192,262 - HMPREF1058_RS21350 0.17 -0.3 192,263 + HMPREF1058_RS21350 0.18 -1.7 192,264 - HMPREF1058_RS21350 0.18 +1.2 192,288 - HMPREF1058_RS21350 0.23 +3.1 192,357 - HMPREF1058_RS21350 0.36 -0.3 192,430 + HMPREF1058_RS21350 0.51 +0.5 192,542 + HMPREF1058_RS21350 0.73 -1.4 192,542 + HMPREF1058_RS21350 0.73 -2.1 192,543 - HMPREF1058_RS21350 0.73 +0.6 192,543 - HMPREF1058_RS21350 0.73 -0.1 192,543 - HMPREF1058_RS21350 0.73 -0.7 192,543 - HMPREF1058_RS21350 0.73 -0.7 192,543 - HMPREF1058_RS21350 0.73 -0.9 192,598 - HMPREF1058_RS21350 0.84 -1.7 192,598 - HMPREF1058_RS21350 0.84 +1.3 192,673 + +0.5 192,674 - +0.9 192,678 - +0.9 192,678 - +1.4 192,678 - +0.7 192,702 + HMPREF1058_RS21355 0.13 -1.1 192,734 - HMPREF1058_RS21355 0.20 -0.1 192,734 - HMPREF1058_RS21355 0.20 -0.7 192,824 + HMPREF1058_RS21355 0.41 -1.4 192,840 - HMPREF1058_RS21355 0.45 +1.4 193,035 + -1.1 193,036 - +0.9 193,036 - +0.0 193,058 + -0.9 193,089 - -0.3 193,089 - -1.1 193,094 - -2.4 193,147 - -0.8 193,151 - -1.1 193,273 - -1.1 193,275 - +0.7 193,295 + -0.4 193,315 + HMPREF1058_RS05300 0.15 -0.5 193,395 - HMPREF1058_RS05300 0.49 -2.1 193,450 + HMPREF1058_RS05300 0.73 -2.1 193,451 - HMPREF1058_RS05300 0.74 -1.3 193,469 + HMPREF1058_RS05300 0.81 -0.1 193,495 + +1.5 193,509 + -0.9 193,509 + -1.7 193,563 - +0.7 193,563 - -0.5 193,646 - +1.6 193,648 + -0.1
Or see this region's nucleotide sequence