Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day2
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_RS03305 and HMPREF1078_RS03310 overlap by 4 nucleotides HMPREF1078_RS03310 and HMPREF1078_RS03315 are separated by 12 nucleotides HMPREF1078_RS03315 and HMPREF1078_RS03320 are separated by 19 nucleotides
HMPREF1078_RS03305: HMPREF1078_RS03305 - conjugative transposon protein TraM, at 782,216 to 783,427
_RS03305
HMPREF1078_RS03310: HMPREF1078_RS03310 - hypothetical protein, at 783,424 to 783,912
_RS03310
HMPREF1078_RS03315: HMPREF1078_RS03315 - conjugative transposon protein TraK, at 783,925 to 784,521
_RS03315
HMPREF1078_RS03320: HMPREF1078_RS03320 - membrane protein, at 784,541 to 785,668
_RS03320
Position (kb) 783
784 Strain fitness (log2 ratio) -3
-2
-1
0
1
2
3
4 at 782.463 kb on + strand, within HMPREF1078_RS03305 at 782.464 kb on - strand, within HMPREF1078_RS03305 at 782.464 kb on - strand, within HMPREF1078_RS03305 at 782.581 kb on + strand, within HMPREF1078_RS03305 at 782.587 kb on - strand, within HMPREF1078_RS03305 at 782.592 kb on + strand, within HMPREF1078_RS03305 at 782.592 kb on + strand, within HMPREF1078_RS03305 at 782.592 kb on + strand, within HMPREF1078_RS03305 at 782.593 kb on - strand, within HMPREF1078_RS03305 at 782.593 kb on - strand, within HMPREF1078_RS03305 at 782.596 kb on + strand, within HMPREF1078_RS03305 at 782.597 kb on - strand, within HMPREF1078_RS03305 at 782.700 kb on - strand, within HMPREF1078_RS03305 at 782.913 kb on + strand, within HMPREF1078_RS03305 at 782.914 kb on - strand, within HMPREF1078_RS03305 at 783.025 kb on - strand, within HMPREF1078_RS03305 at 783.025 kb on - strand, within HMPREF1078_RS03305 at 783.025 kb on - strand, within HMPREF1078_RS03305 at 783.025 kb on - strand, within HMPREF1078_RS03305 at 783.035 kb on - strand, within HMPREF1078_RS03305 at 783.238 kb on - strand, within HMPREF1078_RS03305 at 783.352 kb on - strand at 783.394 kb on + strand at 783.394 kb on + strand at 783.396 kb on + strand at 783.396 kb on + strand at 783.396 kb on + strand at 783.397 kb on - strand at 783.397 kb on - strand at 783.421 kb on + strand at 783.432 kb on + strand at 783.433 kb on - strand at 783.554 kb on - strand, within HMPREF1078_RS03310 at 783.618 kb on + strand, within HMPREF1078_RS03310 at 783.709 kb on - strand, within HMPREF1078_RS03310 at 783.712 kb on + strand, within HMPREF1078_RS03310 at 783.713 kb on - strand, within HMPREF1078_RS03310 at 783.713 kb on - strand, within HMPREF1078_RS03310 at 783.713 kb on - strand, within HMPREF1078_RS03310 at 783.912 kb on + strand at 783.916 kb on - strand at 783.922 kb on - strand at 783.922 kb on - strand at 783.929 kb on + strand at 784.222 kb on - strand, within HMPREF1078_RS03315 at 784.222 kb on - strand, within HMPREF1078_RS03315 at 784.222 kb on - strand, within HMPREF1078_RS03315 at 784.223 kb on + strand, within HMPREF1078_RS03315 at 784.223 kb on + strand, within HMPREF1078_RS03315 at 784.224 kb on - strand, within HMPREF1078_RS03315 at 784.251 kb on + strand, within HMPREF1078_RS03315 at 784.252 kb on - strand, within HMPREF1078_RS03315 at 784.300 kb on + strand, within HMPREF1078_RS03315 at 784.301 kb on - strand, within HMPREF1078_RS03315 at 784.301 kb on - strand, within HMPREF1078_RS03315 at 784.378 kb on + strand, within HMPREF1078_RS03315 at 784.383 kb on - strand, within HMPREF1078_RS03315 at 784.471 kb on + strand at 784.471 kb on + strand at 784.515 kb on + strand at 784.515 kb on + strand at 784.521 kb on + strand at 784.522 kb on - strand at 784.522 kb on - strand at 784.551 kb on - strand at 784.610 kb on - strand at 784.673 kb on + strand, within HMPREF1078_RS03320 at 784.673 kb on + strand, within HMPREF1078_RS03320 at 784.674 kb on - strand, within HMPREF1078_RS03320 at 784.719 kb on - strand, within HMPREF1078_RS03320 at 784.719 kb on - strand, within HMPREF1078_RS03320 at 784.719 kb on - strand, within HMPREF1078_RS03320 at 784.725 kb on + strand, within HMPREF1078_RS03320 at 784.725 kb on + strand, within HMPREF1078_RS03320 at 784.725 kb on + strand, within HMPREF1078_RS03320 at 784.726 kb on - strand, within HMPREF1078_RS03320 at 784.742 kb on - strand, within HMPREF1078_RS03320 at 784.753 kb on - strand, within HMPREF1078_RS03320 at 784.753 kb on - strand, within HMPREF1078_RS03320 at 784.757 kb on - strand, within HMPREF1078_RS03320 at 784.836 kb on + strand, within HMPREF1078_RS03320 at 784.863 kb on + strand, within HMPREF1078_RS03320 at 784.882 kb on + strand, within HMPREF1078_RS03320 at 784.883 kb on - strand, within HMPREF1078_RS03320 at 784.884 kb on + strand, within HMPREF1078_RS03320 at 784.884 kb on + strand, within HMPREF1078_RS03320 at 784.885 kb on - strand, within HMPREF1078_RS03320 at 784.885 kb on - strand, within HMPREF1078_RS03320 at 784.887 kb on + strand, within HMPREF1078_RS03320 at 784.887 kb on + strand, within HMPREF1078_RS03320 at 784.897 kb on + strand, within HMPREF1078_RS03320 at 784.897 kb on + strand, within HMPREF1078_RS03320 at 784.897 kb on + strand, within HMPREF1078_RS03320 at 784.898 kb on - strand, within HMPREF1078_RS03320 at 784.899 kb on + strand, within HMPREF1078_RS03320 at 784.899 kb on + strand, within HMPREF1078_RS03320 at 784.899 kb on + strand, within HMPREF1078_RS03320 at 784.899 kb on + strand, within HMPREF1078_RS03320 at 784.899 kb on + strand, within HMPREF1078_RS03320
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day2 remove 782,463 + HMPREF1078_RS03305 0.20 +1.7 782,464 - HMPREF1078_RS03305 0.20 -0.1 782,464 - HMPREF1078_RS03305 0.20 -1.1 782,581 + HMPREF1078_RS03305 0.30 -1.0 782,587 - HMPREF1078_RS03305 0.31 +1.2 782,592 + HMPREF1078_RS03305 0.31 -1.1 782,592 + HMPREF1078_RS03305 0.31 -1.6 782,592 + HMPREF1078_RS03305 0.31 +0.1 782,593 - HMPREF1078_RS03305 0.31 -0.5 782,593 - HMPREF1078_RS03305 0.31 +1.1 782,596 + HMPREF1078_RS03305 0.31 -0.5 782,597 - HMPREF1078_RS03305 0.31 +1.1 782,700 - HMPREF1078_RS03305 0.40 +1.3 782,913 + HMPREF1078_RS03305 0.58 -0.8 782,914 - HMPREF1078_RS03305 0.58 -0.1 783,025 - HMPREF1078_RS03305 0.67 -1.0 783,025 - HMPREF1078_RS03305 0.67 +2.2 783,025 - HMPREF1078_RS03305 0.67 -0.9 783,025 - HMPREF1078_RS03305 0.67 -0.4 783,035 - HMPREF1078_RS03305 0.68 +1.8 783,238 - HMPREF1078_RS03305 0.84 +0.1 783,352 - -2.8 783,394 + -0.0 783,394 + +2.6 783,396 + +0.0 783,396 + +0.3 783,396 + +2.2 783,397 - +0.8 783,397 - -0.1 783,421 + -0.7 783,432 + +0.7 783,433 - -1.3 783,554 - HMPREF1078_RS03310 0.27 +1.4 783,618 + HMPREF1078_RS03310 0.40 +1.3 783,709 - HMPREF1078_RS03310 0.58 -2.5 783,712 + HMPREF1078_RS03310 0.59 -1.9 783,713 - HMPREF1078_RS03310 0.59 -0.5 783,713 - HMPREF1078_RS03310 0.59 +0.1 783,713 - HMPREF1078_RS03310 0.59 +1.2 783,912 + -0.5 783,916 - -0.8 783,922 - +0.5 783,922 - +0.5 783,929 + -1.4 784,222 - HMPREF1078_RS03315 0.50 -2.4 784,222 - HMPREF1078_RS03315 0.50 -0.8 784,222 - HMPREF1078_RS03315 0.50 +0.3 784,223 + HMPREF1078_RS03315 0.50 -1.5 784,223 + HMPREF1078_RS03315 0.50 -2.0 784,224 - HMPREF1078_RS03315 0.50 +1.7 784,251 + HMPREF1078_RS03315 0.55 +1.2 784,252 - HMPREF1078_RS03315 0.55 -1.7 784,300 + HMPREF1078_RS03315 0.63 -1.8 784,301 - HMPREF1078_RS03315 0.63 +2.8 784,301 - HMPREF1078_RS03315 0.63 -1.4 784,378 + HMPREF1078_RS03315 0.76 +0.3 784,383 - HMPREF1078_RS03315 0.77 -0.3 784,471 + +0.9 784,471 + +1.6 784,515 + +0.6 784,515 + +2.7 784,521 + +4.7 784,522 - +0.3 784,522 - -2.7 784,551 - +1.3 784,610 - -1.1 784,673 + HMPREF1078_RS03320 0.12 -1.1 784,673 + HMPREF1078_RS03320 0.12 +0.5 784,674 - HMPREF1078_RS03320 0.12 -0.7 784,719 - HMPREF1078_RS03320 0.16 -0.3 784,719 - HMPREF1078_RS03320 0.16 +0.1 784,719 - HMPREF1078_RS03320 0.16 +2.0 784,725 + HMPREF1078_RS03320 0.16 -1.5 784,725 + HMPREF1078_RS03320 0.16 -2.1 784,725 + HMPREF1078_RS03320 0.16 +1.1 784,726 - HMPREF1078_RS03320 0.16 -1.7 784,742 - HMPREF1078_RS03320 0.18 +1.5 784,753 - HMPREF1078_RS03320 0.19 +0.5 784,753 - HMPREF1078_RS03320 0.19 +0.9 784,757 - HMPREF1078_RS03320 0.19 +0.5 784,836 + HMPREF1078_RS03320 0.26 +0.1 784,863 + HMPREF1078_RS03320 0.29 +2.9 784,882 + HMPREF1078_RS03320 0.30 +0.7 784,883 - HMPREF1078_RS03320 0.30 +0.3 784,884 + HMPREF1078_RS03320 0.30 -0.1 784,884 + HMPREF1078_RS03320 0.30 -0.1 784,885 - HMPREF1078_RS03320 0.30 +1.3 784,885 - HMPREF1078_RS03320 0.30 -2.4 784,887 + HMPREF1078_RS03320 0.31 -1.1 784,887 + HMPREF1078_RS03320 0.31 -2.9 784,897 + HMPREF1078_RS03320 0.32 +0.9 784,897 + HMPREF1078_RS03320 0.32 -1.1 784,897 + HMPREF1078_RS03320 0.32 +0.5 784,898 - HMPREF1078_RS03320 0.32 -1.0 784,899 + HMPREF1078_RS03320 0.32 -0.9 784,899 + HMPREF1078_RS03320 0.32 +0.1 784,899 + HMPREF1078_RS03320 0.32 +1.4 784,899 + HMPREF1078_RS03320 0.32 +0.1 784,899 + HMPREF1078_RS03320 0.32 -2.4
Or see this region's nucleotide sequence