Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; 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_RS16410 and HMPREF1078_RS16415 are separated by 871 nucleotides HMPREF1078_RS16415 and HMPREF1078_RS16420 are separated by 143 nucleotides
HMPREF1078_RS16410: HMPREF1078_RS16410 - YihY/virulence factor BrkB family protein, at 420,557 to 421,915
_RS16410
HMPREF1078_RS16415: HMPREF1078_RS16415 - Do family serine endopeptidase, at 422,787 to 424,358
_RS16415
HMPREF1078_RS16420: HMPREF1078_RS16420 - RNA polymerase sigma factor RpoD/SigA, at 424,502 to 425,362
_RS16420
Position (kb) 422
423
424
425 Strain fitness (log2 ratio) -5
-4
-3
-2
-1
0
1
2 at 421.787 kb on - strand at 421.787 kb on - strand at 421.789 kb on - strand at 421.809 kb on - strand at 421.840 kb on - strand at 421.840 kb on - strand at 421.840 kb on - strand at 421.916 kb on - strand at 421.916 kb on - strand at 421.918 kb on - strand at 421.918 kb on - strand at 421.919 kb on + strand at 421.919 kb on + strand at 421.919 kb on + strand at 421.919 kb on + strand at 421.919 kb on + strand at 421.919 kb on + strand at 421.920 kb on - strand at 421.920 kb on - strand at 421.920 kb on - strand at 421.920 kb on - strand at 421.920 kb on - strand at 421.949 kb on + strand at 421.949 kb on + strand at 421.950 kb on - strand at 421.952 kb on - strand at 421.952 kb on - strand at 421.978 kb on + strand at 421.978 kb on + strand at 421.979 kb on - strand at 421.979 kb on - strand at 421.993 kb on - strand at 421.993 kb on - strand at 421.994 kb on + strand at 422.005 kb on + strand at 422.005 kb on + strand at 422.008 kb on - strand at 422.420 kb on + strand at 422.442 kb on + strand at 422.455 kb on + strand at 422.491 kb on + strand at 422.491 kb on + strand at 422.492 kb on - strand at 422.495 kb on + strand at 422.495 kb on + strand at 422.495 kb on + strand at 422.495 kb on + strand at 422.496 kb on - strand at 422.496 kb on - strand at 422.496 kb on - strand at 422.496 kb on - strand at 422.496 kb on - strand at 422.497 kb on + strand at 422.497 kb on + strand at 422.497 kb on + strand at 422.531 kb on + strand at 422.531 kb on + strand at 422.531 kb on + strand at 422.532 kb on - strand at 422.576 kb on + strand at 422.581 kb on + strand at 422.582 kb on - strand at 422.787 kb on - strand at 422.816 kb on + strand at 422.879 kb on + strand at 422.894 kb on - strand at 422.918 kb on + strand at 422.918 kb on + strand at 422.919 kb on - strand at 422.949 kb on + strand, within HMPREF1078_RS16415 at 422.950 kb on - strand, within HMPREF1078_RS16415 at 422.951 kb on + strand, within HMPREF1078_RS16415 at 423.021 kb on - strand, within HMPREF1078_RS16415 at 423.048 kb on + strand, within HMPREF1078_RS16415 at 423.075 kb on + strand, within HMPREF1078_RS16415 at 423.076 kb on - strand, within HMPREF1078_RS16415 at 423.094 kb on - strand, within HMPREF1078_RS16415 at 423.189 kb on + strand, within HMPREF1078_RS16415 at 423.192 kb on - strand, within HMPREF1078_RS16415 at 423.195 kb on - strand, within HMPREF1078_RS16415 at 423.195 kb on - strand, within HMPREF1078_RS16415 at 423.196 kb on + strand, within HMPREF1078_RS16415 at 423.257 kb on + strand, within HMPREF1078_RS16415 at 423.258 kb on - strand, within HMPREF1078_RS16415 at 423.416 kb on + strand, within HMPREF1078_RS16415 at 423.455 kb on + strand, within HMPREF1078_RS16415 at 423.455 kb on + strand, within HMPREF1078_RS16415 at 423.455 kb on + strand, within HMPREF1078_RS16415 at 423.551 kb on + strand, within HMPREF1078_RS16415 at 423.552 kb on - strand, within HMPREF1078_RS16415 at 423.576 kb on - strand, within HMPREF1078_RS16415 at 423.578 kb on + strand, within HMPREF1078_RS16415 at 423.578 kb on + strand, within HMPREF1078_RS16415 at 423.584 kb on + strand, within HMPREF1078_RS16415 at 423.632 kb on + strand, within HMPREF1078_RS16415 at 423.638 kb on + strand, within HMPREF1078_RS16415 at 423.639 kb on - strand, within HMPREF1078_RS16415 at 423.673 kb on - strand, within HMPREF1078_RS16415 at 423.677 kb on + strand, within HMPREF1078_RS16415 at 423.744 kb on + strand, within HMPREF1078_RS16415 at 423.892 kb on + strand, within HMPREF1078_RS16415 at 423.892 kb on + strand, within HMPREF1078_RS16415 at 423.893 kb on - strand, within HMPREF1078_RS16415 at 423.893 kb on - strand, within HMPREF1078_RS16415 at 423.938 kb on + strand, within HMPREF1078_RS16415 at 423.941 kb on + strand, within HMPREF1078_RS16415 at 423.942 kb on + strand, within HMPREF1078_RS16415 at 423.945 kb on + strand, within HMPREF1078_RS16415 at 423.977 kb on - strand, within HMPREF1078_RS16415 at 424.034 kb on + strand, within HMPREF1078_RS16415 at 424.034 kb on + strand, within HMPREF1078_RS16415 at 424.042 kb on + strand, within HMPREF1078_RS16415 at 424.120 kb on + strand, within HMPREF1078_RS16415 at 424.120 kb on + strand, within HMPREF1078_RS16415 at 424.121 kb on - strand, within HMPREF1078_RS16415 at 424.126 kb on + strand, within HMPREF1078_RS16415 at 424.127 kb on - strand, within HMPREF1078_RS16415 at 424.131 kb on + strand, within HMPREF1078_RS16415 at 424.132 kb on - strand, within HMPREF1078_RS16415 at 424.132 kb on - strand, within HMPREF1078_RS16415 at 424.253 kb on - strand at 424.300 kb on + strand at 424.326 kb on - strand at 424.333 kb on + strand at 424.333 kb on + strand at 424.333 kb on + strand at 424.334 kb on - strand at 424.334 kb on - strand at 424.335 kb on + strand at 424.335 kb on + strand at 424.335 kb on + strand at 424.336 kb on - strand at 424.340 kb on + strand at 424.340 kb on + strand at 424.341 kb on - strand at 424.342 kb on + strand at 424.342 kb on + strand at 424.343 kb on - strand at 424.365 kb on - strand at 424.372 kb on + strand
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day3 remove 421,787 - -0.1 421,787 - +0.2 421,789 - +2.0 421,809 - +0.6 421,840 - -2.6 421,840 - +1.0 421,840 - -0.9 421,916 - -0.7 421,916 - -1.6 421,918 - -1.2 421,918 - -0.9 421,919 + -2.5 421,919 + -3.2 421,919 + -2.7 421,919 + -2.1 421,919 + -3.1 421,919 + +0.2 421,920 - -0.5 421,920 - -0.4 421,920 - -2.9 421,920 - -2.5 421,920 - -0.3 421,949 + -1.1 421,949 + -3.5 421,950 - -2.5 421,952 - +1.5 421,952 - +1.0 421,978 + -2.2 421,978 + -1.8 421,979 - -2.7 421,979 - -0.4 421,993 - +1.6 421,993 - -1.6 421,994 + -1.9 422,005 + -3.4 422,005 + -0.9 422,008 - -0.6 422,420 + -1.0 422,442 + -1.6 422,455 + -3.9 422,491 + -0.6 422,491 + +0.4 422,492 - -0.8 422,495 + +1.0 422,495 + +1.9 422,495 + +0.2 422,495 + -0.1 422,496 - +0.7 422,496 - -1.4 422,496 - +0.8 422,496 - +0.3 422,496 - +1.3 422,497 + +0.3 422,497 + +1.2 422,497 + +1.4 422,531 + -0.3 422,531 + -2.0 422,531 + -3.4 422,532 - +2.6 422,576 + -3.0 422,581 + +0.0 422,582 - -1.1 422,787 - +0.0 422,816 + -1.3 422,879 + -2.6 422,894 - -2.3 422,918 + -3.4 422,918 + -3.0 422,919 - -4.0 422,949 + HMPREF1078_RS16415 0.10 -1.3 422,950 - HMPREF1078_RS16415 0.10 -2.1 422,951 + HMPREF1078_RS16415 0.10 -2.1 423,021 - HMPREF1078_RS16415 0.15 -0.1 423,048 + HMPREF1078_RS16415 0.17 -1.8 423,075 + HMPREF1078_RS16415 0.18 -1.8 423,076 - HMPREF1078_RS16415 0.18 +1.3 423,094 - HMPREF1078_RS16415 0.20 -2.3 423,189 + HMPREF1078_RS16415 0.26 -1.0 423,192 - HMPREF1078_RS16415 0.26 -0.4 423,195 - HMPREF1078_RS16415 0.26 -0.6 423,195 - HMPREF1078_RS16415 0.26 -1.3 423,196 + HMPREF1078_RS16415 0.26 -0.4 423,257 + HMPREF1078_RS16415 0.30 -4.1 423,258 - HMPREF1078_RS16415 0.30 -2.8 423,416 + HMPREF1078_RS16415 0.40 -3.6 423,455 + HMPREF1078_RS16415 0.42 -1.0 423,455 + HMPREF1078_RS16415 0.42 -1.1 423,455 + HMPREF1078_RS16415 0.42 -3.5 423,551 + HMPREF1078_RS16415 0.49 -3.3 423,552 - HMPREF1078_RS16415 0.49 -1.1 423,576 - HMPREF1078_RS16415 0.50 -1.5 423,578 + HMPREF1078_RS16415 0.50 -0.9 423,578 + HMPREF1078_RS16415 0.50 -1.0 423,584 + HMPREF1078_RS16415 0.51 -0.5 423,632 + HMPREF1078_RS16415 0.54 -0.5 423,638 + HMPREF1078_RS16415 0.54 -1.3 423,639 - HMPREF1078_RS16415 0.54 -2.5 423,673 - HMPREF1078_RS16415 0.56 -1.6 423,677 + HMPREF1078_RS16415 0.57 -1.0 423,744 + HMPREF1078_RS16415 0.61 -0.4 423,892 + HMPREF1078_RS16415 0.70 -2.6 423,892 + HMPREF1078_RS16415 0.70 -2.3 423,893 - HMPREF1078_RS16415 0.70 -1.5 423,893 - HMPREF1078_RS16415 0.70 -4.9 423,938 + HMPREF1078_RS16415 0.73 -2.5 423,941 + HMPREF1078_RS16415 0.73 -3.3 423,942 + HMPREF1078_RS16415 0.73 +0.3 423,945 + HMPREF1078_RS16415 0.74 -2.3 423,977 - HMPREF1078_RS16415 0.76 -2.7 424,034 + HMPREF1078_RS16415 0.79 +0.2 424,034 + HMPREF1078_RS16415 0.79 -0.8 424,042 + HMPREF1078_RS16415 0.80 +1.7 424,120 + HMPREF1078_RS16415 0.85 -0.6 424,120 + HMPREF1078_RS16415 0.85 -2.1 424,121 - HMPREF1078_RS16415 0.85 -1.3 424,126 + HMPREF1078_RS16415 0.85 +0.9 424,127 - HMPREF1078_RS16415 0.85 +1.1 424,131 + HMPREF1078_RS16415 0.85 -1.3 424,132 - HMPREF1078_RS16415 0.86 -0.7 424,132 - HMPREF1078_RS16415 0.86 +0.4 424,253 - +0.1 424,300 + +1.8 424,326 - -0.9 424,333 + +1.8 424,333 + -1.7 424,333 + +0.5 424,334 - -1.9 424,334 - -1.5 424,335 + +0.3 424,335 + -1.0 424,335 + -0.5 424,336 - -1.7 424,340 + +1.2 424,340 + +1.6 424,341 - -1.2 424,342 + +0.4 424,342 + +0.6 424,343 - -1.0 424,365 - -1.0 424,372 + +0.4
Or see this region's nucleotide sequence