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_RS13920 and HMPREF1078_RS13925 are separated by 8 nucleotides HMPREF1078_RS13925 and HMPREF1078_RS13930 are separated by 79 nucleotides HMPREF1078_RS13930 and HMPREF1078_RS13935 are separated by 3 nucleotides HMPREF1078_RS13935 and HMPREF1078_RS13940 are separated by 131 nucleotides
HMPREF1078_RS13920: HMPREF1078_RS13920 - tRNA 2-thiocytidine biosynthesis TtcA family protein, at 242,257 to 243,012
_RS13920
HMPREF1078_RS13925: HMPREF1078_RS13925 - DMT family protein, at 243,021 to 243,392
_RS13925
HMPREF1078_RS13930: HMPREF1078_RS13930 - tRNA (adenosine(37)-N6)-dimethylallyltransferase MiaA, at 243,472 to 244,380
_RS13930
HMPREF1078_RS13935: HMPREF1078_RS13935 - hypothetical protein, at 244,384 to 244,944
_RS13935
HMPREF1078_RS13940: HMPREF1078_RS13940 - acyl-ACP--UDP-N-acetylglucosamine O-acyltransferase, at 245,076 to 245,861
_RS13940
Position (kb) 243
244
245 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2 at 242.476 kb on - strand, within HMPREF1078_RS13920 at 242.482 kb on + strand, within HMPREF1078_RS13920 at 242.686 kb on - strand, within HMPREF1078_RS13920 at 242.686 kb on - strand, within HMPREF1078_RS13920 at 242.761 kb on - strand, within HMPREF1078_RS13920 at 242.903 kb on + strand, within HMPREF1078_RS13920 at 242.944 kb on - strand at 242.958 kb on + strand at 242.958 kb on + strand at 242.959 kb on - strand at 242.959 kb on - strand at 242.981 kb on - strand at 242.994 kb on + strand at 243.003 kb on + strand at 243.004 kb on - strand at 243.010 kb on + strand at 243.038 kb on + strand at 243.039 kb on - strand at 243.046 kb on + strand at 243.063 kb on - strand, within HMPREF1078_RS13925 at 243.068 kb on + strand, within HMPREF1078_RS13925 at 243.069 kb on - strand, within HMPREF1078_RS13925 at 243.272 kb on + strand, within HMPREF1078_RS13925 at 243.326 kb on + strand, within HMPREF1078_RS13925 at 243.391 kb on - strand at 243.402 kb on - strand at 243.430 kb on + strand at 243.500 kb on - strand at 243.503 kb on + strand at 243.512 kb on - strand at 243.628 kb on + strand, within HMPREF1078_RS13930 at 243.650 kb on + strand, within HMPREF1078_RS13930 at 243.651 kb on - strand, within HMPREF1078_RS13930 at 243.754 kb on + strand, within HMPREF1078_RS13930 at 243.806 kb on - strand, within HMPREF1078_RS13930 at 243.816 kb on + strand, within HMPREF1078_RS13930 at 243.817 kb on - strand, within HMPREF1078_RS13930 at 243.846 kb on + strand, within HMPREF1078_RS13930 at 243.911 kb on + strand, within HMPREF1078_RS13930 at 243.933 kb on + strand, within HMPREF1078_RS13930 at 243.933 kb on + strand, within HMPREF1078_RS13930 at 243.934 kb on - strand, within HMPREF1078_RS13930 at 243.940 kb on + strand, within HMPREF1078_RS13930 at 243.941 kb on - strand, within HMPREF1078_RS13930 at 243.941 kb on - strand, within HMPREF1078_RS13930 at 243.942 kb on + strand, within HMPREF1078_RS13930 at 243.942 kb on + strand, within HMPREF1078_RS13930 at 243.942 kb on + strand, within HMPREF1078_RS13930 at 244.042 kb on - strand, within HMPREF1078_RS13930 at 244.073 kb on + strand, within HMPREF1078_RS13930 at 244.073 kb on + strand, within HMPREF1078_RS13930 at 244.073 kb on + strand, within HMPREF1078_RS13930 at 244.074 kb on - strand, within HMPREF1078_RS13930 at 244.074 kb on - strand, within HMPREF1078_RS13930 at 244.074 kb on - strand, within HMPREF1078_RS13930 at 244.074 kb on - strand, within HMPREF1078_RS13930 at 244.074 kb on - strand, within HMPREF1078_RS13930 at 244.074 kb on - strand, within HMPREF1078_RS13930 at 244.074 kb on - strand, within HMPREF1078_RS13930 at 244.170 kb on - strand, within HMPREF1078_RS13930 at 244.173 kb on - strand, within HMPREF1078_RS13930 at 244.200 kb on + strand, within HMPREF1078_RS13930 at 244.201 kb on - strand, within HMPREF1078_RS13930 at 244.201 kb on - strand, within HMPREF1078_RS13930 at 244.201 kb on - strand, within HMPREF1078_RS13930 at 244.202 kb on + strand, within HMPREF1078_RS13930 at 244.202 kb on + strand, within HMPREF1078_RS13930 at 244.202 kb on + strand, within HMPREF1078_RS13930 at 244.203 kb on - strand, within HMPREF1078_RS13930 at 244.203 kb on - strand, within HMPREF1078_RS13930 at 244.203 kb on - strand, within HMPREF1078_RS13930 at 244.211 kb on - strand, within HMPREF1078_RS13930 at 244.234 kb on - strand, within HMPREF1078_RS13930 at 244.316 kb on - strand at 244.363 kb on + strand at 244.364 kb on - strand at 244.381 kb on + strand at 244.382 kb on - strand at 244.382 kb on - strand at 244.382 kb on - strand at 244.404 kb on - strand at 244.449 kb on + strand, within HMPREF1078_RS13935 at 244.469 kb on + strand, within HMPREF1078_RS13935 at 244.469 kb on + strand, within HMPREF1078_RS13935 at 244.484 kb on + strand, within HMPREF1078_RS13935 at 244.499 kb on - strand, within HMPREF1078_RS13935 at 244.510 kb on - strand, within HMPREF1078_RS13935 at 244.650 kb on - strand, within HMPREF1078_RS13935 at 244.650 kb on - strand, within HMPREF1078_RS13935 at 244.707 kb on + strand, within HMPREF1078_RS13935 at 244.707 kb on + strand, within HMPREF1078_RS13935 at 244.708 kb on - strand, within HMPREF1078_RS13935 at 244.708 kb on - strand, within HMPREF1078_RS13935 at 244.708 kb on - strand, within HMPREF1078_RS13935 at 244.708 kb on - strand, within HMPREF1078_RS13935 at 244.718 kb on - strand, within HMPREF1078_RS13935 at 244.719 kb on + strand, within HMPREF1078_RS13935 at 244.719 kb on + strand, within HMPREF1078_RS13935 at 244.719 kb on + strand, within HMPREF1078_RS13935 at 244.719 kb on + strand, within HMPREF1078_RS13935 at 244.720 kb on - strand, within HMPREF1078_RS13935 at 244.720 kb on - strand, within HMPREF1078_RS13935 at 244.721 kb on + strand, within HMPREF1078_RS13935 at 244.722 kb on - strand, within HMPREF1078_RS13935 at 244.722 kb on - strand, within HMPREF1078_RS13935 at 244.722 kb on - strand, within HMPREF1078_RS13935 at 244.722 kb on - strand, within HMPREF1078_RS13935 at 244.722 kb on - strand, within HMPREF1078_RS13935 at 244.722 kb on - strand, within HMPREF1078_RS13935 at 244.743 kb on + strand, within HMPREF1078_RS13935 at 244.771 kb on - strand, within HMPREF1078_RS13935 at 244.771 kb on - strand, within HMPREF1078_RS13935 at 244.824 kb on + strand, within HMPREF1078_RS13935 at 244.824 kb on + strand, within HMPREF1078_RS13935 at 244.854 kb on - strand, within HMPREF1078_RS13935 at 244.927 kb on + strand at 244.940 kb on - strand at 244.940 kb on - strand at 244.940 kb on - strand at 244.940 kb on - strand at 244.944 kb on + strand at 244.951 kb on + strand at 244.951 kb on + strand at 244.954 kb on + strand at 245.004 kb on + strand at 245.005 kb on - strand at 245.005 kb on - strand at 245.015 kb on + strand at 245.016 kb on - strand at 245.017 kb on + strand at 245.018 kb on - strand at 245.018 kb on - strand at 245.018 kb on - strand at 245.074 kb on + strand at 245.074 kb on + strand at 245.074 kb on + strand at 245.074 kb on + strand at 245.077 kb on + strand at 245.078 kb on - strand
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day3 remove 242,476 - HMPREF1078_RS13920 0.29 +0.5 242,482 + HMPREF1078_RS13920 0.30 -0.2 242,686 - HMPREF1078_RS13920 0.57 -0.3 242,686 - HMPREF1078_RS13920 0.57 +0.1 242,761 - HMPREF1078_RS13920 0.67 +0.3 242,903 + HMPREF1078_RS13920 0.85 +0.2 242,944 - -0.1 242,958 + +0.3 242,958 + +0.4 242,959 - -0.1 242,959 - +1.4 242,981 - +0.4 242,994 + -2.7 243,003 + -2.6 243,004 - +1.1 243,010 + -1.6 243,038 + +1.6 243,039 - -0.1 243,046 + +1.2 243,063 - HMPREF1078_RS13925 0.11 -0.3 243,068 + HMPREF1078_RS13925 0.13 -1.5 243,069 - HMPREF1078_RS13925 0.13 -2.0 243,272 + HMPREF1078_RS13925 0.67 -1.1 243,326 + HMPREF1078_RS13925 0.82 +0.2 243,391 - -1.1 243,402 - -3.2 243,430 + +0.1 243,500 - +0.2 243,503 + -1.7 243,512 - +0.7 243,628 + HMPREF1078_RS13930 0.17 -1.7 243,650 + HMPREF1078_RS13930 0.20 -0.9 243,651 - HMPREF1078_RS13930 0.20 -0.8 243,754 + HMPREF1078_RS13930 0.31 -1.2 243,806 - HMPREF1078_RS13930 0.37 -0.9 243,816 + HMPREF1078_RS13930 0.38 -0.1 243,817 - HMPREF1078_RS13930 0.38 +0.7 243,846 + HMPREF1078_RS13930 0.41 -2.3 243,911 + HMPREF1078_RS13930 0.48 -2.0 243,933 + HMPREF1078_RS13930 0.51 -1.8 243,933 + HMPREF1078_RS13930 0.51 -2.1 243,934 - HMPREF1078_RS13930 0.51 -1.8 243,940 + HMPREF1078_RS13930 0.51 -0.9 243,941 - HMPREF1078_RS13930 0.52 -0.6 243,941 - HMPREF1078_RS13930 0.52 -0.1 243,942 + HMPREF1078_RS13930 0.52 -1.8 243,942 + HMPREF1078_RS13930 0.52 -0.3 243,942 + HMPREF1078_RS13930 0.52 -1.2 244,042 - HMPREF1078_RS13930 0.63 -1.5 244,073 + HMPREF1078_RS13930 0.66 -1.1 244,073 + HMPREF1078_RS13930 0.66 +0.2 244,073 + HMPREF1078_RS13930 0.66 -0.6 244,074 - HMPREF1078_RS13930 0.66 -0.9 244,074 - HMPREF1078_RS13930 0.66 -0.9 244,074 - HMPREF1078_RS13930 0.66 -2.0 244,074 - HMPREF1078_RS13930 0.66 -1.6 244,074 - HMPREF1078_RS13930 0.66 -1.1 244,074 - HMPREF1078_RS13930 0.66 -1.8 244,074 - HMPREF1078_RS13930 0.66 -0.8 244,170 - HMPREF1078_RS13930 0.77 -1.5 244,173 - HMPREF1078_RS13930 0.77 -1.3 244,200 + HMPREF1078_RS13930 0.80 +0.2 244,201 - HMPREF1078_RS13930 0.80 +0.2 244,201 - HMPREF1078_RS13930 0.80 +0.7 244,201 - HMPREF1078_RS13930 0.80 -1.7 244,202 + HMPREF1078_RS13930 0.80 -0.6 244,202 + HMPREF1078_RS13930 0.80 -1.1 244,202 + HMPREF1078_RS13930 0.80 -0.1 244,203 - HMPREF1078_RS13930 0.80 +1.2 244,203 - HMPREF1078_RS13930 0.80 -2.2 244,203 - HMPREF1078_RS13930 0.80 -1.7 244,211 - HMPREF1078_RS13930 0.81 -1.1 244,234 - HMPREF1078_RS13930 0.84 -0.3 244,316 - -2.8 244,363 + -0.6 244,364 - -3.8 244,381 + -1.2 244,382 - +1.8 244,382 - +0.1 244,382 - -2.3 244,404 - -0.8 244,449 + HMPREF1078_RS13935 0.12 -2.2 244,469 + HMPREF1078_RS13935 0.15 -1.8 244,469 + HMPREF1078_RS13935 0.15 -1.2 244,484 + HMPREF1078_RS13935 0.18 -1.3 244,499 - HMPREF1078_RS13935 0.20 -2.4 244,510 - HMPREF1078_RS13935 0.22 -2.1 244,650 - HMPREF1078_RS13935 0.47 -3.4 244,650 - HMPREF1078_RS13935 0.47 -2.8 244,707 + HMPREF1078_RS13935 0.58 +0.7 244,707 + HMPREF1078_RS13935 0.58 -1.3 244,708 - HMPREF1078_RS13935 0.58 -3.3 244,708 - HMPREF1078_RS13935 0.58 -2.1 244,708 - HMPREF1078_RS13935 0.58 -3.0 244,708 - HMPREF1078_RS13935 0.58 -2.3 244,718 - HMPREF1078_RS13935 0.60 -1.9 244,719 + HMPREF1078_RS13935 0.60 -0.3 244,719 + HMPREF1078_RS13935 0.60 -0.6 244,719 + HMPREF1078_RS13935 0.60 +0.7 244,719 + HMPREF1078_RS13935 0.60 -0.8 244,720 - HMPREF1078_RS13935 0.60 -0.3 244,720 - HMPREF1078_RS13935 0.60 -3.3 244,721 + HMPREF1078_RS13935 0.60 -1.8 244,722 - HMPREF1078_RS13935 0.60 -2.8 244,722 - HMPREF1078_RS13935 0.60 -2.3 244,722 - HMPREF1078_RS13935 0.60 -3.1 244,722 - HMPREF1078_RS13935 0.60 -3.9 244,722 - HMPREF1078_RS13935 0.60 +0.2 244,722 - HMPREF1078_RS13935 0.60 -1.1 244,743 + HMPREF1078_RS13935 0.64 -1.5 244,771 - HMPREF1078_RS13935 0.69 -1.6 244,771 - HMPREF1078_RS13935 0.69 -0.1 244,824 + HMPREF1078_RS13935 0.78 -1.8 244,824 + HMPREF1078_RS13935 0.78 -0.1 244,854 - HMPREF1078_RS13935 0.84 -2.7 244,927 + -1.7 244,940 - +1.2 244,940 - -1.5 244,940 - -1.0 244,940 - -3.1 244,944 + -0.9 244,951 + -1.1 244,951 + -0.8 244,954 + -1.1 245,004 + -2.5 245,005 - +1.6 245,005 - -1.4 245,015 + -0.2 245,016 - -2.2 245,017 + -3.0 245,018 - -0.5 245,018 - -0.4 245,018 - +2.2 245,074 + -1.2 245,074 + -1.8 245,074 + +1.5 245,074 + -1.2 245,077 + +1.2 245,078 - +0.1
Or see this region's nucleotide sequence