Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS15510

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse9; day1

Add experiment(s):

Zoom: Pan:

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.

download SVG
500 ntHMPREF1058_RS15515 and HMPREF1058_RS15510 are separated by 82 nucleotidesHMPREF1058_RS15510 and HMPREF1058_RS15505 are separated by 90 nucleotidesHMPREF1058_RS15505 and HMPREF1058_RS15500 are separated by 51 nucleotides HMPREF1058_RS15515: HMPREF1058_RS15515 - alpha-1,3-galactosidase, at 897,031 to 898,848 _RS15515 HMPREF1058_RS15510: HMPREF1058_RS15510 - xanthan lyase, at 898,931 to 901,801 _RS15510 HMPREF1058_RS15505: HMPREF1058_RS15505 - hypothetical protein, at 901,892 to 902,209 _RS15505 HMPREF1058_RS15500: HMPREF1058_RS15500 - YgiQ family radical SAM protein, at 902,261 to 904,150 _RS15500 Position (kb) 898 899 900 901 902Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1 2 3at 897.960 kb on - strand, within HMPREF1058_RS15515at 898.022 kb on - strand, within HMPREF1058_RS15515at 898.022 kb on - strand, within HMPREF1058_RS15515at 898.042 kb on - strand, within HMPREF1058_RS15515at 898.102 kb on + strand, within HMPREF1058_RS15515at 898.103 kb on - strand, within HMPREF1058_RS15515at 898.187 kb on + strand, within HMPREF1058_RS15515at 898.187 kb on + strand, within HMPREF1058_RS15515at 898.188 kb on - strand, within HMPREF1058_RS15515at 898.221 kb on + strand, within HMPREF1058_RS15515at 898.222 kb on - strand, within HMPREF1058_RS15515at 898.419 kb on + strand, within HMPREF1058_RS15515at 898.420 kb on - strand, within HMPREF1058_RS15515at 898.438 kb on + strand, within HMPREF1058_RS15515at 898.438 kb on + strand, within HMPREF1058_RS15515at 898.459 kb on - strand, within HMPREF1058_RS15515at 898.459 kb on - strand, within HMPREF1058_RS15515at 898.568 kb on - strand, within HMPREF1058_RS15515at 898.605 kb on - strand, within HMPREF1058_RS15515at 898.605 kb on - strand, within HMPREF1058_RS15515at 898.607 kb on + strand, within HMPREF1058_RS15515at 898.786 kb on - strandat 898.786 kb on - strandat 898.911 kb on + strandat 898.974 kb on + strandat 899.006 kb on - strandat 899.054 kb on + strandat 899.054 kb on + strandat 899.064 kb on + strandat 899.079 kb on + strandat 899.176 kb on + strandat 899.176 kb on + strandat 899.176 kb on + strandat 899.177 kb on - strandat 899.203 kb on - strandat 899.229 kb on + strand, within HMPREF1058_RS15510at 899.324 kb on + strand, within HMPREF1058_RS15510at 899.428 kb on + strand, within HMPREF1058_RS15510at 899.518 kb on + strand, within HMPREF1058_RS15510at 899.518 kb on + strand, within HMPREF1058_RS15510at 899.518 kb on + strand, within HMPREF1058_RS15510at 899.518 kb on + strand, within HMPREF1058_RS15510at 899.524 kb on - strand, within HMPREF1058_RS15510at 899.555 kb on + strand, within HMPREF1058_RS15510at 899.828 kb on + strand, within HMPREF1058_RS15510at 899.837 kb on + strand, within HMPREF1058_RS15510at 899.838 kb on - strand, within HMPREF1058_RS15510at 899.888 kb on - strand, within HMPREF1058_RS15510at 899.997 kb on + strand, within HMPREF1058_RS15510at 900.000 kb on + strand, within HMPREF1058_RS15510at 900.000 kb on + strand, within HMPREF1058_RS15510at 900.178 kb on + strand, within HMPREF1058_RS15510at 900.178 kb on + strand, within HMPREF1058_RS15510at 900.188 kb on + strand, within HMPREF1058_RS15510at 900.190 kb on + strand, within HMPREF1058_RS15510at 900.199 kb on + strand, within HMPREF1058_RS15510at 900.202 kb on - strand, within HMPREF1058_RS15510at 900.337 kb on - strand, within HMPREF1058_RS15510at 900.356 kb on + strand, within HMPREF1058_RS15510at 900.356 kb on + strand, within HMPREF1058_RS15510at 900.357 kb on - strand, within HMPREF1058_RS15510at 900.368 kb on + strand, within HMPREF1058_RS15510at 900.370 kb on + strand, within HMPREF1058_RS15510at 900.374 kb on - strand, within HMPREF1058_RS15510at 900.433 kb on - strand, within HMPREF1058_RS15510at 900.455 kb on - strand, within HMPREF1058_RS15510at 900.645 kb on + strand, within HMPREF1058_RS15510at 900.659 kb on - strand, within HMPREF1058_RS15510at 900.678 kb on - strand, within HMPREF1058_RS15510at 900.699 kb on + strand, within HMPREF1058_RS15510at 900.801 kb on - strand, within HMPREF1058_RS15510at 900.805 kb on - strand, within HMPREF1058_RS15510at 900.809 kb on + strand, within HMPREF1058_RS15510at 900.810 kb on - strand, within HMPREF1058_RS15510at 900.810 kb on - strand, within HMPREF1058_RS15510at 900.866 kb on + strand, within HMPREF1058_RS15510at 900.868 kb on + strand, within HMPREF1058_RS15510at 900.869 kb on - strand, within HMPREF1058_RS15510at 900.897 kb on - strand, within HMPREF1058_RS15510at 900.898 kb on + strand, within HMPREF1058_RS15510at 900.898 kb on + strand, within HMPREF1058_RS15510at 900.909 kb on + strand, within HMPREF1058_RS15510at 900.910 kb on - strand, within HMPREF1058_RS15510at 900.980 kb on - strand, within HMPREF1058_RS15510at 901.035 kb on + strand, within HMPREF1058_RS15510at 901.083 kb on + strand, within HMPREF1058_RS15510at 901.089 kb on - strand, within HMPREF1058_RS15510at 901.091 kb on - strand, within HMPREF1058_RS15510at 901.439 kb on + strand, within HMPREF1058_RS15510at 901.440 kb on - strand, within HMPREF1058_RS15510at 901.443 kb on + strand, within HMPREF1058_RS15510at 901.444 kb on - strand, within HMPREF1058_RS15510at 901.491 kb on + strand, within HMPREF1058_RS15510at 901.494 kb on + strand, within HMPREF1058_RS15510at 901.495 kb on - strand, within HMPREF1058_RS15510at 901.495 kb on - strand, within HMPREF1058_RS15510at 901.542 kb on + strandat 901.542 kb on + strandat 901.543 kb on - strandat 901.543 kb on - strandat 901.596 kb on - strandat 901.596 kb on - strandat 901.655 kb on + strandat 901.656 kb on - strandat 901.657 kb on + strandat 901.670 kb on + strandat 901.700 kb on + strandat 901.830 kb on + strandat 901.830 kb on + strandat 901.838 kb on + strandat 901.838 kb on + strandat 901.838 kb on + strandat 901.878 kb on - strandat 901.892 kb on - strandat 901.895 kb on + strandat 901.895 kb on + strandat 901.895 kb on + strandat 901.900 kb on + strandat 901.901 kb on - strandat 901.902 kb on + strandat 901.902 kb on + strandat 901.902 kb on + strandat 901.961 kb on - strand, within HMPREF1058_RS15505at 901.970 kb on + strand, within HMPREF1058_RS15505at 901.970 kb on + strand, within HMPREF1058_RS15505at 901.977 kb on + strand, within HMPREF1058_RS15505at 902.080 kb on + strand, within HMPREF1058_RS15505at 902.109 kb on + strand, within HMPREF1058_RS15505at 902.119 kb on + strand, within HMPREF1058_RS15505at 902.206 kb on - strandat 902.208 kb on - strandat 902.208 kb on - strandat 902.232 kb on + strandat 902.256 kb on + strandat 902.310 kb on + strandat 902.340 kb on + strandat 902.340 kb on + strandat 902.368 kb on - strandat 902.525 kb on - strand, within HMPREF1058_RS15500at 902.667 kb on + strand, within HMPREF1058_RS15500at 902.687 kb on - strand, within HMPREF1058_RS15500at 902.688 kb on + strand, within HMPREF1058_RS15500at 902.689 kb on - strand, within HMPREF1058_RS15500at 902.743 kb on + strand, within HMPREF1058_RS15500at 902.757 kb on + strand, within HMPREF1058_RS15500at 902.775 kb on + strand, within HMPREF1058_RS15500

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse9; day1
remove
897,960 - HMPREF1058_RS15515 0.51 -1.9
898,022 - HMPREF1058_RS15515 0.55 -0.3
898,022 - HMPREF1058_RS15515 0.55 +0.6
898,042 - HMPREF1058_RS15515 0.56 -2.5
898,102 + HMPREF1058_RS15515 0.59 +1.3
898,103 - HMPREF1058_RS15515 0.59 +1.2
898,187 + HMPREF1058_RS15515 0.64 -0.1
898,187 + HMPREF1058_RS15515 0.64 +0.5
898,188 - HMPREF1058_RS15515 0.64 -3.5
898,221 + HMPREF1058_RS15515 0.65 +1.4
898,222 - HMPREF1058_RS15515 0.66 -0.3
898,419 + HMPREF1058_RS15515 0.76 +0.1
898,420 - HMPREF1058_RS15515 0.76 -2.5
898,438 + HMPREF1058_RS15515 0.77 -2.3
898,438 + HMPREF1058_RS15515 0.77 +1.3
898,459 - HMPREF1058_RS15515 0.79 -2.8
898,459 - HMPREF1058_RS15515 0.79 +0.9
898,568 - HMPREF1058_RS15515 0.85 +0.1
898,605 - HMPREF1058_RS15515 0.87 -1.5
898,605 - HMPREF1058_RS15515 0.87 -3.9
898,607 + HMPREF1058_RS15515 0.87 -0.8
898,786 - +1.7
898,786 - -3.2
898,911 + -2.9
898,974 + -2.3
899,006 - -2.9
899,054 + +3.1
899,054 + +0.1
899,064 + +3.1
899,079 + +0.1
899,176 + -2.3
899,176 + -2.8
899,176 + -2.3
899,177 - -0.9
899,203 - -2.8
899,229 + HMPREF1058_RS15510 0.10 +0.9
899,324 + HMPREF1058_RS15510 0.14 -1.9
899,428 + HMPREF1058_RS15510 0.17 +2.3
899,518 + HMPREF1058_RS15510 0.20 -0.9
899,518 + HMPREF1058_RS15510 0.20 +1.2
899,518 + HMPREF1058_RS15510 0.20 +0.4
899,518 + HMPREF1058_RS15510 0.20 -3.1
899,524 - HMPREF1058_RS15510 0.21 +0.5
899,555 + HMPREF1058_RS15510 0.22 +0.8
899,828 + HMPREF1058_RS15510 0.31 -3.9
899,837 + HMPREF1058_RS15510 0.32 -3.4
899,838 - HMPREF1058_RS15510 0.32 -3.1
899,888 - HMPREF1058_RS15510 0.33 -1.9
899,997 + HMPREF1058_RS15510 0.37 -0.2
900,000 + HMPREF1058_RS15510 0.37 +0.1
900,000 + HMPREF1058_RS15510 0.37 +0.4
900,178 + HMPREF1058_RS15510 0.43 +0.8
900,178 + HMPREF1058_RS15510 0.43 +1.7
900,188 + HMPREF1058_RS15510 0.44 -4.4
900,190 + HMPREF1058_RS15510 0.44 +1.1
900,199 + HMPREF1058_RS15510 0.44 +2.7
900,202 - HMPREF1058_RS15510 0.44 +1.8
900,337 - HMPREF1058_RS15510 0.49 -0.2
900,356 + HMPREF1058_RS15510 0.50 -0.9
900,356 + HMPREF1058_RS15510 0.50 +2.9
900,357 - HMPREF1058_RS15510 0.50 +0.9
900,368 + HMPREF1058_RS15510 0.50 +0.5
900,370 + HMPREF1058_RS15510 0.50 -2.8
900,374 - HMPREF1058_RS15510 0.50 +0.1
900,433 - HMPREF1058_RS15510 0.52 -3.1
900,455 - HMPREF1058_RS15510 0.53 +0.6
900,645 + HMPREF1058_RS15510 0.60 +1.3
900,659 - HMPREF1058_RS15510 0.60 -0.3
900,678 - HMPREF1058_RS15510 0.61 +1.4
900,699 + HMPREF1058_RS15510 0.62 +0.4
900,801 - HMPREF1058_RS15510 0.65 -3.4
900,805 - HMPREF1058_RS15510 0.65 +2.1
900,809 + HMPREF1058_RS15510 0.65 +0.2
900,810 - HMPREF1058_RS15510 0.65 -5.2
900,810 - HMPREF1058_RS15510 0.65 -3.5
900,866 + HMPREF1058_RS15510 0.67 -1.5
900,868 + HMPREF1058_RS15510 0.67 +0.0
900,869 - HMPREF1058_RS15510 0.68 +3.0
900,897 - HMPREF1058_RS15510 0.68 +1.4
900,898 + HMPREF1058_RS15510 0.69 -0.7
900,898 + HMPREF1058_RS15510 0.69 +0.7
900,909 + HMPREF1058_RS15510 0.69 -0.8
900,910 - HMPREF1058_RS15510 0.69 +3.0
900,980 - HMPREF1058_RS15510 0.71 +1.4
901,035 + HMPREF1058_RS15510 0.73 +0.3
901,083 + HMPREF1058_RS15510 0.75 -2.3
901,089 - HMPREF1058_RS15510 0.75 +1.5
901,091 - HMPREF1058_RS15510 0.75 -1.9
901,439 + HMPREF1058_RS15510 0.87 +0.2
901,440 - HMPREF1058_RS15510 0.87 +0.1
901,443 + HMPREF1058_RS15510 0.87 -0.6
901,444 - HMPREF1058_RS15510 0.88 -2.8
901,491 + HMPREF1058_RS15510 0.89 +1.5
901,494 + HMPREF1058_RS15510 0.89 +0.9
901,495 - HMPREF1058_RS15510 0.89 -1.5
901,495 - HMPREF1058_RS15510 0.89 +2.3
901,542 + -1.7
901,542 + -2.3
901,543 - -2.3
901,543 - +1.1
901,596 - +0.1
901,596 - -2.9
901,655 + -2.8
901,656 - -0.9
901,657 + +0.1
901,670 + -3.3
901,700 + +0.7
901,830 + -2.3
901,830 + +0.1
901,838 + -1.9
901,838 + +0.2
901,838 + -3.9
901,878 - -3.1
901,892 - -1.9
901,895 + -4.2
901,895 + -4.5
901,895 + -0.7
901,900 + +0.9
901,901 - +2.1
901,902 + -1.5
901,902 + -0.1
901,902 + +1.1
901,961 - HMPREF1058_RS15505 0.22 +3.2
901,970 + HMPREF1058_RS15505 0.25 +0.6
901,970 + HMPREF1058_RS15505 0.25 -4.5
901,977 + HMPREF1058_RS15505 0.27 -0.9
902,080 + HMPREF1058_RS15505 0.59 -0.9
902,109 + HMPREF1058_RS15505 0.68 -1.8
902,119 + HMPREF1058_RS15505 0.71 -0.4
902,206 - +0.7
902,208 - -0.5
902,208 - -1.9
902,232 + +0.3
902,256 + +1.2
902,310 + +0.8
902,340 + +1.1
902,340 + -2.9
902,368 - +0.6
902,525 - HMPREF1058_RS15500 0.14 -2.8
902,667 + HMPREF1058_RS15500 0.21 +0.4
902,687 - HMPREF1058_RS15500 0.23 -0.9
902,688 + HMPREF1058_RS15500 0.23 +0.8
902,689 - HMPREF1058_RS15500 0.23 -2.1
902,743 + HMPREF1058_RS15500 0.26 +3.1
902,757 + HMPREF1058_RS15500 0.26 -1.9
902,775 + HMPREF1058_RS15500 0.27 -1.5

Or see this region's nucleotide sequence