Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS08880

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day5

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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.

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500 ntHMPREF1058_RS08885 and HMPREF1058_RS08880 are separated by 10 nucleotidesHMPREF1058_RS08880 and HMPREF1058_RS08875 are separated by 162 nucleotides HMPREF1058_RS08885: HMPREF1058_RS08885 - transposase, at 1,007,516 to 1,008,520 _RS08885 HMPREF1058_RS08880: HMPREF1058_RS08880 - transposase family protein, at 1,008,531 to 1,008,881 _RS08880 HMPREF1058_RS08875: HMPREF1058_RS08875 - rhamnulose-1-phosphate aldolase, at 1,009,044 to 1,009,853 _RS08875 Position (kb) 1008 1009Strain fitness (log2 ratio) -6 -5 -4 -3 -2 -1 0 1at 1008.919 kb on + strandat 1009.010 kb on + strandat 1009.036 kb on - strandat 1009.037 kb on + strandat 1009.045 kb on + strandat 1009.186 kb on - strand, within HMPREF1058_RS08875at 1009.445 kb on - strand, within HMPREF1058_RS08875at 1009.455 kb on + strand, within HMPREF1058_RS08875at 1009.455 kb on + strand, within HMPREF1058_RS08875at 1009.455 kb on + strand, within HMPREF1058_RS08875at 1009.455 kb on + strand, within HMPREF1058_RS08875at 1009.456 kb on - strand, within HMPREF1058_RS08875at 1009.469 kb on - strand, within HMPREF1058_RS08875at 1009.538 kb on - strand, within HMPREF1058_RS08875at 1009.538 kb on - strand, within HMPREF1058_RS08875at 1009.560 kb on - strand, within HMPREF1058_RS08875at 1009.613 kb on + strand, within HMPREF1058_RS08875at 1009.717 kb on - strand, within HMPREF1058_RS08875at 1009.720 kb on + strand, within HMPREF1058_RS08875at 1009.742 kb on + strand, within HMPREF1058_RS08875at 1009.743 kb on - strand, within HMPREF1058_RS08875at 1009.745 kb on + strand, within HMPREF1058_RS08875at 1009.801 kb on - strandat 1009.806 kb on - strandat 1009.806 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day5
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1,008,919 + +0.1
1,009,010 + -1.3
1,009,036 - -0.6
1,009,037 + +0.2
1,009,045 + -0.4
1,009,186 - HMPREF1058_RS08875 0.18 -1.3
1,009,445 - HMPREF1058_RS08875 0.50 -6.6
1,009,455 + HMPREF1058_RS08875 0.51 -2.3
1,009,455 + HMPREF1058_RS08875 0.51 -3.9
1,009,455 + HMPREF1058_RS08875 0.51 -3.3
1,009,455 + HMPREF1058_RS08875 0.51 -4.9
1,009,456 - HMPREF1058_RS08875 0.51 -2.9
1,009,469 - HMPREF1058_RS08875 0.52 -2.7
1,009,538 - HMPREF1058_RS08875 0.61 -0.3
1,009,538 - HMPREF1058_RS08875 0.61 -2.3
1,009,560 - HMPREF1058_RS08875 0.64 -6.7
1,009,613 + HMPREF1058_RS08875 0.70 -2.3
1,009,717 - HMPREF1058_RS08875 0.83 -6.1
1,009,720 + HMPREF1058_RS08875 0.83 -2.9
1,009,742 + HMPREF1058_RS08875 0.86 -2.9
1,009,743 - HMPREF1058_RS08875 0.86 -1.3
1,009,745 + HMPREF1058_RS08875 0.87 -2.7
1,009,801 - -3.9
1,009,806 - -5.7
1,009,806 - -1.9

Or see this region's nucleotide sequence