Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS18940

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; day2

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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_RS18945 and HMPREF1058_RS18940 are separated by 4 nucleotidesHMPREF1058_RS18940 and HMPREF1058_RS18935 are separated by 187 nucleotidesHMPREF1058_RS18935 and HMPREF1058_RS18930 overlap by 26 nucleotides HMPREF1058_RS18945: HMPREF1058_RS18945 - DNA methylase N-4, at 41,924 to 44,440 _RS18945 HMPREF1058_RS18940: HMPREF1058_RS18940 - hypothetical protein, at 44,445 to 44,846 _RS18940 HMPREF1058_RS18935: HMPREF1058_RS18935 - hypothetical protein, at 45,034 to 45,615 _RS18935 HMPREF1058_RS18930: HMPREF1058_RS18930 - hypothetical protein, at 45,590 to 46,603 _RS18930 Position (kb) 44 45Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3 4 5at 43.697 kb on + strand, within HMPREF1058_RS18945at 43.747 kb on + strand, within HMPREF1058_RS18945at 43.747 kb on + strand, within HMPREF1058_RS18945at 43.747 kb on + strand, within HMPREF1058_RS18945at 43.748 kb on - strand, within HMPREF1058_RS18945at 43.748 kb on - strand, within HMPREF1058_RS18945at 43.834 kb on + strand, within HMPREF1058_RS18945at 43.835 kb on - strand, within HMPREF1058_RS18945at 43.875 kb on + strand, within HMPREF1058_RS18945at 43.893 kb on + strand, within HMPREF1058_RS18945at 43.893 kb on + strand, within HMPREF1058_RS18945at 43.894 kb on - strand, within HMPREF1058_RS18945at 43.991 kb on + strand, within HMPREF1058_RS18945at 43.995 kb on - strand, within HMPREF1058_RS18945at 44.028 kb on + strand, within HMPREF1058_RS18945at 44.029 kb on - strand, within HMPREF1058_RS18945at 44.029 kb on - strand, within HMPREF1058_RS18945at 44.039 kb on + strand, within HMPREF1058_RS18945at 44.076 kb on + strand, within HMPREF1058_RS18945at 44.111 kb on + strand, within HMPREF1058_RS18945at 44.122 kb on + strand, within HMPREF1058_RS18945at 44.123 kb on - strand, within HMPREF1058_RS18945at 44.123 kb on - strand, within HMPREF1058_RS18945at 44.125 kb on + strand, within HMPREF1058_RS18945at 44.125 kb on + strand, within HMPREF1058_RS18945at 44.125 kb on + strand, within HMPREF1058_RS18945at 44.129 kb on + strand, within HMPREF1058_RS18945at 44.129 kb on + strand, within HMPREF1058_RS18945at 44.129 kb on + strand, within HMPREF1058_RS18945at 44.129 kb on + strand, within HMPREF1058_RS18945at 44.130 kb on - strand, within HMPREF1058_RS18945at 44.133 kb on + strand, within HMPREF1058_RS18945at 44.133 kb on + strand, within HMPREF1058_RS18945at 44.133 kb on + strand, within HMPREF1058_RS18945at 44.133 kb on + strand, within HMPREF1058_RS18945at 44.134 kb on - strand, within HMPREF1058_RS18945at 44.184 kb on - strand, within HMPREF1058_RS18945at 44.184 kb on - strand, within HMPREF1058_RS18945at 44.186 kb on + strand, within HMPREF1058_RS18945at 44.187 kb on - strand, within HMPREF1058_RS18945at 44.205 kb on - strandat 44.246 kb on + strandat 44.324 kb on + strandat 44.324 kb on + strandat 44.348 kb on + strandat 44.348 kb on + strandat 44.349 kb on - strandat 44.360 kb on - strandat 44.428 kb on + strandat 44.430 kb on + strandat 44.430 kb on + strandat 44.441 kb on + strandat 44.534 kb on + strand, within HMPREF1058_RS18940at 44.545 kb on + strand, within HMPREF1058_RS18940at 44.943 kb on + strandat 45.044 kb on - strandat 45.282 kb on + strand, within HMPREF1058_RS18935at 45.319 kb on + strand, within HMPREF1058_RS18935at 45.326 kb on + strand, within HMPREF1058_RS18935at 45.522 kb on + strand, within HMPREF1058_RS18935

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; day2
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43,697 + HMPREF1058_RS18945 0.70 +1.4
43,747 + HMPREF1058_RS18945 0.72 -0.7
43,747 + HMPREF1058_RS18945 0.72 -1.2
43,747 + HMPREF1058_RS18945 0.72 +1.5
43,748 - HMPREF1058_RS18945 0.72 +3.1
43,748 - HMPREF1058_RS18945 0.72 -1.7
43,834 + HMPREF1058_RS18945 0.76 +0.3
43,835 - HMPREF1058_RS18945 0.76 -0.6
43,875 + HMPREF1058_RS18945 0.78 -2.3
43,893 + HMPREF1058_RS18945 0.78 +0.3
43,893 + HMPREF1058_RS18945 0.78 -0.1
43,894 - HMPREF1058_RS18945 0.78 -1.3
43,991 + HMPREF1058_RS18945 0.82 -2.5
43,995 - HMPREF1058_RS18945 0.82 -0.7
44,028 + HMPREF1058_RS18945 0.84 -3.1
44,029 - HMPREF1058_RS18945 0.84 -0.6
44,029 - HMPREF1058_RS18945 0.84 +3.4
44,039 + HMPREF1058_RS18945 0.84 -2.3
44,076 + HMPREF1058_RS18945 0.85 +0.8
44,111 + HMPREF1058_RS18945 0.87 -1.7
44,122 + HMPREF1058_RS18945 0.87 -1.7
44,123 - HMPREF1058_RS18945 0.87 +4.9
44,123 - HMPREF1058_RS18945 0.87 -2.1
44,125 + HMPREF1058_RS18945 0.87 -1.7
44,125 + HMPREF1058_RS18945 0.87 -2.3
44,125 + HMPREF1058_RS18945 0.87 +1.8
44,129 + HMPREF1058_RS18945 0.88 +1.7
44,129 + HMPREF1058_RS18945 0.88 +0.6
44,129 + HMPREF1058_RS18945 0.88 +0.6
44,129 + HMPREF1058_RS18945 0.88 +0.1
44,130 - HMPREF1058_RS18945 0.88 -0.7
44,133 + HMPREF1058_RS18945 0.88 +0.8
44,133 + HMPREF1058_RS18945 0.88 -0.6
44,133 + HMPREF1058_RS18945 0.88 +0.9
44,133 + HMPREF1058_RS18945 0.88 -0.7
44,134 - HMPREF1058_RS18945 0.88 +0.8
44,184 - HMPREF1058_RS18945 0.90 +0.0
44,184 - HMPREF1058_RS18945 0.90 +0.5
44,186 + HMPREF1058_RS18945 0.90 -1.9
44,187 - HMPREF1058_RS18945 0.90 +0.6
44,205 - -2.9
44,246 + +1.3
44,324 + -1.7
44,324 + -1.7
44,348 + +2.4
44,348 + +1.7
44,349 - -2.3
44,360 - +1.8
44,428 + -0.1
44,430 + -0.4
44,430 + +2.4
44,441 + +2.2
44,534 + HMPREF1058_RS18940 0.22 +0.3
44,545 + HMPREF1058_RS18940 0.25 +2.1
44,943 + +0.2
45,044 - -1.7
45,282 + HMPREF1058_RS18935 0.43 -0.7
45,319 + HMPREF1058_RS18935 0.49 +1.8
45,326 + HMPREF1058_RS18935 0.50 +1.9
45,522 + HMPREF1058_RS18935 0.84 +0.1

Or see this region's nucleotide sequence