Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS03910

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4

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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_RS03915 and HMPREF1058_RS03910 are separated by 3 nucleotidesHMPREF1058_RS03910 and HMPREF1058_RS03905 are separated by 28 nucleotidesHMPREF1058_RS03905 and HMPREF1058_RS03900 are separated by 36 nucleotides HMPREF1058_RS03915: HMPREF1058_RS03915 - hypothetical protein, at 158,726 to 159,877 _RS03915 HMPREF1058_RS03910: HMPREF1058_RS03910 - alpha amylase C-terminal domain-containing protein, at 159,881 to 161,908 _RS03910 HMPREF1058_RS03905: HMPREF1058_RS03905 - YhcH/YjgK/YiaL family protein, at 161,937 to 162,377 _RS03905 HMPREF1058_RS03900: HMPREF1058_RS03900 - DUF2461 domain-containing protein, at 162,414 to 163,079 _RS03900 Position (kb) 159 160 161 162Strain fitness (log2 ratio) -4 -3 -2 -1 0 1at 158.932 kb on + strand, within HMPREF1058_RS03915at 158.933 kb on - strand, within HMPREF1058_RS03915at 158.953 kb on + strand, within HMPREF1058_RS03915at 158.954 kb on - strand, within HMPREF1058_RS03915at 159.007 kb on + strand, within HMPREF1058_RS03915at 159.008 kb on - strand, within HMPREF1058_RS03915at 159.105 kb on + strand, within HMPREF1058_RS03915at 159.106 kb on - strand, within HMPREF1058_RS03915at 159.112 kb on - strand, within HMPREF1058_RS03915at 159.118 kb on + strand, within HMPREF1058_RS03915at 159.180 kb on + strand, within HMPREF1058_RS03915at 159.184 kb on - strand, within HMPREF1058_RS03915at 159.232 kb on + strand, within HMPREF1058_RS03915at 159.233 kb on - strand, within HMPREF1058_RS03915at 159.233 kb on - strand, within HMPREF1058_RS03915at 159.371 kb on + strand, within HMPREF1058_RS03915at 159.372 kb on - strand, within HMPREF1058_RS03915at 159.407 kb on - strand, within HMPREF1058_RS03915at 159.481 kb on + strand, within HMPREF1058_RS03915at 159.494 kb on + strand, within HMPREF1058_RS03915at 159.497 kb on - strand, within HMPREF1058_RS03915at 159.497 kb on - strand, within HMPREF1058_RS03915at 159.498 kb on + strand, within HMPREF1058_RS03915at 159.498 kb on + strand, within HMPREF1058_RS03915at 159.498 kb on + strand, within HMPREF1058_RS03915at 159.498 kb on + strand, within HMPREF1058_RS03915at 159.499 kb on - strand, within HMPREF1058_RS03915at 159.499 kb on - strand, within HMPREF1058_RS03915at 159.499 kb on - strand, within HMPREF1058_RS03915at 159.500 kb on + strand, within HMPREF1058_RS03915at 159.500 kb on + strand, within HMPREF1058_RS03915at 159.501 kb on - strand, within HMPREF1058_RS03915at 159.501 kb on - strand, within HMPREF1058_RS03915at 159.501 kb on - strand, within HMPREF1058_RS03915at 159.535 kb on + strand, within HMPREF1058_RS03915at 159.677 kb on + strand, within HMPREF1058_RS03915at 159.695 kb on - strand, within HMPREF1058_RS03915at 159.758 kb on + strand, within HMPREF1058_RS03915at 159.762 kb on - strandat 159.794 kb on - strandat 159.853 kb on - strandat 159.927 kb on + strandat 159.928 kb on - strandat 159.950 kb on - strandat 159.958 kb on + strandat 159.959 kb on - strandat 159.990 kb on - strandat 159.990 kb on - strandat 160.054 kb on - strandat 160.054 kb on - strandat 160.173 kb on - strand, within HMPREF1058_RS03910at 160.307 kb on - strand, within HMPREF1058_RS03910at 160.307 kb on - strand, within HMPREF1058_RS03910at 160.384 kb on - strand, within HMPREF1058_RS03910at 160.427 kb on - strand, within HMPREF1058_RS03910at 160.485 kb on + strand, within HMPREF1058_RS03910at 160.486 kb on - strand, within HMPREF1058_RS03910at 160.500 kb on - strand, within HMPREF1058_RS03910at 160.516 kb on + strand, within HMPREF1058_RS03910at 160.517 kb on - strand, within HMPREF1058_RS03910at 160.565 kb on - strandat 160.669 kb on + strand, within HMPREF1058_RS03910at 160.775 kb on + strand, within HMPREF1058_RS03910at 160.840 kb on + strand, within HMPREF1058_RS03910at 160.845 kb on + strand, within HMPREF1058_RS03910at 160.858 kb on + strand, within HMPREF1058_RS03910at 160.991 kb on - strand, within HMPREF1058_RS03910at 161.053 kb on - strand, within HMPREF1058_RS03910at 161.150 kb on - strand, within HMPREF1058_RS03910at 161.244 kb on + strand, within HMPREF1058_RS03910at 161.247 kb on + strand, within HMPREF1058_RS03910at 161.270 kb on - strand, within HMPREF1058_RS03910at 161.285 kb on - strand, within HMPREF1058_RS03910at 161.285 kb on - strand, within HMPREF1058_RS03910at 161.301 kb on - strand, within HMPREF1058_RS03910at 161.335 kb on - strand, within HMPREF1058_RS03910at 161.383 kb on - strand, within HMPREF1058_RS03910at 161.490 kb on - strand, within HMPREF1058_RS03910at 161.574 kb on - strand, within HMPREF1058_RS03910at 161.574 kb on - strand, within HMPREF1058_RS03910at 161.621 kb on + strand, within HMPREF1058_RS03910at 161.629 kb on - strand, within HMPREF1058_RS03910at 161.629 kb on - strand, within HMPREF1058_RS03910at 161.751 kb on - strandat 161.877 kb on - strandat 161.900 kb on - strandat 161.911 kb on + strandat 161.911 kb on + strandat 161.912 kb on - strandat 161.925 kb on - strandat 162.044 kb on + strand, within HMPREF1058_RS03905at 162.047 kb on - strand, within HMPREF1058_RS03905at 162.095 kb on - strand, within HMPREF1058_RS03905at 162.095 kb on - strand, within HMPREF1058_RS03905at 162.095 kb on - strand, within HMPREF1058_RS03905at 162.125 kb on + strand, within HMPREF1058_RS03905at 162.125 kb on + strand, within HMPREF1058_RS03905at 162.125 kb on + strand, within HMPREF1058_RS03905at 162.126 kb on - strand, within HMPREF1058_RS03905at 162.163 kb on - strand, within HMPREF1058_RS03905at 162.189 kb on + strand, within HMPREF1058_RS03905at 162.235 kb on - strand, within HMPREF1058_RS03905at 162.293 kb on + strand, within HMPREF1058_RS03905at 162.369 kb on + strandat 162.370 kb on - strandat 162.378 kb on - strandat 162.381 kb on + strandat 162.483 kb on + strand, within HMPREF1058_RS03900at 162.530 kb on + strand, within HMPREF1058_RS03900at 162.531 kb on - strand, within HMPREF1058_RS03900at 162.533 kb on - strand, within HMPREF1058_RS03900at 162.533 kb on - strand, within HMPREF1058_RS03900at 162.533 kb on - strand, within HMPREF1058_RS03900at 162.533 kb on - strand, within HMPREF1058_RS03900at 162.543 kb on - strand, within HMPREF1058_RS03900at 162.543 kb on - strand, within HMPREF1058_RS03900at 162.545 kb on - strand, within HMPREF1058_RS03900at 162.552 kb on - strand, within HMPREF1058_RS03900at 162.569 kb on + strand, within HMPREF1058_RS03900at 162.674 kb on - strand, within HMPREF1058_RS03900at 162.722 kb on + strand, within HMPREF1058_RS03900at 162.722 kb on + strand, within HMPREF1058_RS03900at 162.755 kb on + strand, within HMPREF1058_RS03900at 162.756 kb on - strand, within HMPREF1058_RS03900at 162.772 kb on - strand, within HMPREF1058_RS03900at 162.773 kb on + strand, within HMPREF1058_RS03900at 162.781 kb on + strand, within HMPREF1058_RS03900at 162.781 kb on + strand, within HMPREF1058_RS03900at 162.838 kb on - strand, within HMPREF1058_RS03900at 162.842 kb on + strand, within HMPREF1058_RS03900at 162.843 kb on - strand, within HMPREF1058_RS03900at 162.843 kb on - strand, within HMPREF1058_RS03900

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4
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158,932 + HMPREF1058_RS03915 0.18 -2.1
158,933 - HMPREF1058_RS03915 0.18 -2.6
158,953 + HMPREF1058_RS03915 0.20 -1.6
158,954 - HMPREF1058_RS03915 0.20 -2.8
159,007 + HMPREF1058_RS03915 0.24 -0.4
159,008 - HMPREF1058_RS03915 0.24 -1.4
159,105 + HMPREF1058_RS03915 0.33 -3.0
159,106 - HMPREF1058_RS03915 0.33 -0.7
159,112 - HMPREF1058_RS03915 0.34 -0.8
159,118 + HMPREF1058_RS03915 0.34 +1.1
159,180 + HMPREF1058_RS03915 0.39 -0.8
159,184 - HMPREF1058_RS03915 0.40 -0.8
159,232 + HMPREF1058_RS03915 0.44 -2.1
159,233 - HMPREF1058_RS03915 0.44 -2.8
159,233 - HMPREF1058_RS03915 0.44 -1.4
159,371 + HMPREF1058_RS03915 0.56 -2.6
159,372 - HMPREF1058_RS03915 0.56 +0.2
159,407 - HMPREF1058_RS03915 0.59 -2.1
159,481 + HMPREF1058_RS03915 0.66 +0.2
159,494 + HMPREF1058_RS03915 0.67 -1.8
159,497 - HMPREF1058_RS03915 0.67 -1.8
159,497 - HMPREF1058_RS03915 0.67 -0.8
159,498 + HMPREF1058_RS03915 0.67 -1.7
159,498 + HMPREF1058_RS03915 0.67 -2.1
159,498 + HMPREF1058_RS03915 0.67 -1.2
159,498 + HMPREF1058_RS03915 0.67 -1.4
159,499 - HMPREF1058_RS03915 0.67 -1.7
159,499 - HMPREF1058_RS03915 0.67 -1.1
159,499 - HMPREF1058_RS03915 0.67 -2.6
159,500 + HMPREF1058_RS03915 0.67 -0.8
159,500 + HMPREF1058_RS03915 0.67 -0.8
159,501 - HMPREF1058_RS03915 0.67 -2.1
159,501 - HMPREF1058_RS03915 0.67 +0.0
159,501 - HMPREF1058_RS03915 0.67 -2.2
159,535 + HMPREF1058_RS03915 0.70 -1.8
159,677 + HMPREF1058_RS03915 0.83 -1.8
159,695 - HMPREF1058_RS03915 0.84 -2.6
159,758 + HMPREF1058_RS03915 0.90 -3.1
159,762 - -1.4
159,794 - -1.4
159,853 - -1.9
159,927 + +0.2
159,928 - -3.1
159,950 - -2.6
159,958 + +0.2
159,959 - -1.8
159,990 - -0.8
159,990 - -3.5
160,054 - +0.2
160,054 - -3.7
160,173 - HMPREF1058_RS03910 0.14 -3.1
160,307 - HMPREF1058_RS03910 0.21 -2.8
160,307 - HMPREF1058_RS03910 0.21 -2.8
160,384 - HMPREF1058_RS03910 0.25 -0.8
160,427 - HMPREF1058_RS03910 0.27 +0.2
160,485 + HMPREF1058_RS03910 0.30 -1.4
160,486 - HMPREF1058_RS03910 0.30 -1.4
160,500 - HMPREF1058_RS03910 0.31 -2.4
160,516 + HMPREF1058_RS03910 0.31 -0.8
160,517 - HMPREF1058_RS03910 0.31 -2.6
160,565 - -1.4
160,669 + HMPREF1058_RS03910 0.39 -3.0
160,775 + HMPREF1058_RS03910 0.44 +0.2
160,840 + HMPREF1058_RS03910 0.47 -3.7
160,845 + HMPREF1058_RS03910 0.48 -1.4
160,858 + HMPREF1058_RS03910 0.48 -3.4
160,991 - HMPREF1058_RS03910 0.55 -2.8
161,053 - HMPREF1058_RS03910 0.58 -2.1
161,150 - HMPREF1058_RS03910 0.63 -3.1
161,244 + HMPREF1058_RS03910 0.67 -0.8
161,247 + HMPREF1058_RS03910 0.67 -0.8
161,270 - HMPREF1058_RS03910 0.68 -3.6
161,285 - HMPREF1058_RS03910 0.69 -2.1
161,285 - HMPREF1058_RS03910 0.69 -2.4
161,301 - HMPREF1058_RS03910 0.70 -2.4
161,335 - HMPREF1058_RS03910 0.72 -2.1
161,383 - HMPREF1058_RS03910 0.74 -0.8
161,490 - HMPREF1058_RS03910 0.79 -1.8
161,574 - HMPREF1058_RS03910 0.83 -2.8
161,574 - HMPREF1058_RS03910 0.83 -3.8
161,621 + HMPREF1058_RS03910 0.86 +0.2
161,629 - HMPREF1058_RS03910 0.86 -0.8
161,629 - HMPREF1058_RS03910 0.86 -2.4
161,751 - -1.4
161,877 - -1.8
161,900 - -3.2
161,911 + -1.4
161,911 + -2.4
161,912 - -1.8
161,925 - -0.0
162,044 + HMPREF1058_RS03905 0.24 -3.4
162,047 - HMPREF1058_RS03905 0.25 +1.1
162,095 - HMPREF1058_RS03905 0.36 +1.0
162,095 - HMPREF1058_RS03905 0.36 +0.9
162,095 - HMPREF1058_RS03905 0.36 -0.5
162,125 + HMPREF1058_RS03905 0.43 -1.4
162,125 + HMPREF1058_RS03905 0.43 -4.4
162,125 + HMPREF1058_RS03905 0.43 +0.2
162,126 - HMPREF1058_RS03905 0.43 +0.5
162,163 - HMPREF1058_RS03905 0.51 -1.8
162,189 + HMPREF1058_RS03905 0.57 -0.8
162,235 - HMPREF1058_RS03905 0.68 -1.5
162,293 + HMPREF1058_RS03905 0.81 -1.4
162,369 + -1.4
162,370 - +0.9
162,378 - -0.9
162,381 + -1.4
162,483 + HMPREF1058_RS03900 0.10 -1.4
162,530 + HMPREF1058_RS03900 0.17 -1.8
162,531 - HMPREF1058_RS03900 0.18 +0.2
162,533 - HMPREF1058_RS03900 0.18 +1.2
162,533 - HMPREF1058_RS03900 0.18 +1.4
162,533 - HMPREF1058_RS03900 0.18 -0.7
162,533 - HMPREF1058_RS03900 0.18 +0.8
162,543 - HMPREF1058_RS03900 0.19 +0.2
162,543 - HMPREF1058_RS03900 0.19 +0.0
162,545 - HMPREF1058_RS03900 0.20 +0.7
162,552 - HMPREF1058_RS03900 0.21 +0.2
162,569 + HMPREF1058_RS03900 0.23 -2.6
162,674 - HMPREF1058_RS03900 0.39 -1.8
162,722 + HMPREF1058_RS03900 0.46 -1.8
162,722 + HMPREF1058_RS03900 0.46 -0.8
162,755 + HMPREF1058_RS03900 0.51 -2.8
162,756 - HMPREF1058_RS03900 0.51 +0.9
162,772 - HMPREF1058_RS03900 0.54 -0.8
162,773 + HMPREF1058_RS03900 0.54 -1.4
162,781 + HMPREF1058_RS03900 0.55 -1.4
162,781 + HMPREF1058_RS03900 0.55 -3.2
162,838 - HMPREF1058_RS03900 0.64 +0.7
162,842 + HMPREF1058_RS03900 0.64 -2.6
162,843 - HMPREF1058_RS03900 0.64 +0.6
162,843 - HMPREF1058_RS03900 0.64 -0.8

Or see this region's nucleotide sequence