Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS05640

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; day7

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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_RS05650 and HMPREF1058_RS05645 are separated by 21 nucleotidesHMPREF1058_RS05645 and HMPREF1058_RS05640 are separated by 4 nucleotidesHMPREF1058_RS05640 and HMPREF1058_RS05635 overlap by 4 nucleotidesHMPREF1058_RS05635 and HMPREF1058_RS05630 are separated by 71 nucleotides HMPREF1058_RS05650: HMPREF1058_RS05650 - hypothetical protein, at 111,126 to 111,752 _RS05650 HMPREF1058_RS05645: HMPREF1058_RS05645 - DUF4249 domain-containing protein, at 111,774 to 112,745 _RS05645 HMPREF1058_RS05640: HMPREF1058_RS05640 - TonB-dependent receptor, at 112,750 to 115,314 _RS05640 HMPREF1058_RS05635: HMPREF1058_RS05635 - FecR domain-containing protein, at 115,311 to 116,114 _RS05635 HMPREF1058_RS05630: HMPREF1058_RS05630 - RNA polymerase sigma-70 factor, at 116,186 to 116,701 _RS05630 Position (kb) 112 113 114 115 116Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3 4at 111.762 kb on + strandat 111.848 kb on + strandat 111.850 kb on + strandat 111.851 kb on - strandat 112.079 kb on + strand, within HMPREF1058_RS05645at 112.152 kb on - strand, within HMPREF1058_RS05645at 112.179 kb on + strand, within HMPREF1058_RS05645at 112.255 kb on + strand, within HMPREF1058_RS05645at 112.255 kb on + strand, within HMPREF1058_RS05645at 112.283 kb on + strand, within HMPREF1058_RS05645at 112.414 kb on - strand, within HMPREF1058_RS05645at 112.457 kb on - strand, within HMPREF1058_RS05645at 112.636 kb on + strand, within HMPREF1058_RS05645at 112.639 kb on - strand, within HMPREF1058_RS05645at 112.639 kb on - strand, within HMPREF1058_RS05645at 112.723 kb on - strandat 112.725 kb on + strandat 112.725 kb on + strandat 112.728 kb on - strandat 112.765 kb on - strandat 112.877 kb on + strandat 113.042 kb on - strand, within HMPREF1058_RS05640at 113.104 kb on + strand, within HMPREF1058_RS05640at 113.104 kb on + strand, within HMPREF1058_RS05640at 113.105 kb on - strand, within HMPREF1058_RS05640at 113.145 kb on + strand, within HMPREF1058_RS05640at 113.243 kb on + strand, within HMPREF1058_RS05640at 113.255 kb on + strand, within HMPREF1058_RS05640at 113.260 kb on + strand, within HMPREF1058_RS05640at 113.260 kb on + strand, within HMPREF1058_RS05640at 113.362 kb on + strand, within HMPREF1058_RS05640at 113.374 kb on - strand, within HMPREF1058_RS05640at 113.424 kb on + strand, within HMPREF1058_RS05640at 113.424 kb on + strand, within HMPREF1058_RS05640at 113.425 kb on - strand, within HMPREF1058_RS05640at 113.425 kb on - strand, within HMPREF1058_RS05640at 113.425 kb on - strand, within HMPREF1058_RS05640at 113.426 kb on + strand, within HMPREF1058_RS05640at 113.426 kb on + strand, within HMPREF1058_RS05640at 113.426 kb on + strand, within HMPREF1058_RS05640at 113.427 kb on - strand, within HMPREF1058_RS05640at 113.428 kb on + strand, within HMPREF1058_RS05640at 113.553 kb on - strand, within HMPREF1058_RS05640at 113.621 kb on + strand, within HMPREF1058_RS05640at 113.621 kb on + strand, within HMPREF1058_RS05640at 113.622 kb on - strand, within HMPREF1058_RS05640at 113.651 kb on + strand, within HMPREF1058_RS05640at 113.652 kb on - strand, within HMPREF1058_RS05640at 113.731 kb on - strand, within HMPREF1058_RS05640at 113.732 kb on + strand, within HMPREF1058_RS05640at 113.733 kb on - strand, within HMPREF1058_RS05640at 113.733 kb on - strand, within HMPREF1058_RS05640at 113.806 kb on + strand, within HMPREF1058_RS05640at 113.807 kb on - strand, within HMPREF1058_RS05640at 113.807 kb on - strand, within HMPREF1058_RS05640at 113.807 kb on - strand, within HMPREF1058_RS05640at 113.807 kb on - strand, within HMPREF1058_RS05640at 113.820 kb on - strand, within HMPREF1058_RS05640at 113.837 kb on - strand, within HMPREF1058_RS05640at 113.837 kb on - strand, within HMPREF1058_RS05640at 113.838 kb on + strand, within HMPREF1058_RS05640at 113.978 kb on + strand, within HMPREF1058_RS05640at 113.979 kb on - strand, within HMPREF1058_RS05640at 113.988 kb on + strand, within HMPREF1058_RS05640at 114.617 kb on + strand, within HMPREF1058_RS05640at 114.617 kb on + strand, within HMPREF1058_RS05640at 114.618 kb on - strand, within HMPREF1058_RS05640at 114.618 kb on - strand, within HMPREF1058_RS05640at 114.631 kb on + strand, within HMPREF1058_RS05640at 114.787 kb on + strand, within HMPREF1058_RS05640at 114.808 kb on - strand, within HMPREF1058_RS05640at 114.825 kb on - strand, within HMPREF1058_RS05640at 114.828 kb on + strand, within HMPREF1058_RS05640at 114.828 kb on + strand, within HMPREF1058_RS05640at 114.839 kb on + strand, within HMPREF1058_RS05640at 114.883 kb on + strand, within HMPREF1058_RS05640at 114.883 kb on + strand, within HMPREF1058_RS05640at 114.884 kb on - strand, within HMPREF1058_RS05640at 114.885 kb on + strand, within HMPREF1058_RS05640at 114.886 kb on - strand, within HMPREF1058_RS05640at 115.038 kb on + strand, within HMPREF1058_RS05640at 115.039 kb on - strand, within HMPREF1058_RS05640at 115.040 kb on + strand, within HMPREF1058_RS05640at 115.041 kb on - strand, within HMPREF1058_RS05640at 115.067 kb on + strandat 115.199 kb on - strandat 115.280 kb on - strandat 115.288 kb on + strandat 115.418 kb on + strand, within HMPREF1058_RS05635at 115.528 kb on - strand, within HMPREF1058_RS05635at 115.637 kb on + strand, within HMPREF1058_RS05635at 115.859 kb on + strand, within HMPREF1058_RS05635at 115.860 kb on - strand, within HMPREF1058_RS05635at 115.860 kb on - strand, within HMPREF1058_RS05635at 115.861 kb on + strand, within HMPREF1058_RS05635at 115.861 kb on + strand, within HMPREF1058_RS05635at 115.929 kb on - strand, within HMPREF1058_RS05635at 115.929 kb on - strand, within HMPREF1058_RS05635at 116.136 kb on + strandat 116.137 kb on - strandat 116.267 kb on - strand, within HMPREF1058_RS05630at 116.294 kb on + strand, within HMPREF1058_RS05630at 116.303 kb on - strand, within HMPREF1058_RS05630

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; day7
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111,762 + +1.5
111,848 + +0.6
111,850 + -2.1
111,851 - -4.1
112,079 + HMPREF1058_RS05645 0.31 -4.0
112,152 - HMPREF1058_RS05645 0.39 -0.5
112,179 + HMPREF1058_RS05645 0.42 +1.1
112,255 + HMPREF1058_RS05645 0.49 -0.1
112,255 + HMPREF1058_RS05645 0.49 +0.0
112,283 + HMPREF1058_RS05645 0.52 +0.4
112,414 - HMPREF1058_RS05645 0.66 -3.6
112,457 - HMPREF1058_RS05645 0.70 -0.4
112,636 + HMPREF1058_RS05645 0.89 +2.4
112,639 - HMPREF1058_RS05645 0.89 +1.0
112,639 - HMPREF1058_RS05645 0.89 -1.8
112,723 - +2.0
112,725 + +0.0
112,725 + -1.0
112,728 - -0.3
112,765 - -0.4
112,877 + -0.6
113,042 - HMPREF1058_RS05640 0.11 +0.4
113,104 + HMPREF1058_RS05640 0.14 -1.4
113,104 + HMPREF1058_RS05640 0.14 -0.1
113,105 - HMPREF1058_RS05640 0.14 +0.6
113,145 + HMPREF1058_RS05640 0.15 +0.4
113,243 + HMPREF1058_RS05640 0.19 -3.3
113,255 + HMPREF1058_RS05640 0.20 -0.4
113,260 + HMPREF1058_RS05640 0.20 +0.9
113,260 + HMPREF1058_RS05640 0.20 -0.3
113,362 + HMPREF1058_RS05640 0.24 +0.3
113,374 - HMPREF1058_RS05640 0.24 -2.0
113,424 + HMPREF1058_RS05640 0.26 -2.8
113,424 + HMPREF1058_RS05640 0.26 +0.6
113,425 - HMPREF1058_RS05640 0.26 -1.7
113,425 - HMPREF1058_RS05640 0.26 -0.5
113,425 - HMPREF1058_RS05640 0.26 -3.0
113,426 + HMPREF1058_RS05640 0.26 -1.7
113,426 + HMPREF1058_RS05640 0.26 +0.6
113,426 + HMPREF1058_RS05640 0.26 -1.4
113,427 - HMPREF1058_RS05640 0.26 -0.4
113,428 + HMPREF1058_RS05640 0.26 -0.2
113,553 - HMPREF1058_RS05640 0.31 +3.0
113,621 + HMPREF1058_RS05640 0.34 -0.5
113,621 + HMPREF1058_RS05640 0.34 +0.8
113,622 - HMPREF1058_RS05640 0.34 +2.4
113,651 + HMPREF1058_RS05640 0.35 -0.5
113,652 - HMPREF1058_RS05640 0.35 -0.7
113,731 - HMPREF1058_RS05640 0.38 +0.0
113,732 + HMPREF1058_RS05640 0.38 +2.1
113,733 - HMPREF1058_RS05640 0.38 -3.8
113,733 - HMPREF1058_RS05640 0.38 -1.1
113,806 + HMPREF1058_RS05640 0.41 +2.0
113,807 - HMPREF1058_RS05640 0.41 +2.2
113,807 - HMPREF1058_RS05640 0.41 -0.1
113,807 - HMPREF1058_RS05640 0.41 -0.5
113,807 - HMPREF1058_RS05640 0.41 +0.2
113,820 - HMPREF1058_RS05640 0.42 -3.1
113,837 - HMPREF1058_RS05640 0.42 -1.8
113,837 - HMPREF1058_RS05640 0.42 +0.4
113,838 + HMPREF1058_RS05640 0.42 +1.3
113,978 + HMPREF1058_RS05640 0.48 +0.8
113,979 - HMPREF1058_RS05640 0.48 -0.1
113,988 + HMPREF1058_RS05640 0.48 +1.2
114,617 + HMPREF1058_RS05640 0.73 +0.9
114,617 + HMPREF1058_RS05640 0.73 +1.9
114,618 - HMPREF1058_RS05640 0.73 -2.3
114,618 - HMPREF1058_RS05640 0.73 -0.1
114,631 + HMPREF1058_RS05640 0.73 +0.2
114,787 + HMPREF1058_RS05640 0.79 -0.4
114,808 - HMPREF1058_RS05640 0.80 +0.6
114,825 - HMPREF1058_RS05640 0.81 +1.6
114,828 + HMPREF1058_RS05640 0.81 +0.6
114,828 + HMPREF1058_RS05640 0.81 +1.9
114,839 + HMPREF1058_RS05640 0.81 -0.0
114,883 + HMPREF1058_RS05640 0.83 +0.4
114,883 + HMPREF1058_RS05640 0.83 -0.8
114,884 - HMPREF1058_RS05640 0.83 -0.5
114,885 + HMPREF1058_RS05640 0.83 +0.8
114,886 - HMPREF1058_RS05640 0.83 +4.0
115,038 + HMPREF1058_RS05640 0.89 +1.4
115,039 - HMPREF1058_RS05640 0.89 +1.2
115,040 + HMPREF1058_RS05640 0.89 +1.2
115,041 - HMPREF1058_RS05640 0.89 +3.0
115,067 + +0.6
115,199 - +0.7
115,280 - +0.5
115,288 + +0.0
115,418 + HMPREF1058_RS05635 0.13 +1.2
115,528 - HMPREF1058_RS05635 0.27 +0.6
115,637 + HMPREF1058_RS05635 0.41 -1.5
115,859 + HMPREF1058_RS05635 0.68 +1.5
115,860 - HMPREF1058_RS05635 0.68 -0.2
115,860 - HMPREF1058_RS05635 0.68 -0.4
115,861 + HMPREF1058_RS05635 0.68 -0.4
115,861 + HMPREF1058_RS05635 0.68 +1.0
115,929 - HMPREF1058_RS05635 0.77 -1.7
115,929 - HMPREF1058_RS05635 0.77 -2.0
116,136 + -1.7
116,137 - -1.7
116,267 - HMPREF1058_RS05630 0.16 -0.4
116,294 + HMPREF1058_RS05630 0.21 -0.4
116,303 - HMPREF1058_RS05630 0.23 +2.4

Or see this region's nucleotide sequence