Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS12640

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse14; day3

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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_RS12645 and HMPREF1058_RS12640 are separated by 24 nucleotidesHMPREF1058_RS12640 and HMPREF1058_RS12635 are separated by 304 nucleotidesHMPREF1058_RS12635 and HMPREF1058_RS12630 are separated by 11 nucleotides HMPREF1058_RS12645: HMPREF1058_RS12645 - outer membrane beta-barrel protein, at 64,665 to 66,971 _RS12645 HMPREF1058_RS12640: HMPREF1058_RS12640 - hypothetical protein, at 66,996 to 67,334 _RS12640 HMPREF1058_RS12635: HMPREF1058_RS12635 - DUF3784 domain-containing protein, at 67,639 to 67,956 _RS12635 HMPREF1058_RS12630: HMPREF1058_RS12630 - Fic family protein, at 67,968 to 68,447 _RS12630 Position (kb) 66 67 68Strain fitness (log2 ratio) -2 -1 0 1 2at 66.014 kb on + strand, within HMPREF1058_RS12645at 66.014 kb on + strand, within HMPREF1058_RS12645at 66.044 kb on - strand, within HMPREF1058_RS12645at 66.048 kb on + strand, within HMPREF1058_RS12645at 66.049 kb on - strand, within HMPREF1058_RS12645at 66.054 kb on + strand, within HMPREF1058_RS12645at 66.065 kb on - strand, within HMPREF1058_RS12645at 66.072 kb on - strand, within HMPREF1058_RS12645at 66.103 kb on - strand, within HMPREF1058_RS12645at 66.123 kb on - strand, within HMPREF1058_RS12645at 66.221 kb on + strand, within HMPREF1058_RS12645at 66.256 kb on - strand, within HMPREF1058_RS12645at 66.298 kb on + strand, within HMPREF1058_RS12645at 66.299 kb on - strand, within HMPREF1058_RS12645at 66.299 kb on - strand, within HMPREF1058_RS12645at 66.411 kb on + strand, within HMPREF1058_RS12645at 66.481 kb on + strand, within HMPREF1058_RS12645at 66.482 kb on - strand, within HMPREF1058_RS12645at 66.482 kb on - strand, within HMPREF1058_RS12645at 66.545 kb on + strand, within HMPREF1058_RS12645at 66.546 kb on - strand, within HMPREF1058_RS12645at 66.546 kb on - strand, within HMPREF1058_RS12645at 66.546 kb on - strand, within HMPREF1058_RS12645at 66.652 kb on - strand, within HMPREF1058_RS12645at 66.737 kb on + strand, within HMPREF1058_RS12645at 66.737 kb on + strand, within HMPREF1058_RS12645at 66.779 kb on + strandat 66.779 kb on + strandat 66.884 kb on + strandat 66.895 kb on - strandat 66.967 kb on + strandat 66.990 kb on + strandat 66.990 kb on + strandat 66.991 kb on - strandat 67.189 kb on + strand, within HMPREF1058_RS12640at 67.189 kb on + strand, within HMPREF1058_RS12640at 67.206 kb on + strand, within HMPREF1058_RS12640at 67.227 kb on + strand, within HMPREF1058_RS12640at 67.228 kb on - strand, within HMPREF1058_RS12640at 67.287 kb on + strand, within HMPREF1058_RS12640at 67.305 kb on + strandat 67.311 kb on + strandat 67.312 kb on - strandat 67.319 kb on - strandat 67.323 kb on + strandat 67.337 kb on + strandat 67.338 kb on - strandat 67.425 kb on - strandat 67.438 kb on + strandat 67.443 kb on + strandat 67.444 kb on - strandat 67.449 kb on + strandat 67.465 kb on + strandat 67.480 kb on + strandat 67.481 kb on - strandat 67.570 kb on - strandat 67.570 kb on - strandat 67.637 kb on - strandat 67.673 kb on - strand, within HMPREF1058_RS12635at 67.680 kb on + strand, within HMPREF1058_RS12635at 67.680 kb on + strand, within HMPREF1058_RS12635at 67.680 kb on + strand, within HMPREF1058_RS12635at 67.682 kb on + strand, within HMPREF1058_RS12635at 67.682 kb on + strand, within HMPREF1058_RS12635at 67.683 kb on - strand, within HMPREF1058_RS12635at 67.702 kb on + strand, within HMPREF1058_RS12635at 67.767 kb on - strand, within HMPREF1058_RS12635at 67.934 kb on - strandat 67.958 kb on + strandat 67.958 kb on + strandat 67.959 kb on - strandat 67.960 kb on + strandat 67.961 kb on - strandat 67.961 kb on - strandat 67.961 kb on - strandat 67.961 kb on - strandat 67.961 kb on - strandat 67.970 kb on - strandat 67.970 kb on - strandat 68.007 kb on - strandat 68.112 kb on - strand, within HMPREF1058_RS12630at 68.114 kb on - strand, within HMPREF1058_RS12630at 68.114 kb on - strand, within HMPREF1058_RS12630at 68.114 kb on - strand, within HMPREF1058_RS12630at 68.174 kb on - strand, within HMPREF1058_RS12630at 68.237 kb on + strand, within HMPREF1058_RS12630at 68.249 kb on + strand, within HMPREF1058_RS12630

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse14; day3
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66,014 + HMPREF1058_RS12645 0.58 +1.0
66,014 + HMPREF1058_RS12645 0.58 +0.4
66,044 - HMPREF1058_RS12645 0.60 -0.2
66,048 + HMPREF1058_RS12645 0.60 -0.1
66,049 - HMPREF1058_RS12645 0.60 +0.5
66,054 + HMPREF1058_RS12645 0.60 -0.9
66,065 - HMPREF1058_RS12645 0.61 +0.3
66,072 - HMPREF1058_RS12645 0.61 +0.7
66,103 - HMPREF1058_RS12645 0.62 -0.1
66,123 - HMPREF1058_RS12645 0.63 +0.2
66,221 + HMPREF1058_RS12645 0.67 -0.4
66,256 - HMPREF1058_RS12645 0.69 +0.3
66,298 + HMPREF1058_RS12645 0.71 +0.8
66,299 - HMPREF1058_RS12645 0.71 -2.0
66,299 - HMPREF1058_RS12645 0.71 -2.3
66,411 + HMPREF1058_RS12645 0.76 +0.1
66,481 + HMPREF1058_RS12645 0.79 +0.2
66,482 - HMPREF1058_RS12645 0.79 -1.6
66,482 - HMPREF1058_RS12645 0.79 -0.0
66,545 + HMPREF1058_RS12645 0.81 +0.2
66,546 - HMPREF1058_RS12645 0.82 -1.3
66,546 - HMPREF1058_RS12645 0.82 -1.2
66,546 - HMPREF1058_RS12645 0.82 +0.3
66,652 - HMPREF1058_RS12645 0.86 +0.8
66,737 + HMPREF1058_RS12645 0.90 -1.5
66,737 + HMPREF1058_RS12645 0.90 +0.2
66,779 + +0.1
66,779 + -0.1
66,884 + +0.4
66,895 - -0.1
66,967 + -0.1
66,990 + -0.5
66,990 + +0.2
66,991 - -0.6
67,189 + HMPREF1058_RS12640 0.57 +0.8
67,189 + HMPREF1058_RS12640 0.57 +0.5
67,206 + HMPREF1058_RS12640 0.62 +0.2
67,227 + HMPREF1058_RS12640 0.68 +0.4
67,228 - HMPREF1058_RS12640 0.68 +0.5
67,287 + HMPREF1058_RS12640 0.86 +1.1
67,305 + +0.1
67,311 + +0.5
67,312 - -1.6
67,319 - +0.4
67,323 + -0.0
67,337 + -0.1
67,338 - +0.2
67,425 - -0.5
67,438 + -0.4
67,443 + +0.3
67,444 - +1.2
67,449 + -0.3
67,465 + +0.6
67,480 + +0.1
67,481 - -0.2
67,570 - -1.0
67,570 - +0.3
67,637 - +2.5
67,673 - HMPREF1058_RS12635 0.11 -0.3
67,680 + HMPREF1058_RS12635 0.13 -0.4
67,680 + HMPREF1058_RS12635 0.13 +0.6
67,680 + HMPREF1058_RS12635 0.13 +0.6
67,682 + HMPREF1058_RS12635 0.14 +1.1
67,682 + HMPREF1058_RS12635 0.14 -0.0
67,683 - HMPREF1058_RS12635 0.14 -0.2
67,702 + HMPREF1058_RS12635 0.20 +0.3
67,767 - HMPREF1058_RS12635 0.40 -0.1
67,934 - -0.3
67,958 + +0.9
67,958 + -0.5
67,959 - -1.9
67,960 + -0.2
67,961 - +0.2
67,961 - -1.2
67,961 - +0.2
67,961 - +0.0
67,961 - +0.1
67,970 - +0.3
67,970 - -2.5
68,007 - +0.9
68,112 - HMPREF1058_RS12630 0.30 +0.5
68,114 - HMPREF1058_RS12630 0.30 +0.1
68,114 - HMPREF1058_RS12630 0.30 +0.0
68,114 - HMPREF1058_RS12630 0.30 -0.8
68,174 - HMPREF1058_RS12630 0.43 +1.1
68,237 + HMPREF1058_RS12630 0.56 +0.3
68,249 + HMPREF1058_RS12630 0.59 +0.2

Or see this region's nucleotide sequence