Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS01590

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; 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_RS01595 and HMPREF1058_RS01590 are separated by 88 nucleotidesHMPREF1058_RS01590 and HMPREF1058_RS01585 are separated by 325 nucleotides HMPREF1058_RS01595: HMPREF1058_RS01595 - TlpA family protein disulfide reductase, at 83,862 to 85,061 _RS01595 HMPREF1058_RS01590: HMPREF1058_RS01590 - glucuronate isomerase, at 85,150 to 86,556 _RS01590 HMPREF1058_RS01585: HMPREF1058_RS01585 - tagaturonate reductase, at 86,882 to 88,321 _RS01585 Position (kb) 85 86 87Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 84.157 kb on + strand, within HMPREF1058_RS01595at 84.266 kb on + strand, within HMPREF1058_RS01595at 84.267 kb on - strand, within HMPREF1058_RS01595at 84.301 kb on + strand, within HMPREF1058_RS01595at 84.302 kb on - strand, within HMPREF1058_RS01595at 84.302 kb on - strand, within HMPREF1058_RS01595at 84.302 kb on - strand, within HMPREF1058_RS01595at 84.302 kb on - strand, within HMPREF1058_RS01595at 84.305 kb on + strand, within HMPREF1058_RS01595at 84.331 kb on - strand, within HMPREF1058_RS01595at 84.342 kb on - strand, within HMPREF1058_RS01595at 84.362 kb on + strand, within HMPREF1058_RS01595at 84.418 kb on + strand, within HMPREF1058_RS01595at 84.418 kb on + strand, within HMPREF1058_RS01595at 84.435 kb on + strand, within HMPREF1058_RS01595at 84.473 kb on + strand, within HMPREF1058_RS01595at 84.474 kb on - strand, within HMPREF1058_RS01595at 84.500 kb on + strand, within HMPREF1058_RS01595at 84.501 kb on - strand, within HMPREF1058_RS01595at 84.501 kb on - strand, within HMPREF1058_RS01595at 84.521 kb on + strand, within HMPREF1058_RS01595at 84.532 kb on + strand, within HMPREF1058_RS01595at 84.585 kb on + strand, within HMPREF1058_RS01595at 84.679 kb on + strand, within HMPREF1058_RS01595at 84.717 kb on - strand, within HMPREF1058_RS01595at 84.734 kb on + strand, within HMPREF1058_RS01595at 84.735 kb on - strand, within HMPREF1058_RS01595at 84.802 kb on - strand, within HMPREF1058_RS01595at 84.891 kb on + strand, within HMPREF1058_RS01595at 84.892 kb on - strand, within HMPREF1058_RS01595at 84.984 kb on - strandat 85.130 kb on - strandat 85.179 kb on + strandat 85.179 kb on + strandat 85.188 kb on + strandat 85.333 kb on - strand, within HMPREF1058_RS01590at 85.336 kb on + strand, within HMPREF1058_RS01590at 85.484 kb on - strand, within HMPREF1058_RS01590at 85.511 kb on + strand, within HMPREF1058_RS01590at 85.512 kb on - strand, within HMPREF1058_RS01590at 85.711 kb on + strand, within HMPREF1058_RS01590at 85.712 kb on - strand, within HMPREF1058_RS01590at 85.712 kb on - strand, within HMPREF1058_RS01590at 85.774 kb on + strand, within HMPREF1058_RS01590at 85.774 kb on + strand, within HMPREF1058_RS01590at 85.774 kb on + strand, within HMPREF1058_RS01590at 85.775 kb on - strand, within HMPREF1058_RS01590at 85.775 kb on - strand, within HMPREF1058_RS01590at 85.775 kb on - strand, within HMPREF1058_RS01590at 85.775 kb on - strand, within HMPREF1058_RS01590at 85.783 kb on - strand, within HMPREF1058_RS01590at 85.787 kb on - strand, within HMPREF1058_RS01590at 85.788 kb on + strand, within HMPREF1058_RS01590at 85.824 kb on - strand, within HMPREF1058_RS01590at 85.937 kb on - strand, within HMPREF1058_RS01590at 85.958 kb on + strand, within HMPREF1058_RS01590at 85.958 kb on + strand, within HMPREF1058_RS01590at 85.959 kb on - strand, within HMPREF1058_RS01590at 85.959 kb on - strand, within HMPREF1058_RS01590at 86.092 kb on - strandat 86.252 kb on + strand, within HMPREF1058_RS01590at 86.253 kb on - strand, within HMPREF1058_RS01590at 86.253 kb on - strand, within HMPREF1058_RS01590at 86.271 kb on + strand, within HMPREF1058_RS01590at 86.272 kb on - strand, within HMPREF1058_RS01590at 86.273 kb on + strand, within HMPREF1058_RS01590at 86.376 kb on + strand, within HMPREF1058_RS01590at 86.377 kb on - strand, within HMPREF1058_RS01590at 86.379 kb on - strand, within HMPREF1058_RS01590at 86.469 kb on + strandat 86.869 kb on + strandat 86.871 kb on + strandat 86.987 kb on + strandat 86.988 kb on - strandat 86.988 kb on - strandat 86.988 kb on - strandat 87.094 kb on - strand, within HMPREF1058_RS01585at 87.094 kb on - strand, within HMPREF1058_RS01585at 87.229 kb on + strand, within HMPREF1058_RS01585at 87.236 kb on - strand, within HMPREF1058_RS01585at 87.437 kb on + strand, within HMPREF1058_RS01585at 87.438 kb on - strand, within HMPREF1058_RS01585at 87.500 kb on + strand, within HMPREF1058_RS01585at 87.500 kb on + strand, within HMPREF1058_RS01585at 87.501 kb on - strand, within HMPREF1058_RS01585

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; day4
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84,157 + HMPREF1058_RS01595 0.25 +1.2
84,266 + HMPREF1058_RS01595 0.34 -0.8
84,267 - HMPREF1058_RS01595 0.34 -1.3
84,301 + HMPREF1058_RS01595 0.37 -1.8
84,302 - HMPREF1058_RS01595 0.37 +0.7
84,302 - HMPREF1058_RS01595 0.37 -4.5
84,302 - HMPREF1058_RS01595 0.37 +0.5
84,302 - HMPREF1058_RS01595 0.37 -1.6
84,305 + HMPREF1058_RS01595 0.37 -2.1
84,331 - HMPREF1058_RS01595 0.39 -0.8
84,342 - HMPREF1058_RS01595 0.40 -2.6
84,362 + HMPREF1058_RS01595 0.42 -0.8
84,418 + HMPREF1058_RS01595 0.46 -0.7
84,418 + HMPREF1058_RS01595 0.46 -0.4
84,435 + HMPREF1058_RS01595 0.48 +0.8
84,473 + HMPREF1058_RS01595 0.51 +1.0
84,474 - HMPREF1058_RS01595 0.51 +1.4
84,500 + HMPREF1058_RS01595 0.53 -1.1
84,501 - HMPREF1058_RS01595 0.53 +0.2
84,501 - HMPREF1058_RS01595 0.53 +0.0
84,521 + HMPREF1058_RS01595 0.55 +1.9
84,532 + HMPREF1058_RS01595 0.56 -0.1
84,585 + HMPREF1058_RS01595 0.60 -0.8
84,679 + HMPREF1058_RS01595 0.68 +0.7
84,717 - HMPREF1058_RS01595 0.71 -0.1
84,734 + HMPREF1058_RS01595 0.73 +1.8
84,735 - HMPREF1058_RS01595 0.73 -0.3
84,802 - HMPREF1058_RS01595 0.78 -0.5
84,891 + HMPREF1058_RS01595 0.86 -3.2
84,892 - HMPREF1058_RS01595 0.86 +0.2
84,984 - -0.6
85,130 - +0.2
85,179 + -3.2
85,179 + -0.8
85,188 + -0.8
85,333 - HMPREF1058_RS01590 0.13 -2.9
85,336 + HMPREF1058_RS01590 0.13 -1.8
85,484 - HMPREF1058_RS01590 0.24 -0.2
85,511 + HMPREF1058_RS01590 0.26 -0.4
85,512 - HMPREF1058_RS01590 0.26 -3.6
85,711 + HMPREF1058_RS01590 0.40 +0.2
85,712 - HMPREF1058_RS01590 0.40 -3.1
85,712 - HMPREF1058_RS01590 0.40 -1.6
85,774 + HMPREF1058_RS01590 0.44 -2.1
85,774 + HMPREF1058_RS01590 0.44 -0.8
85,774 + HMPREF1058_RS01590 0.44 -1.6
85,775 - HMPREF1058_RS01590 0.44 -2.3
85,775 - HMPREF1058_RS01590 0.44 -1.8
85,775 - HMPREF1058_RS01590 0.44 +0.2
85,775 - HMPREF1058_RS01590 0.44 -3.2
85,783 - HMPREF1058_RS01590 0.45 -1.3
85,787 - HMPREF1058_RS01590 0.45 -1.8
85,788 + HMPREF1058_RS01590 0.45 -1.3
85,824 - HMPREF1058_RS01590 0.48 -1.8
85,937 - HMPREF1058_RS01590 0.56 -1.4
85,958 + HMPREF1058_RS01590 0.57 -1.1
85,958 + HMPREF1058_RS01590 0.57 -0.3
85,959 - HMPREF1058_RS01590 0.57 -2.2
85,959 - HMPREF1058_RS01590 0.57 -1.3
86,092 - -0.8
86,252 + HMPREF1058_RS01590 0.78 -2.3
86,253 - HMPREF1058_RS01590 0.78 -2.1
86,253 - HMPREF1058_RS01590 0.78 -2.1
86,271 + HMPREF1058_RS01590 0.80 -2.3
86,272 - HMPREF1058_RS01590 0.80 -0.8
86,273 + HMPREF1058_RS01590 0.80 -0.8
86,376 + HMPREF1058_RS01590 0.87 -1.3
86,377 - HMPREF1058_RS01590 0.87 -0.9
86,379 - HMPREF1058_RS01590 0.87 -4.0
86,469 + -1.8
86,869 + -1.8
86,871 + -4.0
86,987 + -1.3
86,988 - -3.8
86,988 - -0.8
86,988 - -3.3
87,094 - HMPREF1058_RS01585 0.15 -2.9
87,094 - HMPREF1058_RS01585 0.15 -1.8
87,229 + HMPREF1058_RS01585 0.24 -0.8
87,236 - HMPREF1058_RS01585 0.25 -2.6
87,437 + HMPREF1058_RS01585 0.39 -2.0
87,438 - HMPREF1058_RS01585 0.39 +1.2
87,500 + HMPREF1058_RS01585 0.43 -1.3
87,500 + HMPREF1058_RS01585 0.43 -1.3
87,501 - HMPREF1058_RS01585 0.43 -2.3

Or see this region's nucleotide sequence