Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS08085

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse20; day14

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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_RS08090 and HMPREF1058_RS08085 are separated by 30 nucleotidesHMPREF1058_RS08085 and HMPREF1058_RS08080 are separated by 20 nucleotides HMPREF1058_RS08090: HMPREF1058_RS08090 - tetratricopeptide repeat protein, at 55,139 to 56,482 _RS08090 HMPREF1058_RS08085: HMPREF1058_RS08085 - redoxin domain-containing protein, at 56,513 to 57,703 _RS08085 HMPREF1058_RS08080: HMPREF1058_RS08080 - TlpA family protein disulfide reductase, at 57,724 to 59,832 _RS08080 Position (kb) 56 57 58Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3 4at 55.529 kb on + strand, within HMPREF1058_RS08090at 55.529 kb on + strand, within HMPREF1058_RS08090at 55.598 kb on + strand, within HMPREF1058_RS08090at 55.764 kb on - strand, within HMPREF1058_RS08090at 55.787 kb on - strand, within HMPREF1058_RS08090at 55.817 kb on + strand, within HMPREF1058_RS08090at 55.818 kb on - strand, within HMPREF1058_RS08090at 55.818 kb on - strand, within HMPREF1058_RS08090at 55.902 kb on - strand, within HMPREF1058_RS08090at 55.909 kb on - strand, within HMPREF1058_RS08090at 56.006 kb on + strand, within HMPREF1058_RS08090at 56.057 kb on + strand, within HMPREF1058_RS08090at 56.058 kb on - strand, within HMPREF1058_RS08090at 56.059 kb on + strand, within HMPREF1058_RS08090at 56.059 kb on + strand, within HMPREF1058_RS08090at 56.060 kb on - strand, within HMPREF1058_RS08090at 56.098 kb on + strand, within HMPREF1058_RS08090at 56.098 kb on + strand, within HMPREF1058_RS08090at 56.135 kb on + strand, within HMPREF1058_RS08090at 56.188 kb on + strand, within HMPREF1058_RS08090at 56.188 kb on + strand, within HMPREF1058_RS08090at 56.234 kb on + strand, within HMPREF1058_RS08090at 56.235 kb on - strand, within HMPREF1058_RS08090at 56.282 kb on + strand, within HMPREF1058_RS08090at 56.283 kb on - strand, within HMPREF1058_RS08090at 56.312 kb on + strand, within HMPREF1058_RS08090at 56.553 kb on + strandat 56.629 kb on + strandat 56.684 kb on - strand, within HMPREF1058_RS08085at 56.722 kb on + strand, within HMPREF1058_RS08085at 56.741 kb on - strand, within HMPREF1058_RS08085at 56.915 kb on + strand, within HMPREF1058_RS08085at 56.920 kb on + strand, within HMPREF1058_RS08085at 56.956 kb on + strand, within HMPREF1058_RS08085at 56.978 kb on + strand, within HMPREF1058_RS08085at 56.987 kb on - strand, within HMPREF1058_RS08085at 57.146 kb on + strand, within HMPREF1058_RS08085at 57.146 kb on + strand, within HMPREF1058_RS08085at 57.146 kb on + strand, within HMPREF1058_RS08085at 57.147 kb on - strand, within HMPREF1058_RS08085at 57.148 kb on + strand, within HMPREF1058_RS08085at 57.201 kb on - strand, within HMPREF1058_RS08085at 57.235 kb on - strand, within HMPREF1058_RS08085at 57.318 kb on - strand, within HMPREF1058_RS08085at 57.355 kb on - strand, within HMPREF1058_RS08085at 57.355 kb on - strand, within HMPREF1058_RS08085at 57.375 kb on + strand, within HMPREF1058_RS08085at 57.408 kb on - strand, within HMPREF1058_RS08085at 57.539 kb on + strand, within HMPREF1058_RS08085at 57.629 kb on - strandat 57.819 kb on + strandat 57.828 kb on + strandat 57.829 kb on - strandat 57.921 kb on + strandat 57.985 kb on - strand, within HMPREF1058_RS08080at 58.039 kb on - strand, within HMPREF1058_RS08080at 58.251 kb on - strand, within HMPREF1058_RS08080at 58.268 kb on - strand, within HMPREF1058_RS08080at 58.323 kb on + strand, within HMPREF1058_RS08080at 58.601 kb on + strand, within HMPREF1058_RS08080at 58.601 kb on + strand, within HMPREF1058_RS08080at 58.602 kb on - strand, within HMPREF1058_RS08080at 58.602 kb on - strand, within HMPREF1058_RS08080at 58.634 kb on + strand, within HMPREF1058_RS08080at 58.635 kb on - strand, within HMPREF1058_RS08080at 58.637 kb on - strand, within HMPREF1058_RS08080at 58.638 kb on + strand, within HMPREF1058_RS08080at 58.638 kb on + strand, within HMPREF1058_RS08080at 58.638 kb on + strand, within HMPREF1058_RS08080at 58.642 kb on - strand, within HMPREF1058_RS08080at 58.642 kb on - strand, within HMPREF1058_RS08080

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse20; day14
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55,529 + HMPREF1058_RS08090 0.29 +1.2
55,529 + HMPREF1058_RS08090 0.29 -2.3
55,598 + HMPREF1058_RS08090 0.34 -3.2
55,764 - HMPREF1058_RS08090 0.47 +0.5
55,787 - HMPREF1058_RS08090 0.48 +0.6
55,817 + HMPREF1058_RS08090 0.50 +1.5
55,818 - HMPREF1058_RS08090 0.51 +0.7
55,818 - HMPREF1058_RS08090 0.51 -3.3
55,902 - HMPREF1058_RS08090 0.57 -0.4
55,909 - HMPREF1058_RS08090 0.57 +0.5
56,006 + HMPREF1058_RS08090 0.65 +0.1
56,057 + HMPREF1058_RS08090 0.68 -0.1
56,058 - HMPREF1058_RS08090 0.68 +0.1
56,059 + HMPREF1058_RS08090 0.68 -3.6
56,059 + HMPREF1058_RS08090 0.68 +0.4
56,060 - HMPREF1058_RS08090 0.69 -0.3
56,098 + HMPREF1058_RS08090 0.71 -0.3
56,098 + HMPREF1058_RS08090 0.71 -0.2
56,135 + HMPREF1058_RS08090 0.74 -4.3
56,188 + HMPREF1058_RS08090 0.78 +2.3
56,188 + HMPREF1058_RS08090 0.78 -2.0
56,234 + HMPREF1058_RS08090 0.81 +1.6
56,235 - HMPREF1058_RS08090 0.82 +1.0
56,282 + HMPREF1058_RS08090 0.85 +0.6
56,283 - HMPREF1058_RS08090 0.85 +0.4
56,312 + HMPREF1058_RS08090 0.87 -0.8
56,553 + -0.7
56,629 + +2.4
56,684 - HMPREF1058_RS08085 0.14 -0.7
56,722 + HMPREF1058_RS08085 0.18 +1.2
56,741 - HMPREF1058_RS08085 0.19 +1.6
56,915 + HMPREF1058_RS08085 0.34 +0.0
56,920 + HMPREF1058_RS08085 0.34 -1.0
56,956 + HMPREF1058_RS08085 0.37 -0.6
56,978 + HMPREF1058_RS08085 0.39 -0.7
56,987 - HMPREF1058_RS08085 0.40 -0.1
57,146 + HMPREF1058_RS08085 0.53 -2.3
57,146 + HMPREF1058_RS08085 0.53 -1.4
57,146 + HMPREF1058_RS08085 0.53 +0.3
57,147 - HMPREF1058_RS08085 0.53 -0.7
57,148 + HMPREF1058_RS08085 0.53 -1.4
57,201 - HMPREF1058_RS08085 0.58 -1.6
57,235 - HMPREF1058_RS08085 0.61 +0.6
57,318 - HMPREF1058_RS08085 0.68 +0.2
57,355 - HMPREF1058_RS08085 0.71 -1.8
57,355 - HMPREF1058_RS08085 0.71 -2.0
57,375 + HMPREF1058_RS08085 0.72 -0.6
57,408 - HMPREF1058_RS08085 0.75 +0.2
57,539 + HMPREF1058_RS08085 0.86 -1.6
57,629 - -0.2
57,819 + +0.4
57,828 + +0.3
57,829 - +1.5
57,921 + +0.6
57,985 - HMPREF1058_RS08080 0.12 -1.7
58,039 - HMPREF1058_RS08080 0.15 +2.3
58,251 - HMPREF1058_RS08080 0.25 +4.0
58,268 - HMPREF1058_RS08080 0.26 +0.6
58,323 + HMPREF1058_RS08080 0.28 -4.4
58,601 + HMPREF1058_RS08080 0.42 +0.5
58,601 + HMPREF1058_RS08080 0.42 -1.3
58,602 - HMPREF1058_RS08080 0.42 +0.5
58,602 - HMPREF1058_RS08080 0.42 +0.8
58,634 + HMPREF1058_RS08080 0.43 -0.7
58,635 - HMPREF1058_RS08080 0.43 -1.7
58,637 - HMPREF1058_RS08080 0.43 -0.3
58,638 + HMPREF1058_RS08080 0.43 +2.4
58,638 + HMPREF1058_RS08080 0.43 -0.8
58,638 + HMPREF1058_RS08080 0.43 -0.4
58,642 - HMPREF1058_RS08080 0.44 +0.0
58,642 - HMPREF1058_RS08080 0.44 -3.5

Or see this region's nucleotide sequence