Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS04080

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_RS04085 and HMPREF1058_RS04080 are separated by 283 nucleotidesHMPREF1058_RS04080 and HMPREF1058_RS04075 are separated by 249 nucleotides HMPREF1058_RS04085: HMPREF1058_RS04085 - HU family DNA-binding protein, at 118,282 to 119,712 _RS04085 HMPREF1058_RS04080: HMPREF1058_RS04080 - AAA family ATPase, at 119,996 to 120,991 _RS04080 HMPREF1058_RS04075: HMPREF1058_RS04075 - DUF58 domain-containing protein, at 121,241 to 122,110 _RS04075 Position (kb) 119 120 121Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1 2 3at 119.100 kb on - strand, within HMPREF1058_RS04085at 119.102 kb on + strand, within HMPREF1058_RS04085at 119.102 kb on + strand, within HMPREF1058_RS04085at 119.102 kb on + strand, within HMPREF1058_RS04085at 119.205 kb on + strand, within HMPREF1058_RS04085at 119.246 kb on + strand, within HMPREF1058_RS04085at 119.249 kb on - strand, within HMPREF1058_RS04085at 119.249 kb on - strand, within HMPREF1058_RS04085at 119.370 kb on + strand, within HMPREF1058_RS04085at 119.371 kb on - strand, within HMPREF1058_RS04085at 119.438 kb on + strand, within HMPREF1058_RS04085at 119.439 kb on - strand, within HMPREF1058_RS04085at 119.513 kb on + strand, within HMPREF1058_RS04085at 119.513 kb on + strand, within HMPREF1058_RS04085at 119.514 kb on - strand, within HMPREF1058_RS04085at 119.525 kb on + strand, within HMPREF1058_RS04085at 119.541 kb on + strand, within HMPREF1058_RS04085at 119.545 kb on + strand, within HMPREF1058_RS04085at 119.594 kb on - strandat 119.646 kb on + strandat 119.646 kb on + strandat 119.647 kb on - strandat 119.746 kb on + strandat 119.858 kb on - strandat 119.981 kb on + strandat 120.093 kb on + strandat 120.120 kb on + strand, within HMPREF1058_RS04080at 120.121 kb on - strand, within HMPREF1058_RS04080at 120.132 kb on + strand, within HMPREF1058_RS04080at 120.224 kb on + strand, within HMPREF1058_RS04080at 120.359 kb on - strand, within HMPREF1058_RS04080at 120.440 kb on - strand, within HMPREF1058_RS04080at 120.462 kb on + strand, within HMPREF1058_RS04080at 120.678 kb on - strand, within HMPREF1058_RS04080at 120.694 kb on - strand, within HMPREF1058_RS04080at 120.701 kb on + strand, within HMPREF1058_RS04080at 120.702 kb on - strand, within HMPREF1058_RS04080at 120.827 kb on + strand, within HMPREF1058_RS04080at 120.828 kb on - strand, within HMPREF1058_RS04080at 121.016 kb on - strandat 121.220 kb on - strandat 121.228 kb on + strandat 121.228 kb on + strandat 121.229 kb on - strandat 121.229 kb on - strandat 121.231 kb on + strandat 121.670 kb on + strand, within HMPREF1058_RS04075at 121.670 kb on + strand, within HMPREF1058_RS04075at 121.739 kb on + strand, within HMPREF1058_RS04075at 121.795 kb on - strand, within HMPREF1058_RS04075at 121.865 kb on + strand, within HMPREF1058_RS04075at 121.865 kb on + strand, within HMPREF1058_RS04075

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; day4
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119,100 - HMPREF1058_RS04085 0.57 -0.7
119,102 + HMPREF1058_RS04085 0.57 +2.3
119,102 + HMPREF1058_RS04085 0.57 -0.4
119,102 + HMPREF1058_RS04085 0.57 +2.8
119,205 + HMPREF1058_RS04085 0.65 -2.3
119,246 + HMPREF1058_RS04085 0.67 -0.0
119,249 - HMPREF1058_RS04085 0.68 +0.3
119,249 - HMPREF1058_RS04085 0.68 +0.5
119,370 + HMPREF1058_RS04085 0.76 -0.0
119,371 - HMPREF1058_RS04085 0.76 -0.7
119,438 + HMPREF1058_RS04085 0.81 -1.7
119,439 - HMPREF1058_RS04085 0.81 -0.7
119,513 + HMPREF1058_RS04085 0.86 -0.2
119,513 + HMPREF1058_RS04085 0.86 -1.3
119,514 - HMPREF1058_RS04085 0.86 -0.6
119,525 + HMPREF1058_RS04085 0.87 -0.2
119,541 + HMPREF1058_RS04085 0.88 -0.0
119,545 + HMPREF1058_RS04085 0.88 +0.3
119,594 - -0.3
119,646 + -0.0
119,646 + +0.8
119,647 - +0.3
119,746 + +0.3
119,858 - -0.7
119,981 + -5.5
120,093 + -1.7
120,120 + HMPREF1058_RS04080 0.12 -2.3
120,121 - HMPREF1058_RS04080 0.13 -1.7
120,132 + HMPREF1058_RS04080 0.14 -1.7
120,224 + HMPREF1058_RS04080 0.23 -2.3
120,359 - HMPREF1058_RS04080 0.36 -0.7
120,440 - HMPREF1058_RS04080 0.45 -4.5
120,462 + HMPREF1058_RS04080 0.47 -2.1
120,678 - HMPREF1058_RS04080 0.68 -1.3
120,694 - HMPREF1058_RS04080 0.70 -1.7
120,701 + HMPREF1058_RS04080 0.71 -0.7
120,702 - HMPREF1058_RS04080 0.71 -2.1
120,827 + HMPREF1058_RS04080 0.83 -3.4
120,828 - HMPREF1058_RS04080 0.84 -1.3
121,016 - -1.7
121,220 - -4.9
121,228 + +0.7
121,228 + +1.8
121,229 - -1.7
121,229 - -2.1
121,231 + -1.3
121,670 + HMPREF1058_RS04075 0.49 -2.9
121,670 + HMPREF1058_RS04075 0.49 -2.3
121,739 + HMPREF1058_RS04075 0.57 -1.3
121,795 - HMPREF1058_RS04075 0.64 -1.3
121,865 + HMPREF1058_RS04075 0.72 -2.5
121,865 + HMPREF1058_RS04075 0.72 -3.7

Or see this region's nucleotide sequence