Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS07420

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; 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_RS07425 and HMPREF1058_RS07420 are separated by 132 nucleotidesHMPREF1058_RS07420 and HMPREF1058_RS07415 are separated by 3 nucleotides HMPREF1058_RS07425: HMPREF1058_RS07425 - SusD family outer membrane lipoprotein NanU, at 229,486 to 230,988 _RS07425 HMPREF1058_RS07420: HMPREF1058_RS07420 - exo-alpha-sialidase, at 231,121 to 232,761 _RS07420 HMPREF1058_RS07415: HMPREF1058_RS07415 - family 20 glycosylhydrolase, at 232,765 to 234,771 _RS07415 Position (kb) 231 232 233Strain fitness (log2 ratio) -6 -5 -4 -3 -2 -1 0 1 2 3at 230.147 kb on + strand, within HMPREF1058_RS07425at 230.147 kb on + strand, within HMPREF1058_RS07425at 230.147 kb on + strand, within HMPREF1058_RS07425at 230.148 kb on - strand, within HMPREF1058_RS07425at 230.148 kb on - strand, within HMPREF1058_RS07425at 230.149 kb on + strand, within HMPREF1058_RS07425at 230.219 kb on + strand, within HMPREF1058_RS07425at 230.229 kb on + strand, within HMPREF1058_RS07425at 230.259 kb on + strand, within HMPREF1058_RS07425at 230.282 kb on - strand, within HMPREF1058_RS07425at 230.290 kb on - strand, within HMPREF1058_RS07425at 230.296 kb on - strand, within HMPREF1058_RS07425at 230.340 kb on + strand, within HMPREF1058_RS07425at 230.420 kb on + strand, within HMPREF1058_RS07425at 230.424 kb on + strand, within HMPREF1058_RS07425at 230.531 kb on + strand, within HMPREF1058_RS07425at 230.531 kb on + strand, within HMPREF1058_RS07425at 230.532 kb on - strand, within HMPREF1058_RS07425at 230.532 kb on - strand, within HMPREF1058_RS07425at 230.535 kb on + strand, within HMPREF1058_RS07425at 230.535 kb on + strand, within HMPREF1058_RS07425at 230.535 kb on + strand, within HMPREF1058_RS07425at 230.535 kb on + strand, within HMPREF1058_RS07425at 230.536 kb on - strand, within HMPREF1058_RS07425at 230.536 kb on - strand, within HMPREF1058_RS07425at 230.584 kb on - strand, within HMPREF1058_RS07425at 230.587 kb on + strand, within HMPREF1058_RS07425at 230.588 kb on - strand, within HMPREF1058_RS07425at 230.611 kb on - strand, within HMPREF1058_RS07425at 230.637 kb on + strand, within HMPREF1058_RS07425at 230.638 kb on - strand, within HMPREF1058_RS07425at 230.638 kb on - strand, within HMPREF1058_RS07425at 230.749 kb on + strand, within HMPREF1058_RS07425at 230.750 kb on - strand, within HMPREF1058_RS07425at 230.857 kb on + strandat 230.952 kb on + strandat 230.952 kb on + strandat 231.138 kb on - strandat 231.147 kb on - strandat 231.159 kb on + strandat 231.164 kb on + strandat 231.196 kb on - strandat 231.196 kb on - strandat 231.264 kb on - strandat 231.419 kb on - strandat 231.419 kb on - strand, within HMPREF1058_RS07420at 231.419 kb on - strand, within HMPREF1058_RS07420at 231.420 kb on + strand, within HMPREF1058_RS07420at 231.421 kb on - strand, within HMPREF1058_RS07420at 231.421 kb on - strand, within HMPREF1058_RS07420at 231.421 kb on - strand, within HMPREF1058_RS07420at 231.421 kb on - strand, within HMPREF1058_RS07420at 231.422 kb on + strand, within HMPREF1058_RS07420at 231.426 kb on + strand, within HMPREF1058_RS07420at 231.426 kb on + strandat 231.459 kb on + strand, within HMPREF1058_RS07420at 231.588 kb on + strand, within HMPREF1058_RS07420at 231.589 kb on - strand, within HMPREF1058_RS07420at 231.589 kb on - strand, within HMPREF1058_RS07420at 231.679 kb on + strand, within HMPREF1058_RS07420at 231.680 kb on - strand, within HMPREF1058_RS07420at 231.733 kb on - strand, within HMPREF1058_RS07420at 231.776 kb on + strand, within HMPREF1058_RS07420at 231.777 kb on - strand, within HMPREF1058_RS07420at 231.778 kb on + strand, within HMPREF1058_RS07420at 231.785 kb on + strand, within HMPREF1058_RS07420at 231.785 kb on + strand, within HMPREF1058_RS07420at 231.786 kb on - strand, within HMPREF1058_RS07420at 231.795 kb on + strand, within HMPREF1058_RS07420at 231.799 kb on - strand, within HMPREF1058_RS07420at 231.817 kb on + strand, within HMPREF1058_RS07420at 231.818 kb on - strand, within HMPREF1058_RS07420at 231.818 kb on - strand, within HMPREF1058_RS07420at 231.818 kb on - strand, within HMPREF1058_RS07420at 231.843 kb on + strand, within HMPREF1058_RS07420at 231.844 kb on - strand, within HMPREF1058_RS07420at 231.898 kb on + strand, within HMPREF1058_RS07420at 231.899 kb on - strandat 231.955 kb on - strand, within HMPREF1058_RS07420at 231.969 kb on + strand, within HMPREF1058_RS07420at 232.053 kb on + strand, within HMPREF1058_RS07420at 232.053 kb on + strand, within HMPREF1058_RS07420at 232.116 kb on + strand, within HMPREF1058_RS07420at 232.147 kb on + strand, within HMPREF1058_RS07420at 232.170 kb on + strand, within HMPREF1058_RS07420at 232.176 kb on + strand, within HMPREF1058_RS07420at 232.176 kb on + strand, within HMPREF1058_RS07420at 232.177 kb on - strand, within HMPREF1058_RS07420at 232.182 kb on + strand, within HMPREF1058_RS07420at 232.218 kb on + strand, within HMPREF1058_RS07420at 232.239 kb on + strand, within HMPREF1058_RS07420at 232.240 kb on - strand, within HMPREF1058_RS07420at 232.251 kb on + strand, within HMPREF1058_RS07420at 232.252 kb on - strand, within HMPREF1058_RS07420at 232.252 kb on - strand, within HMPREF1058_RS07420at 232.252 kb on - strand, within HMPREF1058_RS07420at 232.253 kb on + strand, within HMPREF1058_RS07420at 232.253 kb on + strand, within HMPREF1058_RS07420at 232.254 kb on - strand, within HMPREF1058_RS07420at 232.254 kb on - strand, within HMPREF1058_RS07420at 232.291 kb on - strand, within HMPREF1058_RS07420at 232.308 kb on + strand, within HMPREF1058_RS07420at 232.309 kb on - strand, within HMPREF1058_RS07420at 232.409 kb on + strand, within HMPREF1058_RS07420at 232.443 kb on + strand, within HMPREF1058_RS07420at 232.561 kb on - strand, within HMPREF1058_RS07420at 232.561 kb on - strand, within HMPREF1058_RS07420at 232.663 kb on - strandat 232.663 kb on - strandat 232.746 kb on + strandat 232.746 kb on + strandat 232.747 kb on - strandat 232.799 kb on + strandat 232.814 kb on + strandat 232.815 kb on - strandat 232.815 kb on - strandat 232.818 kb on + strandat 232.819 kb on - strandat 232.861 kb on + strandat 233.079 kb on - strand, within HMPREF1058_RS07415at 233.088 kb on - strand, within HMPREF1058_RS07415at 233.112 kb on + strand, within HMPREF1058_RS07415at 233.395 kb on + strand, within HMPREF1058_RS07415at 233.395 kb on + strand, within HMPREF1058_RS07415at 233.396 kb on - strand, within HMPREF1058_RS07415at 233.473 kb on - strand, within HMPREF1058_RS07415at 233.484 kb on + strand, within HMPREF1058_RS07415at 233.518 kb on - strand, within HMPREF1058_RS07415at 233.594 kb on + strand, within HMPREF1058_RS07415at 233.595 kb on - strand, within HMPREF1058_RS07415at 233.595 kb on - strand, within HMPREF1058_RS07415at 233.599 kb on - strand, within HMPREF1058_RS07415at 233.599 kb on - strand, within HMPREF1058_RS07415at 233.600 kb on + strand, within HMPREF1058_RS07415at 233.600 kb on + strand, within HMPREF1058_RS07415at 233.600 kb on + strand, within HMPREF1058_RS07415at 233.600 kb on + strand, within HMPREF1058_RS07415at 233.600 kb on + strand, within HMPREF1058_RS07415at 233.601 kb on - strand, within HMPREF1058_RS07415at 233.605 kb on - strand, within HMPREF1058_RS07415at 233.657 kb on - strand, within HMPREF1058_RS07415at 233.657 kb on - strand, within HMPREF1058_RS07415at 233.657 kb on - strand, within HMPREF1058_RS07415at 233.657 kb on - strand, within HMPREF1058_RS07415at 233.688 kb on + strand, within HMPREF1058_RS07415at 233.747 kb on - strand, within HMPREF1058_RS07415

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4
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230,147 + HMPREF1058_RS07425 0.44 -0.1
230,147 + HMPREF1058_RS07425 0.44 +0.5
230,147 + HMPREF1058_RS07425 0.44 +0.5
230,148 - HMPREF1058_RS07425 0.44 +2.1
230,148 - HMPREF1058_RS07425 0.44 -0.6
230,149 + HMPREF1058_RS07425 0.44 +0.2
230,219 + HMPREF1058_RS07425 0.49 -2.7
230,229 + HMPREF1058_RS07425 0.49 -1.2
230,259 + HMPREF1058_RS07425 0.51 +2.3
230,282 - HMPREF1058_RS07425 0.53 +0.8
230,290 - HMPREF1058_RS07425 0.53 +0.8
230,296 - HMPREF1058_RS07425 0.54 +0.7
230,340 + HMPREF1058_RS07425 0.57 +0.5
230,420 + HMPREF1058_RS07425 0.62 -1.7
230,424 + HMPREF1058_RS07425 0.62 +1.3
230,531 + HMPREF1058_RS07425 0.70 +0.3
230,531 + HMPREF1058_RS07425 0.70 -1.1
230,532 - HMPREF1058_RS07425 0.70 -1.5
230,532 - HMPREF1058_RS07425 0.70 -0.9
230,535 + HMPREF1058_RS07425 0.70 +1.9
230,535 + HMPREF1058_RS07425 0.70 +1.6
230,535 + HMPREF1058_RS07425 0.70 +0.9
230,535 + HMPREF1058_RS07425 0.70 +2.8
230,536 - HMPREF1058_RS07425 0.70 -0.1
230,536 - HMPREF1058_RS07425 0.70 +0.9
230,584 - HMPREF1058_RS07425 0.73 -0.7
230,587 + HMPREF1058_RS07425 0.73 -0.5
230,588 - HMPREF1058_RS07425 0.73 -0.3
230,611 - HMPREF1058_RS07425 0.75 -1.7
230,637 + HMPREF1058_RS07425 0.77 +1.0
230,638 - HMPREF1058_RS07425 0.77 +1.9
230,638 - HMPREF1058_RS07425 0.77 -0.8
230,749 + HMPREF1058_RS07425 0.84 +1.2
230,750 - HMPREF1058_RS07425 0.84 +0.3
230,857 + +0.8
230,952 + -0.1
230,952 + -0.1
231,138 - -2.1
231,147 - -3.4
231,159 + -4.1
231,164 + -3.1
231,196 - -3.1
231,196 - -3.8
231,264 - -1.7
231,419 - -1.1
231,419 - HMPREF1058_RS07420 0.18 -5.0
231,419 - HMPREF1058_RS07420 0.18 -1.1
231,420 + HMPREF1058_RS07420 0.18 -2.9
231,421 - HMPREF1058_RS07420 0.18 -4.0
231,421 - HMPREF1058_RS07420 0.18 -3.2
231,421 - HMPREF1058_RS07420 0.18 -3.2
231,421 - HMPREF1058_RS07420 0.18 -3.1
231,422 + HMPREF1058_RS07420 0.18 -4.6
231,426 + HMPREF1058_RS07420 0.19 -2.4
231,426 + -1.1
231,459 + HMPREF1058_RS07420 0.21 -5.6
231,588 + HMPREF1058_RS07420 0.28 -1.7
231,589 - HMPREF1058_RS07420 0.29 -1.1
231,589 - HMPREF1058_RS07420 0.29 -3.4
231,679 + HMPREF1058_RS07420 0.34 -3.7
231,680 - HMPREF1058_RS07420 0.34 -3.7
231,733 - HMPREF1058_RS07420 0.37 -3.9
231,776 + HMPREF1058_RS07420 0.40 -2.9
231,777 - HMPREF1058_RS07420 0.40 -4.1
231,778 + HMPREF1058_RS07420 0.40 -1.1
231,785 + HMPREF1058_RS07420 0.40 -4.1
231,785 + HMPREF1058_RS07420 0.40 -4.5
231,786 - HMPREF1058_RS07420 0.41 -2.1
231,795 + HMPREF1058_RS07420 0.41 -3.5
231,799 - HMPREF1058_RS07420 0.41 -1.1
231,817 + HMPREF1058_RS07420 0.42 -2.2
231,818 - HMPREF1058_RS07420 0.42 -3.2
231,818 - HMPREF1058_RS07420 0.42 -4.7
231,818 - HMPREF1058_RS07420 0.42 -0.1
231,843 + HMPREF1058_RS07420 0.44 -2.7
231,844 - HMPREF1058_RS07420 0.44 -2.7
231,898 + HMPREF1058_RS07420 0.47 -3.7
231,899 - -2.7
231,955 - HMPREF1058_RS07420 0.51 -0.1
231,969 + HMPREF1058_RS07420 0.52 -5.2
232,053 + HMPREF1058_RS07420 0.57 -4.1
232,053 + HMPREF1058_RS07420 0.57 -1.1
232,116 + HMPREF1058_RS07420 0.61 -3.4
232,147 + HMPREF1058_RS07420 0.63 -4.1
232,170 + HMPREF1058_RS07420 0.64 -1.7
232,176 + HMPREF1058_RS07420 0.64 -2.5
232,176 + HMPREF1058_RS07420 0.64 -2.9
232,177 - HMPREF1058_RS07420 0.64 -1.1
232,182 + HMPREF1058_RS07420 0.65 -3.2
232,218 + HMPREF1058_RS07420 0.67 -4.2
232,239 + HMPREF1058_RS07420 0.68 -1.7
232,240 - HMPREF1058_RS07420 0.68 -1.7
232,251 + HMPREF1058_RS07420 0.69 -1.7
232,252 - HMPREF1058_RS07420 0.69 -2.9
232,252 - HMPREF1058_RS07420 0.69 -1.7
232,252 - HMPREF1058_RS07420 0.69 -3.2
232,253 + HMPREF1058_RS07420 0.69 -1.1
232,253 + HMPREF1058_RS07420 0.69 -3.2
232,254 - HMPREF1058_RS07420 0.69 -5.8
232,254 - HMPREF1058_RS07420 0.69 -3.1
232,291 - HMPREF1058_RS07420 0.71 -1.1
232,308 + HMPREF1058_RS07420 0.72 -3.9
232,309 - HMPREF1058_RS07420 0.72 -2.9
232,409 + HMPREF1058_RS07420 0.78 -3.1
232,443 + HMPREF1058_RS07420 0.81 -2.7
232,561 - HMPREF1058_RS07420 0.88 -1.1
232,561 - HMPREF1058_RS07420 0.88 -1.1
232,663 - -1.1
232,663 - -3.9
232,746 + -1.1
232,746 + -3.8
232,747 - -4.2
232,799 + -3.5
232,814 + -3.4
232,815 - -1.4
232,815 - -0.1
232,818 + -3.9
232,819 - -1.1
232,861 + -2.9
233,079 - HMPREF1058_RS07415 0.16 -4.8
233,088 - HMPREF1058_RS07415 0.16 -2.4
233,112 + HMPREF1058_RS07415 0.17 -3.4
233,395 + HMPREF1058_RS07415 0.31 -4.3
233,395 + HMPREF1058_RS07415 0.31 -2.1
233,396 - HMPREF1058_RS07415 0.31 -2.4
233,473 - HMPREF1058_RS07415 0.35 -3.4
233,484 + HMPREF1058_RS07415 0.36 -4.0
233,518 - HMPREF1058_RS07415 0.38 -3.6
233,594 + HMPREF1058_RS07415 0.41 -3.8
233,595 - HMPREF1058_RS07415 0.41 -1.7
233,595 - HMPREF1058_RS07415 0.41 -2.3
233,599 - HMPREF1058_RS07415 0.42 -3.1
233,599 - HMPREF1058_RS07415 0.42 -2.7
233,600 + HMPREF1058_RS07415 0.42 -2.4
233,600 + HMPREF1058_RS07415 0.42 -1.9
233,600 + HMPREF1058_RS07415 0.42 -3.1
233,600 + HMPREF1058_RS07415 0.42 -2.1
233,600 + HMPREF1058_RS07415 0.42 -2.7
233,601 - HMPREF1058_RS07415 0.42 -2.1
233,605 - HMPREF1058_RS07415 0.42 -3.1
233,657 - HMPREF1058_RS07415 0.44 -3.6
233,657 - HMPREF1058_RS07415 0.44 -2.4
233,657 - HMPREF1058_RS07415 0.44 -0.1
233,657 - HMPREF1058_RS07415 0.44 -3.2
233,688 + HMPREF1058_RS07415 0.46 -2.7
233,747 - HMPREF1058_RS07415 0.49 -2.4

Or see this region's nucleotide sequence