Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS16620

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_RS16630 and HMPREF1058_RS16625 are separated by 236 nucleotidesHMPREF1058_RS16625 and HMPREF1058_RS16620 are separated by 18 nucleotidesHMPREF1058_RS16620 and HMPREF1058_RS16615 are separated by 568 nucleotides HMPREF1058_RS16630: HMPREF1058_RS16630 - DMP19 family protein, at 631,703 to 632,212 _RS16630 HMPREF1058_RS16625: HMPREF1058_RS16625 - hypothetical protein, at 632,449 to 633,150 _RS16625 HMPREF1058_RS16620: HMPREF1058_RS16620 - GGGtGRT protein, at 633,169 to 634,179 _RS16620 HMPREF1058_RS16615: HMPREF1058_RS16615 - DUF4857 domain-containing protein, at 634,748 to 635,776 _RS16615 Position (kb) 633 634 635Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1 2 3at 632.216 kb on + strandat 632.222 kb on + strandat 632.222 kb on + strandat 632.223 kb on - strandat 632.224 kb on + strandat 632.224 kb on + strandat 632.224 kb on + strandat 632.225 kb on - strandat 632.228 kb on - strandat 632.229 kb on + strandat 632.234 kb on - strandat 632.280 kb on + strandat 632.316 kb on + strandat 632.321 kb on - strandat 632.327 kb on - strandat 632.390 kb on + strandat 632.417 kb on + strandat 632.616 kb on + strand, within HMPREF1058_RS16625at 632.621 kb on + strand, within HMPREF1058_RS16625at 632.633 kb on + strand, within HMPREF1058_RS16625at 632.633 kb on + strand, within HMPREF1058_RS16625at 632.736 kb on - strand, within HMPREF1058_RS16625at 632.900 kb on + strand, within HMPREF1058_RS16625at 632.904 kb on + strand, within HMPREF1058_RS16625at 632.905 kb on - strand, within HMPREF1058_RS16625at 632.905 kb on - strand, within HMPREF1058_RS16625at 632.911 kb on + strand, within HMPREF1058_RS16625at 632.911 kb on + strand, within HMPREF1058_RS16625at 632.973 kb on - strand, within HMPREF1058_RS16625at 633.169 kb on - strandat 633.300 kb on + strand, within HMPREF1058_RS16620at 633.300 kb on + strand, within HMPREF1058_RS16620at 633.324 kb on + strand, within HMPREF1058_RS16620at 633.325 kb on - strand, within HMPREF1058_RS16620at 633.445 kb on - strand, within HMPREF1058_RS16620at 633.505 kb on - strand, within HMPREF1058_RS16620at 633.525 kb on + strand, within HMPREF1058_RS16620at 633.609 kb on - strand, within HMPREF1058_RS16620at 633.612 kb on + strand, within HMPREF1058_RS16620at 633.630 kb on + strand, within HMPREF1058_RS16620at 633.675 kb on + strand, within HMPREF1058_RS16620at 633.687 kb on + strand, within HMPREF1058_RS16620at 633.735 kb on - strand, within HMPREF1058_RS16620at 633.816 kb on + strand, within HMPREF1058_RS16620at 633.817 kb on - strand, within HMPREF1058_RS16620at 633.836 kb on + strand, within HMPREF1058_RS16620at 633.861 kb on + strand, within HMPREF1058_RS16620at 633.897 kb on + strand, within HMPREF1058_RS16620at 633.898 kb on - strand, within HMPREF1058_RS16620at 633.901 kb on + strand, within HMPREF1058_RS16620at 633.901 kb on + strand, within HMPREF1058_RS16620at 633.902 kb on - strand, within HMPREF1058_RS16620at 633.927 kb on + strand, within HMPREF1058_RS16620at 633.969 kb on + strand, within HMPREF1058_RS16620at 634.035 kb on + strand, within HMPREF1058_RS16620at 634.035 kb on + strand, within HMPREF1058_RS16620at 634.127 kb on + strandat 634.157 kb on + strandat 634.177 kb on + strandat 634.177 kb on + strandat 634.180 kb on + strandat 634.181 kb on - strandat 634.185 kb on + strandat 634.186 kb on - strandat 634.193 kb on + strandat 634.201 kb on - strandat 634.201 kb on - strandat 634.201 kb on - strandat 634.365 kb on + strandat 634.415 kb on + strandat 634.483 kb on - strandat 634.483 kb on - strandat 634.504 kb on + strandat 634.505 kb on - strandat 634.507 kb on + strandat 634.508 kb on - strandat 634.547 kb on + strandat 634.552 kb on + strandat 634.557 kb on - strandat 634.609 kb on + strandat 634.610 kb on - strandat 634.610 kb on - strandat 634.612 kb on - strandat 634.707 kb on - strandat 634.711 kb on + strandat 634.711 kb on + strandat 634.718 kb on + strandat 634.856 kb on - strand, within HMPREF1058_RS16615at 634.869 kb on + strand, within HMPREF1058_RS16615at 634.872 kb on + strand, within HMPREF1058_RS16615at 634.875 kb on + strand, within HMPREF1058_RS16615at 634.875 kb on + strand, within HMPREF1058_RS16615at 634.875 kb on + strand, within HMPREF1058_RS16615at 634.876 kb on - strand, within HMPREF1058_RS16615at 634.876 kb on - strand, within HMPREF1058_RS16615at 634.896 kb on - strand, within HMPREF1058_RS16615at 634.918 kb on + strand, within HMPREF1058_RS16615at 634.999 kb on + strand, within HMPREF1058_RS16615at 635.025 kb on - strand, within HMPREF1058_RS16615at 635.029 kb on + strand, within HMPREF1058_RS16615at 635.029 kb on + strandat 635.066 kb on - strand, within HMPREF1058_RS16615at 635.073 kb on + strand, within HMPREF1058_RS16615at 635.074 kb on - strand, within HMPREF1058_RS16615at 635.152 kb on + strand, within HMPREF1058_RS16615at 635.153 kb on - strand, within HMPREF1058_RS16615at 635.166 kb on - strand, within HMPREF1058_RS16615at 635.176 kb on - strand, within HMPREF1058_RS16615

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4
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632,216 + +0.6
632,222 + +2.2
632,222 + +1.2
632,223 - -0.4
632,224 + -0.7
632,224 + +0.2
632,224 + +1.4
632,225 - +0.4
632,228 - -2.2
632,229 + -0.5
632,234 - -1.7
632,280 + +0.6
632,316 + +1.0
632,321 - -0.8
632,327 - +0.3
632,390 + +0.7
632,417 + +0.7
632,616 + HMPREF1058_RS16625 0.24 -3.2
632,621 + HMPREF1058_RS16625 0.25 -4.6
632,633 + HMPREF1058_RS16625 0.26 -5.4
632,633 + HMPREF1058_RS16625 0.26 -2.6
632,736 - HMPREF1058_RS16625 0.41 -3.0
632,900 + HMPREF1058_RS16625 0.64 -1.6
632,904 + HMPREF1058_RS16625 0.65 -4.0
632,905 - HMPREF1058_RS16625 0.65 -2.3
632,905 - HMPREF1058_RS16625 0.65 -2.8
632,911 + HMPREF1058_RS16625 0.66 -3.6
632,911 + HMPREF1058_RS16625 0.66 -1.0
632,973 - HMPREF1058_RS16625 0.75 -2.6
633,169 - -1.6
633,300 + HMPREF1058_RS16620 0.13 +0.0
633,300 + HMPREF1058_RS16620 0.13 -3.6
633,324 + HMPREF1058_RS16620 0.15 -1.6
633,325 - HMPREF1058_RS16620 0.15 -2.8
633,445 - HMPREF1058_RS16620 0.27 -1.6
633,505 - HMPREF1058_RS16620 0.33 +0.0
633,525 + HMPREF1058_RS16620 0.35 -4.7
633,609 - HMPREF1058_RS16620 0.44 -4.3
633,612 + HMPREF1058_RS16620 0.44 -3.0
633,630 + HMPREF1058_RS16620 0.46 -1.6
633,675 + HMPREF1058_RS16620 0.50 -3.5
633,687 + HMPREF1058_RS16620 0.51 -3.9
633,735 - HMPREF1058_RS16620 0.56 -1.6
633,816 + HMPREF1058_RS16620 0.64 -3.9
633,817 - HMPREF1058_RS16620 0.64 -2.0
633,836 + HMPREF1058_RS16620 0.66 -4.2
633,861 + HMPREF1058_RS16620 0.68 -3.2
633,897 + HMPREF1058_RS16620 0.72 -3.5
633,898 - HMPREF1058_RS16620 0.72 +0.0
633,901 + HMPREF1058_RS16620 0.72 -3.3
633,901 + HMPREF1058_RS16620 0.72 -2.6
633,902 - HMPREF1058_RS16620 0.73 -3.2
633,927 + HMPREF1058_RS16620 0.75 +0.0
633,969 + HMPREF1058_RS16620 0.79 -1.0
634,035 + HMPREF1058_RS16620 0.86 -5.3
634,035 + HMPREF1058_RS16620 0.86 +0.0
634,127 + -2.0
634,157 + -1.3
634,177 + +0.0
634,177 + +0.1
634,180 + +1.0
634,181 - -2.0
634,185 + +2.1
634,186 - -1.0
634,193 + +0.4
634,201 - -0.6
634,201 - -0.1
634,201 - +1.0
634,365 + +3.4
634,415 + -0.6
634,483 - +0.4
634,483 - -0.9
634,504 + +0.6
634,505 - +1.5
634,507 + +2.9
634,508 - +1.1
634,547 + -0.7
634,552 + -1.0
634,557 - -0.4
634,609 + +0.4
634,610 - +1.3
634,610 - -2.3
634,612 - +1.0
634,707 - -1.2
634,711 + -3.0
634,711 + +0.2
634,718 + +0.6
634,856 - HMPREF1058_RS16615 0.10 -1.0
634,869 + HMPREF1058_RS16615 0.12 +1.1
634,872 + HMPREF1058_RS16615 0.12 +1.0
634,875 + HMPREF1058_RS16615 0.12 +0.5
634,875 + HMPREF1058_RS16615 0.12 +1.4
634,875 + HMPREF1058_RS16615 0.12 -0.0
634,876 - HMPREF1058_RS16615 0.12 +3.1
634,876 - HMPREF1058_RS16615 0.12 +0.9
634,896 - HMPREF1058_RS16615 0.14 -0.7
634,918 + HMPREF1058_RS16615 0.17 +1.9
634,999 + HMPREF1058_RS16615 0.24 +2.9
635,025 - HMPREF1058_RS16615 0.27 -0.2
635,029 + HMPREF1058_RS16615 0.27 -0.7
635,029 + -1.0
635,066 - HMPREF1058_RS16615 0.31 +0.7
635,073 + HMPREF1058_RS16615 0.32 +0.7
635,074 - HMPREF1058_RS16615 0.32 +1.6
635,152 + HMPREF1058_RS16615 0.39 +0.3
635,153 - HMPREF1058_RS16615 0.39 +1.2
635,166 - HMPREF1058_RS16615 0.41 +1.0
635,176 - HMPREF1058_RS16615 0.42 +0.6

Or see this region's nucleotide sequence