Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS13545

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; 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_RS13550 and HMPREF1058_RS13545 are separated by 379 nucleotidesHMPREF1058_RS13545 and HMPREF1058_RS13540 are separated by 32 nucleotides HMPREF1058_RS13550: HMPREF1058_RS13550 - SUMF1/EgtB/PvdO family nonheme iron enzyme, at 1,445,773 to 1,447,761 _RS13550 HMPREF1058_RS13545: HMPREF1058_RS13545 - RagB/SusD family nutrient uptake outer membrane protein, at 1,448,141 to 1,450,306 _RS13545 HMPREF1058_RS13540: HMPREF1058_RS13540 - TonB-dependent receptor, at 1,450,339 to 1,453,611 _RS13540 Position (kb) 1448 1449 1450 1451Strain fitness (log2 ratio) -2 -1 0 1 2 3 4 5 6at 1447.171 kb on + strand, within HMPREF1058_RS13550at 1447.171 kb on + strand, within HMPREF1058_RS13550at 1447.172 kb on - strand, within HMPREF1058_RS13550at 1447.174 kb on - strand, within HMPREF1058_RS13550at 1447.174 kb on - strand, within HMPREF1058_RS13550at 1447.174 kb on - strand, within HMPREF1058_RS13550at 1447.176 kb on - strand, within HMPREF1058_RS13550at 1447.222 kb on - strand, within HMPREF1058_RS13550at 1447.227 kb on - strand, within HMPREF1058_RS13550at 1447.227 kb on - strand, within HMPREF1058_RS13550at 1447.227 kb on - strand, within HMPREF1058_RS13550at 1447.285 kb on - strand, within HMPREF1058_RS13550at 1447.337 kb on + strand, within HMPREF1058_RS13550at 1447.337 kb on + strand, within HMPREF1058_RS13550at 1447.337 kb on + strand, within HMPREF1058_RS13550at 1447.337 kb on + strand, within HMPREF1058_RS13550at 1447.338 kb on - strand, within HMPREF1058_RS13550at 1447.338 kb on - strand, within HMPREF1058_RS13550at 1447.454 kb on + strand, within HMPREF1058_RS13550at 1447.459 kb on + strand, within HMPREF1058_RS13550at 1447.459 kb on + strand, within HMPREF1058_RS13550at 1447.459 kb on + strand, within HMPREF1058_RS13550at 1447.460 kb on - strand, within HMPREF1058_RS13550at 1447.541 kb on + strand, within HMPREF1058_RS13550at 1447.585 kb on - strandat 1447.588 kb on + strandat 1447.589 kb on - strandat 1447.589 kb on - strandat 1447.605 kb on + strandat 1447.619 kb on + strandat 1447.666 kb on + strandat 1447.723 kb on - strandat 1447.742 kb on - strandat 1447.780 kb on - strandat 1447.782 kb on - strandat 1447.838 kb on + strandat 1447.838 kb on + strandat 1447.839 kb on - strandat 1447.866 kb on + strandat 1447.867 kb on - strandat 1447.900 kb on - strandat 1447.963 kb on + strandat 1447.965 kb on + strandat 1447.969 kb on + strandat 1447.977 kb on + strandat 1448.033 kb on + strandat 1448.042 kb on + strandat 1448.044 kb on + strandat 1448.133 kb on - strandat 1448.142 kb on + strandat 1448.142 kb on + strandat 1448.168 kb on - strandat 1448.172 kb on - strandat 1448.217 kb on - strandat 1448.224 kb on + strandat 1448.260 kb on - strandat 1448.267 kb on - strandat 1448.267 kb on - strandat 1448.311 kb on + strandat 1448.312 kb on - strandat 1448.316 kb on + strandat 1448.363 kb on - strand, within HMPREF1058_RS13545at 1448.392 kb on + strand, within HMPREF1058_RS13545at 1448.392 kb on + strand, within HMPREF1058_RS13545at 1448.444 kb on + strand, within HMPREF1058_RS13545at 1448.590 kb on + strand, within HMPREF1058_RS13545at 1448.617 kb on + strand, within HMPREF1058_RS13545at 1448.645 kb on - strand, within HMPREF1058_RS13545at 1448.663 kb on - strand, within HMPREF1058_RS13545at 1448.686 kb on + strand, within HMPREF1058_RS13545at 1448.737 kb on + strand, within HMPREF1058_RS13545at 1448.738 kb on - strand, within HMPREF1058_RS13545at 1448.738 kb on - strand, within HMPREF1058_RS13545at 1448.792 kb on + strand, within HMPREF1058_RS13545at 1448.810 kb on - strand, within HMPREF1058_RS13545at 1448.845 kb on - strand, within HMPREF1058_RS13545at 1448.920 kb on + strand, within HMPREF1058_RS13545at 1448.922 kb on + strand, within HMPREF1058_RS13545at 1448.923 kb on - strand, within HMPREF1058_RS13545at 1448.953 kb on + strand, within HMPREF1058_RS13545at 1449.016 kb on + strand, within HMPREF1058_RS13545at 1449.016 kb on + strand, within HMPREF1058_RS13545at 1449.033 kb on + strand, within HMPREF1058_RS13545at 1449.035 kb on - strand, within HMPREF1058_RS13545at 1449.083 kb on - strand, within HMPREF1058_RS13545at 1449.088 kb on + strand, within HMPREF1058_RS13545at 1449.127 kb on - strand, within HMPREF1058_RS13545at 1449.129 kb on + strand, within HMPREF1058_RS13545at 1449.130 kb on - strand, within HMPREF1058_RS13545at 1449.130 kb on - strand, within HMPREF1058_RS13545at 1449.132 kb on + strand, within HMPREF1058_RS13545at 1449.167 kb on - strand, within HMPREF1058_RS13545at 1449.261 kb on - strand, within HMPREF1058_RS13545at 1449.261 kb on - strand, within HMPREF1058_RS13545at 1449.302 kb on + strand, within HMPREF1058_RS13545at 1449.303 kb on - strand, within HMPREF1058_RS13545at 1449.382 kb on + strand, within HMPREF1058_RS13545at 1449.398 kb on - strand, within HMPREF1058_RS13545at 1449.497 kb on + strand, within HMPREF1058_RS13545at 1449.520 kb on - strand, within HMPREF1058_RS13545at 1449.601 kb on - strand, within HMPREF1058_RS13545at 1449.601 kb on - strand, within HMPREF1058_RS13545at 1449.601 kb on - strand, within HMPREF1058_RS13545at 1449.657 kb on - strand, within HMPREF1058_RS13545at 1449.682 kb on + strand, within HMPREF1058_RS13545at 1449.794 kb on - strand, within HMPREF1058_RS13545at 1449.819 kb on + strand, within HMPREF1058_RS13545at 1449.924 kb on + strand, within HMPREF1058_RS13545at 1449.925 kb on - strand, within HMPREF1058_RS13545at 1449.967 kb on + strand, within HMPREF1058_RS13545at 1449.976 kb on + strand, within HMPREF1058_RS13545at 1449.994 kb on + strandat 1450.043 kb on + strand, within HMPREF1058_RS13545at 1450.044 kb on - strand, within HMPREF1058_RS13545at 1450.044 kb on - strand, within HMPREF1058_RS13545at 1450.057 kb on - strand, within HMPREF1058_RS13545at 1450.057 kb on - strand, within HMPREF1058_RS13545at 1450.161 kb on + strandat 1450.162 kb on - strandat 1450.162 kb on - strandat 1450.274 kb on + strandat 1450.274 kb on + strandat 1450.275 kb on - strandat 1450.295 kb on + strandat 1450.365 kb on + strandat 1450.371 kb on + strandat 1450.372 kb on - strandat 1450.385 kb on + strandat 1450.502 kb on + strandat 1450.503 kb on - strandat 1450.504 kb on + strandat 1450.505 kb on - strandat 1450.507 kb on - strandat 1450.510 kb on + strandat 1450.523 kb on + strandat 1450.523 kb on + strandat 1450.554 kb on + strandat 1450.554 kb on + strandat 1450.557 kb on - strandat 1450.613 kb on - strandat 1450.615 kb on + strandat 1450.617 kb on + strandat 1450.646 kb on + strandat 1450.646 kb on + strandat 1450.647 kb on - strandat 1450.647 kb on - strandat 1450.651 kb on - strandat 1450.722 kb on - strand, within HMPREF1058_RS13540at 1450.755 kb on + strand, within HMPREF1058_RS13540at 1450.813 kb on - strand, within HMPREF1058_RS13540at 1450.813 kb on - strand, within HMPREF1058_RS13540at 1450.813 kb on - strand, within HMPREF1058_RS13540at 1450.813 kb on - strand, within HMPREF1058_RS13540at 1450.813 kb on - strand, within HMPREF1058_RS13540at 1450.897 kb on - strand, within HMPREF1058_RS13540at 1450.956 kb on + strand, within HMPREF1058_RS13540at 1451.029 kb on - strand, within HMPREF1058_RS13540at 1451.029 kb on - strand, within HMPREF1058_RS13540at 1451.034 kb on - strand, within HMPREF1058_RS13540at 1451.034 kb on - strand, within HMPREF1058_RS13540at 1451.037 kb on + strand, within HMPREF1058_RS13540at 1451.037 kb on + strand, within HMPREF1058_RS13540at 1451.038 kb on - strand, within HMPREF1058_RS13540at 1451.043 kb on + strand, within HMPREF1058_RS13540at 1451.083 kb on - strand, within HMPREF1058_RS13540at 1451.113 kb on + strand, within HMPREF1058_RS13540at 1451.156 kb on - strand, within HMPREF1058_RS13540at 1451.181 kb on - strand, within HMPREF1058_RS13540at 1451.181 kb on - strand, within HMPREF1058_RS13540at 1451.229 kb on - strand, within HMPREF1058_RS13540at 1451.249 kb on - strand, within HMPREF1058_RS13540at 1451.277 kb on + strand, within HMPREF1058_RS13540at 1451.291 kb on - strand, within HMPREF1058_RS13540

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day4
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1,447,171 + HMPREF1058_RS13550 0.70 -0.1
1,447,171 + HMPREF1058_RS13550 0.70 -1.6
1,447,172 - HMPREF1058_RS13550 0.70 -0.3
1,447,174 - HMPREF1058_RS13550 0.70 +0.6
1,447,174 - HMPREF1058_RS13550 0.70 +0.6
1,447,174 - HMPREF1058_RS13550 0.70 -2.0
1,447,176 - HMPREF1058_RS13550 0.71 +0.8
1,447,222 - HMPREF1058_RS13550 0.73 +1.0
1,447,227 - HMPREF1058_RS13550 0.73 +0.5
1,447,227 - HMPREF1058_RS13550 0.73 -0.0
1,447,227 - HMPREF1058_RS13550 0.73 -1.2
1,447,285 - HMPREF1058_RS13550 0.76 +0.2
1,447,337 + HMPREF1058_RS13550 0.79 -0.5
1,447,337 + HMPREF1058_RS13550 0.79 +2.1
1,447,337 + HMPREF1058_RS13550 0.79 -0.4
1,447,337 + HMPREF1058_RS13550 0.79 -2.7
1,447,338 - HMPREF1058_RS13550 0.79 +0.1
1,447,338 - HMPREF1058_RS13550 0.79 -0.4
1,447,454 + HMPREF1058_RS13550 0.85 -1.7
1,447,459 + HMPREF1058_RS13550 0.85 -1.2
1,447,459 + HMPREF1058_RS13550 0.85 +0.1
1,447,459 + HMPREF1058_RS13550 0.85 -1.2
1,447,460 - HMPREF1058_RS13550 0.85 -2.0
1,447,541 + HMPREF1058_RS13550 0.89 -0.9
1,447,585 - -1.2
1,447,588 + +0.8
1,447,589 - -0.6
1,447,589 - +0.6
1,447,605 + +0.7
1,447,619 + -1.9
1,447,666 + -2.4
1,447,723 - +0.9
1,447,742 - -1.2
1,447,780 - -2.2
1,447,782 - -0.2
1,447,838 + -1.1
1,447,838 + -2.2
1,447,839 - -0.2
1,447,866 + +0.1
1,447,867 - -0.3
1,447,900 - -0.7
1,447,963 + +1.1
1,447,965 + +0.4
1,447,969 + -1.4
1,447,977 + -1.2
1,448,033 + +1.4
1,448,042 + +0.4
1,448,044 + -2.0
1,448,133 - +4.1
1,448,142 + +1.2
1,448,142 + +2.4
1,448,168 - +3.0
1,448,172 - +2.5
1,448,217 - +1.4
1,448,224 + +1.1
1,448,260 - +3.1
1,448,267 - +4.3
1,448,267 - +2.1
1,448,311 + -1.7
1,448,312 - +2.1
1,448,316 + +3.4
1,448,363 - HMPREF1058_RS13545 0.10 +2.3
1,448,392 + HMPREF1058_RS13545 0.12 +2.9
1,448,392 + HMPREF1058_RS13545 0.12 +2.6
1,448,444 + HMPREF1058_RS13545 0.14 +2.1
1,448,590 + HMPREF1058_RS13545 0.21 +2.3
1,448,617 + HMPREF1058_RS13545 0.22 +1.2
1,448,645 - HMPREF1058_RS13545 0.23 +4.2
1,448,663 - HMPREF1058_RS13545 0.24 +1.0
1,448,686 + HMPREF1058_RS13545 0.25 +1.2
1,448,737 + HMPREF1058_RS13545 0.28 +1.5
1,448,738 - HMPREF1058_RS13545 0.28 +1.3
1,448,738 - HMPREF1058_RS13545 0.28 +3.1
1,448,792 + HMPREF1058_RS13545 0.30 +1.8
1,448,810 - HMPREF1058_RS13545 0.31 +2.0
1,448,845 - HMPREF1058_RS13545 0.33 -0.3
1,448,920 + HMPREF1058_RS13545 0.36 +0.3
1,448,922 + HMPREF1058_RS13545 0.36 +1.9
1,448,923 - HMPREF1058_RS13545 0.36 +0.8
1,448,953 + HMPREF1058_RS13545 0.37 +2.5
1,449,016 + HMPREF1058_RS13545 0.40 +1.1
1,449,016 + HMPREF1058_RS13545 0.40 -1.5
1,449,033 + HMPREF1058_RS13545 0.41 +1.2
1,449,035 - HMPREF1058_RS13545 0.41 +1.9
1,449,083 - HMPREF1058_RS13545 0.43 +2.6
1,449,088 + HMPREF1058_RS13545 0.44 +3.0
1,449,127 - HMPREF1058_RS13545 0.46 -0.2
1,449,129 + HMPREF1058_RS13545 0.46 +1.3
1,449,130 - HMPREF1058_RS13545 0.46 +1.1
1,449,130 - HMPREF1058_RS13545 0.46 -1.0
1,449,132 + HMPREF1058_RS13545 0.46 +1.8
1,449,167 - HMPREF1058_RS13545 0.47 +1.2
1,449,261 - HMPREF1058_RS13545 0.52 +1.9
1,449,261 - HMPREF1058_RS13545 0.52 +3.6
1,449,302 + HMPREF1058_RS13545 0.54 +1.5
1,449,303 - HMPREF1058_RS13545 0.54 +3.0
1,449,382 + HMPREF1058_RS13545 0.57 +1.9
1,449,398 - HMPREF1058_RS13545 0.58 +0.0
1,449,497 + HMPREF1058_RS13545 0.63 +1.0
1,449,520 - HMPREF1058_RS13545 0.64 +1.7
1,449,601 - HMPREF1058_RS13545 0.67 +1.4
1,449,601 - HMPREF1058_RS13545 0.67 +1.6
1,449,601 - HMPREF1058_RS13545 0.67 +0.6
1,449,657 - HMPREF1058_RS13545 0.70 +6.2
1,449,682 + HMPREF1058_RS13545 0.71 +2.7
1,449,794 - HMPREF1058_RS13545 0.76 +0.2
1,449,819 + HMPREF1058_RS13545 0.77 -0.2
1,449,924 + HMPREF1058_RS13545 0.82 +3.9
1,449,925 - HMPREF1058_RS13545 0.82 -0.7
1,449,967 + HMPREF1058_RS13545 0.84 -1.0
1,449,976 + HMPREF1058_RS13545 0.85 +3.5
1,449,994 + +2.4
1,450,043 + HMPREF1058_RS13545 0.88 +0.6
1,450,044 - HMPREF1058_RS13545 0.88 +0.4
1,450,044 - HMPREF1058_RS13545 0.88 +2.1
1,450,057 - HMPREF1058_RS13545 0.88 +2.7
1,450,057 - HMPREF1058_RS13545 0.88 +3.1
1,450,161 + +1.1
1,450,162 - +1.1
1,450,162 - +2.8
1,450,274 + +1.8
1,450,274 + +1.8
1,450,275 - +3.3
1,450,295 + +1.2
1,450,365 + +1.3
1,450,371 + +0.2
1,450,372 - +0.2
1,450,385 + +2.5
1,450,502 + -2.2
1,450,503 - +0.6
1,450,504 + +1.1
1,450,505 - +0.7
1,450,507 - -0.2
1,450,510 + +2.4
1,450,523 + +0.7
1,450,523 + +1.4
1,450,554 + +0.8
1,450,554 + +1.1
1,450,557 - +2.6
1,450,613 - +0.9
1,450,615 + +2.8
1,450,617 + +0.7
1,450,646 + -0.7
1,450,646 + +1.9
1,450,647 - +1.4
1,450,647 - -0.0
1,450,651 - +0.7
1,450,722 - HMPREF1058_RS13540 0.12 +3.6
1,450,755 + HMPREF1058_RS13540 0.13 +2.9
1,450,813 - HMPREF1058_RS13540 0.14 +3.0
1,450,813 - HMPREF1058_RS13540 0.14 +2.0
1,450,813 - HMPREF1058_RS13540 0.14 +0.2
1,450,813 - HMPREF1058_RS13540 0.14 +2.6
1,450,813 - HMPREF1058_RS13540 0.14 +0.5
1,450,897 - HMPREF1058_RS13540 0.17 +0.2
1,450,956 + HMPREF1058_RS13540 0.19 +0.1
1,451,029 - HMPREF1058_RS13540 0.21 -0.8
1,451,029 - HMPREF1058_RS13540 0.21 -0.1
1,451,034 - HMPREF1058_RS13540 0.21 +0.8
1,451,034 - HMPREF1058_RS13540 0.21 -1.0
1,451,037 + HMPREF1058_RS13540 0.21 +1.5
1,451,037 + HMPREF1058_RS13540 0.21 +3.5
1,451,038 - HMPREF1058_RS13540 0.21 +3.0
1,451,043 + HMPREF1058_RS13540 0.22 +2.1
1,451,083 - HMPREF1058_RS13540 0.23 -0.2
1,451,113 + HMPREF1058_RS13540 0.24 +3.4
1,451,156 - HMPREF1058_RS13540 0.25 +5.1
1,451,181 - HMPREF1058_RS13540 0.26 +1.3
1,451,181 - HMPREF1058_RS13540 0.26 +2.1
1,451,229 - HMPREF1058_RS13540 0.27 -0.3
1,451,249 - HMPREF1058_RS13540 0.28 +2.2
1,451,277 + HMPREF1058_RS13540 0.29 +2.8
1,451,291 - HMPREF1058_RS13540 0.29 -2.2

Or see this region's nucleotide sequence