Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS00065

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_RS00070 and HMPREF1058_RS00065 are separated by 42 nucleotidesHMPREF1058_RS00065 and HMPREF1058_RS00060 are separated by 85 nucleotides HMPREF1058_RS00070: HMPREF1058_RS00070 - alpha/beta hydrolase, at 73,351 to 74,634 _RS00070 HMPREF1058_RS00065: HMPREF1058_RS00065 - family 78 glycoside hydrolase catalytic domain, at 74,677 to 76,458 _RS00065 HMPREF1058_RS00060: HMPREF1058_RS00060 - RagB/SusD family nutrient uptake outer membrane protein, at 76,544 to 77,533 _RS00060 Position (kb) 74 75 76 77Strain fitness (log2 ratio) -2 -1 0 1 2 3at 73.679 kb on + strand, within HMPREF1058_RS00070at 73.709 kb on - strand, within HMPREF1058_RS00070at 73.724 kb on - strand, within HMPREF1058_RS00070at 73.899 kb on - strand, within HMPREF1058_RS00070at 73.986 kb on - strand, within HMPREF1058_RS00070at 74.041 kb on - strand, within HMPREF1058_RS00070at 74.041 kb on - strand, within HMPREF1058_RS00070at 74.042 kb on + strand, within HMPREF1058_RS00070at 74.146 kb on + strand, within HMPREF1058_RS00070at 74.177 kb on + strand, within HMPREF1058_RS00070at 74.178 kb on - strand, within HMPREF1058_RS00070at 74.250 kb on - strand, within HMPREF1058_RS00070at 74.302 kb on + strand, within HMPREF1058_RS00070at 74.358 kb on + strand, within HMPREF1058_RS00070at 74.358 kb on + strand, within HMPREF1058_RS00070at 74.358 kb on + strand, within HMPREF1058_RS00070at 74.359 kb on - strand, within HMPREF1058_RS00070at 74.359 kb on - strand, within HMPREF1058_RS00070at 74.381 kb on - strand, within HMPREF1058_RS00070at 74.400 kb on + strand, within HMPREF1058_RS00070at 74.400 kb on + strand, within HMPREF1058_RS00070at 74.400 kb on + strand, within HMPREF1058_RS00070at 74.402 kb on + strand, within HMPREF1058_RS00070at 74.506 kb on - strandat 74.531 kb on + strandat 74.532 kb on - strandat 74.586 kb on + strandat 74.588 kb on + strandat 74.594 kb on - strandat 74.596 kb on - strandat 74.611 kb on - strandat 74.617 kb on + strandat 74.623 kb on + strandat 74.624 kb on - strandat 74.624 kb on - strandat 74.724 kb on + strandat 74.755 kb on + strandat 74.777 kb on + strandat 74.781 kb on + strandat 74.781 kb on + strandat 74.860 kb on + strand, within HMPREF1058_RS00065at 74.860 kb on + strand, within HMPREF1058_RS00065at 74.863 kb on + strand, within HMPREF1058_RS00065at 74.863 kb on + strand, within HMPREF1058_RS00065at 74.864 kb on - strand, within HMPREF1058_RS00065at 74.887 kb on - strand, within HMPREF1058_RS00065at 74.959 kb on + strand, within HMPREF1058_RS00065at 74.959 kb on + strand, within HMPREF1058_RS00065at 74.960 kb on - strand, within HMPREF1058_RS00065at 74.960 kb on - strand, within HMPREF1058_RS00065at 74.993 kb on - strand, within HMPREF1058_RS00065at 75.079 kb on - strand, within HMPREF1058_RS00065at 75.079 kb on - strand, within HMPREF1058_RS00065at 75.087 kb on + strand, within HMPREF1058_RS00065at 75.088 kb on - strand, within HMPREF1058_RS00065at 75.091 kb on + strand, within HMPREF1058_RS00065at 75.104 kb on + strand, within HMPREF1058_RS00065at 75.135 kb on + strand, within HMPREF1058_RS00065at 75.135 kb on + strand, within HMPREF1058_RS00065at 75.137 kb on + strand, within HMPREF1058_RS00065at 75.137 kb on + strand, within HMPREF1058_RS00065at 75.183 kb on + strand, within HMPREF1058_RS00065at 75.184 kb on - strand, within HMPREF1058_RS00065at 75.551 kb on + strand, within HMPREF1058_RS00065at 75.560 kb on + strand, within HMPREF1058_RS00065at 75.694 kb on + strand, within HMPREF1058_RS00065at 75.780 kb on + strand, within HMPREF1058_RS00065at 75.781 kb on - strand, within HMPREF1058_RS00065at 75.781 kb on - strand, within HMPREF1058_RS00065at 75.799 kb on + strand, within HMPREF1058_RS00065at 75.985 kb on - strand, within HMPREF1058_RS00065at 76.044 kb on + strand, within HMPREF1058_RS00065at 76.079 kb on - strand, within HMPREF1058_RS00065at 76.079 kb on - strand, within HMPREF1058_RS00065at 76.199 kb on - strand, within HMPREF1058_RS00065at 76.276 kb on - strand, within HMPREF1058_RS00065at 76.305 kb on + strandat 76.322 kb on + strandat 76.322 kb on + strandat 76.323 kb on - strandat 76.323 kb on - strandat 76.339 kb on - strandat 76.396 kb on + strandat 76.451 kb on - strandat 76.462 kb on - strandat 76.488 kb on - strandat 76.507 kb on + strandat 76.508 kb on - strandat 76.538 kb on + strandat 76.571 kb on + strandat 76.571 kb on + strandat 76.571 kb on + strandat 76.585 kb on + strandat 76.626 kb on - strandat 76.650 kb on + strand, within HMPREF1058_RS00060at 76.653 kb on + strand, within HMPREF1058_RS00060at 76.734 kb on - strand, within HMPREF1058_RS00060at 76.756 kb on + strand, within HMPREF1058_RS00060at 76.756 kb on + strand, within HMPREF1058_RS00060at 76.807 kb on - strand, within HMPREF1058_RS00060at 76.865 kb on - strand, within HMPREF1058_RS00060at 76.870 kb on + strand, within HMPREF1058_RS00060at 76.933 kb on + strand, within HMPREF1058_RS00060at 77.060 kb on + strand, within HMPREF1058_RS00060at 77.061 kb on - strand, within HMPREF1058_RS00060at 77.064 kb on + strand, within HMPREF1058_RS00060at 77.065 kb on - strand, within HMPREF1058_RS00060at 77.065 kb on - strand, within HMPREF1058_RS00060at 77.065 kb on - strandat 77.081 kb on + strand, within HMPREF1058_RS00060at 77.138 kb on + strand, within HMPREF1058_RS00060at 77.141 kb on - strand, within HMPREF1058_RS00060at 77.215 kb on + strand, within HMPREF1058_RS00060at 77.279 kb on + strand, within HMPREF1058_RS00060at 77.303 kb on - strand, within HMPREF1058_RS00060at 77.341 kb on + strand, within HMPREF1058_RS00060at 77.368 kb on + strand, within HMPREF1058_RS00060at 77.379 kb on + strand, within HMPREF1058_RS00060at 77.419 kb on + strand, within HMPREF1058_RS00060at 77.420 kb on - strand, within HMPREF1058_RS00060at 77.421 kb on + strand, within HMPREF1058_RS00060at 77.422 kb on - strand, within HMPREF1058_RS00060

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4
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73,679 + HMPREF1058_RS00070 0.26 -0.7
73,709 - HMPREF1058_RS00070 0.28 +0.0
73,724 - HMPREF1058_RS00070 0.29 +0.7
73,899 - HMPREF1058_RS00070 0.43 -0.1
73,986 - HMPREF1058_RS00070 0.49 +2.2
74,041 - HMPREF1058_RS00070 0.54 -0.1
74,041 - HMPREF1058_RS00070 0.54 +0.9
74,042 + HMPREF1058_RS00070 0.54 -2.5
74,146 + HMPREF1058_RS00070 0.62 +1.3
74,177 + HMPREF1058_RS00070 0.64 -0.7
74,178 - HMPREF1058_RS00070 0.64 -2.3
74,250 - HMPREF1058_RS00070 0.70 +2.7
74,302 + HMPREF1058_RS00070 0.74 -0.5
74,358 + HMPREF1058_RS00070 0.78 +0.8
74,358 + HMPREF1058_RS00070 0.78 -1.4
74,358 + HMPREF1058_RS00070 0.78 +0.1
74,359 - HMPREF1058_RS00070 0.79 -1.1
74,359 - HMPREF1058_RS00070 0.79 -1.6
74,381 - HMPREF1058_RS00070 0.80 +1.3
74,400 + HMPREF1058_RS00070 0.82 -0.8
74,400 + HMPREF1058_RS00070 0.82 +1.9
74,400 + HMPREF1058_RS00070 0.82 +2.5
74,402 + HMPREF1058_RS00070 0.82 -0.3
74,506 - +0.0
74,531 + +1.2
74,532 - +0.4
74,586 + +0.0
74,588 + -0.2
74,594 - -0.8
74,596 - +0.0
74,611 - -1.9
74,617 + +0.9
74,623 + -0.3
74,624 - +0.1
74,624 - +1.0
74,724 + +2.2
74,755 + +1.0
74,777 + +0.5
74,781 + +1.9
74,781 + +1.1
74,860 + HMPREF1058_RS00065 0.10 +0.5
74,860 + HMPREF1058_RS00065 0.10 +0.3
74,863 + HMPREF1058_RS00065 0.10 +1.2
74,863 + HMPREF1058_RS00065 0.10 +2.9
74,864 - HMPREF1058_RS00065 0.10 -1.5
74,887 - HMPREF1058_RS00065 0.12 -1.1
74,959 + HMPREF1058_RS00065 0.16 -1.9
74,959 + HMPREF1058_RS00065 0.16 -0.6
74,960 - HMPREF1058_RS00065 0.16 +0.7
74,960 - HMPREF1058_RS00065 0.16 -1.2
74,993 - HMPREF1058_RS00065 0.18 +2.8
75,079 - HMPREF1058_RS00065 0.23 +0.2
75,079 - HMPREF1058_RS00065 0.23 -0.4
75,087 + HMPREF1058_RS00065 0.23 -1.6
75,088 - HMPREF1058_RS00065 0.23 +1.5
75,091 + HMPREF1058_RS00065 0.23 -0.1
75,104 + HMPREF1058_RS00065 0.24 -0.9
75,135 + HMPREF1058_RS00065 0.26 +1.7
75,135 + HMPREF1058_RS00065 0.26 +0.9
75,137 + HMPREF1058_RS00065 0.26 +1.0
75,137 + HMPREF1058_RS00065 0.26 +0.5
75,183 + HMPREF1058_RS00065 0.28 +0.5
75,184 - HMPREF1058_RS00065 0.28 -0.1
75,551 + HMPREF1058_RS00065 0.49 -0.3
75,560 + HMPREF1058_RS00065 0.50 +0.2
75,694 + HMPREF1058_RS00065 0.57 +0.2
75,780 + HMPREF1058_RS00065 0.62 +0.7
75,781 - HMPREF1058_RS00065 0.62 -1.7
75,781 - HMPREF1058_RS00065 0.62 +1.9
75,799 + HMPREF1058_RS00065 0.63 -1.5
75,985 - HMPREF1058_RS00065 0.73 +0.5
76,044 + HMPREF1058_RS00065 0.77 +1.2
76,079 - HMPREF1058_RS00065 0.79 +0.9
76,079 - HMPREF1058_RS00065 0.79 -1.1
76,199 - HMPREF1058_RS00065 0.85 -1.1
76,276 - HMPREF1058_RS00065 0.90 +1.2
76,305 + -1.3
76,322 + -0.1
76,322 + -0.1
76,323 - -2.7
76,323 - -1.1
76,339 - +0.2
76,396 + -1.1
76,451 - +1.5
76,462 - +1.4
76,488 - +1.2
76,507 + +2.4
76,508 - -1.7
76,538 + -0.9
76,571 + +2.5
76,571 + -1.3
76,571 + +0.6
76,585 + +1.6
76,626 - -0.6
76,650 + HMPREF1058_RS00060 0.11 +0.9
76,653 + HMPREF1058_RS00060 0.11 +1.5
76,734 - HMPREF1058_RS00060 0.19 +3.7
76,756 + HMPREF1058_RS00060 0.21 +1.0
76,756 + HMPREF1058_RS00060 0.21 +1.3
76,807 - HMPREF1058_RS00060 0.27 -0.5
76,865 - HMPREF1058_RS00060 0.32 +1.7
76,870 + HMPREF1058_RS00060 0.33 +3.4
76,933 + HMPREF1058_RS00060 0.39 -0.1
77,060 + HMPREF1058_RS00060 0.52 +0.2
77,061 - HMPREF1058_RS00060 0.52 +1.5
77,064 + HMPREF1058_RS00060 0.53 -0.9
77,065 - HMPREF1058_RS00060 0.53 +0.2
77,065 - HMPREF1058_RS00060 0.53 -0.1
77,065 - +1.5
77,081 + HMPREF1058_RS00060 0.54 -0.1
77,138 + HMPREF1058_RS00060 0.60 +0.9
77,141 - HMPREF1058_RS00060 0.60 +2.2
77,215 + HMPREF1058_RS00060 0.68 -1.4
77,279 + HMPREF1058_RS00060 0.74 -0.3
77,303 - HMPREF1058_RS00060 0.77 -0.6
77,341 + HMPREF1058_RS00060 0.81 -1.1
77,368 + HMPREF1058_RS00060 0.83 +1.8
77,379 + HMPREF1058_RS00060 0.84 +1.5
77,419 + HMPREF1058_RS00060 0.88 +0.6
77,420 - HMPREF1058_RS00060 0.88 +0.7
77,421 + HMPREF1058_RS00060 0.89 -1.1
77,422 - HMPREF1058_RS00060 0.89 +0.4

Or see this region's nucleotide sequence