Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS00630

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse13; day1

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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_RS00635 and HMPREF1058_RS00630 are separated by 194 nucleotidesHMPREF1058_RS00630 and HMPREF1058_RS00625 are separated by 27 nucleotides HMPREF1058_RS00635: HMPREF1058_RS00635 - substrate-binding domain-containing protein, at 26,317 to 29,043 _RS00635 HMPREF1058_RS00630: HMPREF1058_RS00630 - carbohydrate kinase, at 29,238 to 30,125 _RS00630 HMPREF1058_RS00625: HMPREF1058_RS00625 - MFS transporter, at 30,153 to 31,313 _RS00625 Position (kb) 29 30 31Strain fitness (log2 ratio) -4 -3 -2 -1 0 1at 28.254 kb on - strand, within HMPREF1058_RS00635at 28.376 kb on + strand, within HMPREF1058_RS00635at 28.421 kb on - strand, within HMPREF1058_RS00635at 28.421 kb on - strand, within HMPREF1058_RS00635at 28.626 kb on + strand, within HMPREF1058_RS00635at 28.626 kb on + strand, within HMPREF1058_RS00635at 28.627 kb on - strand, within HMPREF1058_RS00635at 28.627 kb on - strand, within HMPREF1058_RS00635at 28.628 kb on + strand, within HMPREF1058_RS00635at 28.629 kb on - strand, within HMPREF1058_RS00635at 28.659 kb on + strand, within HMPREF1058_RS00635at 28.681 kb on - strand, within HMPREF1058_RS00635at 28.681 kb on - strand, within HMPREF1058_RS00635at 28.818 kb on - strandat 28.824 kb on + strandat 28.825 kb on - strandat 28.831 kb on + strandat 28.945 kb on - strandat 28.965 kb on - strandat 28.974 kb on + strandat 29.062 kb on - strandat 29.062 kb on - strandat 29.075 kb on - strandat 29.146 kb on - strandat 29.158 kb on - strandat 29.298 kb on + strandat 29.298 kb on + strandat 29.299 kb on - strandat 29.299 kb on - strandat 29.299 kb on - strandat 29.299 kb on - strandat 29.302 kb on + strandat 29.303 kb on - strandat 29.327 kb on + strand, within HMPREF1058_RS00630at 29.465 kb on - strand, within HMPREF1058_RS00630at 29.510 kb on - strand, within HMPREF1058_RS00630at 29.534 kb on + strand, within HMPREF1058_RS00630at 29.567 kb on + strand, within HMPREF1058_RS00630at 29.609 kb on + strand, within HMPREF1058_RS00630at 29.649 kb on - strand, within HMPREF1058_RS00630at 29.775 kb on + strand, within HMPREF1058_RS00630at 29.825 kb on + strand, within HMPREF1058_RS00630at 29.850 kb on + strand, within HMPREF1058_RS00630at 29.857 kb on + strand, within HMPREF1058_RS00630at 29.858 kb on - strand, within HMPREF1058_RS00630at 29.861 kb on + strandat 29.861 kb on + strand, within HMPREF1058_RS00630at 29.862 kb on - strand, within HMPREF1058_RS00630at 29.862 kb on - strand, within HMPREF1058_RS00630at 29.862 kb on - strand, within HMPREF1058_RS00630at 29.862 kb on - strand, within HMPREF1058_RS00630at 29.862 kb on - strand, within HMPREF1058_RS00630at 29.862 kb on - strand, within HMPREF1058_RS00630at 30.131 kb on + strandat 30.131 kb on + strandat 30.175 kb on + strandat 30.175 kb on + strandat 30.176 kb on - strandat 30.176 kb on - strandat 30.188 kb on - strandat 30.268 kb on - strandat 30.356 kb on + strand, within HMPREF1058_RS00625at 30.357 kb on - strand, within HMPREF1058_RS00625at 30.357 kb on - strand, within HMPREF1058_RS00625at 30.432 kb on + strand, within HMPREF1058_RS00625at 30.506 kb on + strand, within HMPREF1058_RS00625at 30.678 kb on - strand, within HMPREF1058_RS00625at 30.791 kb on + strand, within HMPREF1058_RS00625at 30.792 kb on - strand, within HMPREF1058_RS00625at 30.794 kb on - strand, within HMPREF1058_RS00625at 30.804 kb on + strand, within HMPREF1058_RS00625at 30.804 kb on + strand, within HMPREF1058_RS00625at 30.805 kb on - strand, within HMPREF1058_RS00625at 30.865 kb on + strand, within HMPREF1058_RS00625at 30.941 kb on + strand, within HMPREF1058_RS00625at 30.944 kb on + strand, within HMPREF1058_RS00625at 31.104 kb on + strand, within HMPREF1058_RS00625at 31.109 kb on + strand, within HMPREF1058_RS00625at 31.109 kb on + strand, within HMPREF1058_RS00625at 31.109 kb on + strand, within HMPREF1058_RS00625at 31.121 kb on + strand, within HMPREF1058_RS00625at 31.122 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse13; day1
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28,254 - HMPREF1058_RS00635 0.71 -0.4
28,376 + HMPREF1058_RS00635 0.76 -0.5
28,421 - HMPREF1058_RS00635 0.77 -0.7
28,421 - HMPREF1058_RS00635 0.77 +1.4
28,626 + HMPREF1058_RS00635 0.85 -0.7
28,626 + HMPREF1058_RS00635 0.85 -0.6
28,627 - HMPREF1058_RS00635 0.85 -1.7
28,627 - HMPREF1058_RS00635 0.85 +0.0
28,628 + HMPREF1058_RS00635 0.85 -1.1
28,629 - HMPREF1058_RS00635 0.85 -0.6
28,659 + HMPREF1058_RS00635 0.86 -1.5
28,681 - HMPREF1058_RS00635 0.87 -0.9
28,681 - HMPREF1058_RS00635 0.87 -0.6
28,818 - -0.6
28,824 + -1.8
28,825 - -1.8
28,831 + -0.2
28,945 - -2.4
28,965 - -0.9
28,974 + -0.6
29,062 - -0.8
29,062 - +0.4
29,075 - +0.2
29,146 - -0.2
29,158 - -1.7
29,298 + -2.3
29,298 + -1.2
29,299 - -2.6
29,299 - -1.0
29,299 - -1.4
29,299 - -1.4
29,302 + -1.2
29,303 - -1.5
29,327 + HMPREF1058_RS00630 0.10 -1.8
29,465 - HMPREF1058_RS00630 0.26 -1.4
29,510 - HMPREF1058_RS00630 0.31 -2.3
29,534 + HMPREF1058_RS00630 0.33 -2.0
29,567 + HMPREF1058_RS00630 0.37 -1.9
29,609 + HMPREF1058_RS00630 0.42 -0.9
29,649 - HMPREF1058_RS00630 0.46 -3.7
29,775 + HMPREF1058_RS00630 0.60 -1.9
29,825 + HMPREF1058_RS00630 0.66 -1.8
29,850 + HMPREF1058_RS00630 0.69 -1.7
29,857 + HMPREF1058_RS00630 0.70 -3.8
29,858 - HMPREF1058_RS00630 0.70 -1.9
29,861 + -2.5
29,861 + HMPREF1058_RS00630 0.70 -2.3
29,862 - HMPREF1058_RS00630 0.70 -1.5
29,862 - HMPREF1058_RS00630 0.70 -1.0
29,862 - HMPREF1058_RS00630 0.70 -1.5
29,862 - HMPREF1058_RS00630 0.70 -2.8
29,862 - HMPREF1058_RS00630 0.70 -2.1
29,862 - HMPREF1058_RS00630 0.70 -2.0
30,131 + -2.3
30,131 + -2.3
30,175 + -2.5
30,175 + -3.7
30,176 - -3.1
30,176 - -3.5
30,188 - -3.5
30,268 - -3.8
30,356 + HMPREF1058_RS00625 0.17 -4.1
30,357 - HMPREF1058_RS00625 0.18 -4.5
30,357 - HMPREF1058_RS00625 0.18 -0.9
30,432 + HMPREF1058_RS00625 0.24 -2.2
30,506 + HMPREF1058_RS00625 0.30 -1.1
30,678 - HMPREF1058_RS00625 0.45 -3.3
30,791 + HMPREF1058_RS00625 0.55 -3.7
30,792 - HMPREF1058_RS00625 0.55 -4.6
30,794 - HMPREF1058_RS00625 0.55 -4.0
30,804 + HMPREF1058_RS00625 0.56 -3.3
30,804 + HMPREF1058_RS00625 0.56 -3.7
30,805 - HMPREF1058_RS00625 0.56 -1.7
30,865 + HMPREF1058_RS00625 0.61 -3.2
30,941 + HMPREF1058_RS00625 0.68 -2.7
30,944 + HMPREF1058_RS00625 0.68 -2.9
31,104 + HMPREF1058_RS00625 0.82 -3.3
31,109 + HMPREF1058_RS00625 0.82 -2.1
31,109 + HMPREF1058_RS00625 0.82 -3.0
31,109 + HMPREF1058_RS00625 0.82 -2.0
31,121 + HMPREF1058_RS00625 0.83 -1.8
31,122 - -0.2

Or see this region's nucleotide sequence