Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS04370

Experiment: 3'-fucosyllactose 10 mg/mL (C)

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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_RS04375 and HMPREF1058_RS04370 are separated by 11 nucleotidesHMPREF1058_RS04370 and HMPREF1058_RS04365 are separated by 48 nucleotides HMPREF1058_RS04375: HMPREF1058_RS04375 - carbon-nitrogen hydrolase, at 48,973 to 49,860 _RS04375 HMPREF1058_RS04370: HMPREF1058_RS04370 - agmatine deiminase family protein, at 49,872 to 50,903 _RS04370 HMPREF1058_RS04365: HMPREF1058_RS04365 - translocation/assembly module TamB, at 50,952 to 55,412 _RS04365 Position (kb) 49 50 51Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3 4 5at 48.874 kb on + strandat 48.885 kb on + strandat 48.886 kb on - strandat 48.909 kb on - strandat 48.970 kb on + strandat 49.086 kb on + strand, within HMPREF1058_RS04375at 49.121 kb on - strand, within HMPREF1058_RS04375at 49.276 kb on + strand, within HMPREF1058_RS04375at 49.322 kb on - strand, within HMPREF1058_RS04375at 49.322 kb on - strand, within HMPREF1058_RS04375at 49.324 kb on - strand, within HMPREF1058_RS04375at 49.330 kb on - strand, within HMPREF1058_RS04375at 49.335 kb on - strand, within HMPREF1058_RS04375at 49.335 kb on - strand, within HMPREF1058_RS04375at 49.337 kb on - strand, within HMPREF1058_RS04375at 49.337 kb on - strand, within HMPREF1058_RS04375at 49.337 kb on - strand, within HMPREF1058_RS04375at 49.338 kb on + strand, within HMPREF1058_RS04375at 49.408 kb on + strand, within HMPREF1058_RS04375at 49.408 kb on + strand, within HMPREF1058_RS04375at 49.409 kb on - strand, within HMPREF1058_RS04375at 49.503 kb on + strand, within HMPREF1058_RS04375at 49.528 kb on + strand, within HMPREF1058_RS04375at 49.610 kb on - strand, within HMPREF1058_RS04375at 49.775 kb on - strandat 49.833 kb on + strandat 49.834 kb on - strandat 49.860 kb on + strandat 49.864 kb on + strandat 49.865 kb on - strandat 49.866 kb on + strandat 49.876 kb on + strandat 49.876 kb on + strandat 49.877 kb on - strandat 49.878 kb on + strandat 49.878 kb on + strandat 49.953 kb on + strandat 49.954 kb on - strandat 49.956 kb on + strandat 49.956 kb on + strandat 50.004 kb on - strand, within HMPREF1058_RS04370at 50.023 kb on + strand, within HMPREF1058_RS04370at 50.068 kb on + strand, within HMPREF1058_RS04370at 50.101 kb on + strand, within HMPREF1058_RS04370at 50.169 kb on + strand, within HMPREF1058_RS04370at 50.170 kb on - strand, within HMPREF1058_RS04370at 50.233 kb on + strand, within HMPREF1058_RS04370at 50.234 kb on - strand, within HMPREF1058_RS04370at 50.234 kb on - strand, within HMPREF1058_RS04370at 50.322 kb on + strand, within HMPREF1058_RS04370at 50.322 kb on + strand, within HMPREF1058_RS04370at 50.334 kb on + strand, within HMPREF1058_RS04370at 50.545 kb on + strand, within HMPREF1058_RS04370at 50.701 kb on + strand, within HMPREF1058_RS04370at 50.701 kb on + strand, within HMPREF1058_RS04370at 50.709 kb on + strand, within HMPREF1058_RS04370at 50.709 kb on + strand, within HMPREF1058_RS04370at 50.714 kb on + strand, within HMPREF1058_RS04370at 50.714 kb on + strand, within HMPREF1058_RS04370at 50.714 kb on + strand, within HMPREF1058_RS04370at 50.715 kb on - strand, within HMPREF1058_RS04370at 50.715 kb on - strand, within HMPREF1058_RS04370at 50.818 kb on + strandat 50.818 kb on + strandat 50.819 kb on - strandat 50.851 kb on - strandat 50.891 kb on - strandat 50.904 kb on - strandat 51.074 kb on + strandat 51.107 kb on + strandat 51.108 kb on - strandat 51.109 kb on + strandat 51.257 kb on + strandat 51.257 kb on + strandat 51.313 kb on - strandat 51.350 kb on + strandat 51.350 kb on + strandat 51.351 kb on - strandat 51.351 kb on - strandat 51.351 kb on - strandat 51.375 kb on - strandat 51.375 kb on - strandat 51.436 kb on + strand, within HMPREF1058_RS04365at 51.437 kb on - strand, within HMPREF1058_RS04365at 51.473 kb on + strand, within HMPREF1058_RS04365at 51.503 kb on + strand, within HMPREF1058_RS04365at 51.504 kb on - strand, within HMPREF1058_RS04365at 51.636 kb on + strand, within HMPREF1058_RS04365at 51.673 kb on + strand, within HMPREF1058_RS04365at 51.675 kb on + strand, within HMPREF1058_RS04365at 51.676 kb on - strand, within HMPREF1058_RS04365at 51.760 kb on - strand, within HMPREF1058_RS04365at 51.762 kb on + strand, within HMPREF1058_RS04365at 51.777 kb on + strand, within HMPREF1058_RS04365at 51.777 kb on + strand, within HMPREF1058_RS04365at 51.778 kb on - strand, within HMPREF1058_RS04365at 51.782 kb on + strand, within HMPREF1058_RS04365at 51.785 kb on - strand, within HMPREF1058_RS04365at 51.798 kb on + strand, within HMPREF1058_RS04365at 51.805 kb on + strand, within HMPREF1058_RS04365at 51.805 kb on + strand, within HMPREF1058_RS04365at 51.806 kb on - strand, within HMPREF1058_RS04365at 51.806 kb on - strand, within HMPREF1058_RS04365at 51.806 kb on - strand, within HMPREF1058_RS04365at 51.876 kb on - strand, within HMPREF1058_RS04365at 51.878 kb on + strand, within HMPREF1058_RS04365at 51.879 kb on + strand, within HMPREF1058_RS04365at 51.879 kb on - strand, within HMPREF1058_RS04365

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Per-strain Table

Position Strand Gene LocusTag Fraction 3'-fucosyllactose 10 mg/mL (C)
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48,874 + -1.6
48,885 + +1.3
48,886 - +0.8
48,909 - -1.6
48,970 + +0.5
49,086 + HMPREF1058_RS04375 0.13 -1.3
49,121 - HMPREF1058_RS04375 0.17 -2.1
49,276 + HMPREF1058_RS04375 0.34 +0.0
49,322 - HMPREF1058_RS04375 0.39 -1.0
49,322 - HMPREF1058_RS04375 0.39 -1.8
49,324 - HMPREF1058_RS04375 0.40 -3.0
49,330 - HMPREF1058_RS04375 0.40 -2.9
49,335 - HMPREF1058_RS04375 0.41 +0.3
49,335 - HMPREF1058_RS04375 0.41 +1.2
49,337 - HMPREF1058_RS04375 0.41 -2.3
49,337 - HMPREF1058_RS04375 0.41 -1.0
49,337 - HMPREF1058_RS04375 0.41 -0.5
49,338 + HMPREF1058_RS04375 0.41 -1.1
49,408 + HMPREF1058_RS04375 0.49 +1.0
49,408 + HMPREF1058_RS04375 0.49 +0.3
49,409 - HMPREF1058_RS04375 0.49 -1.4
49,503 + HMPREF1058_RS04375 0.60 -0.6
49,528 + HMPREF1058_RS04375 0.62 -3.0
49,610 - HMPREF1058_RS04375 0.72 -1.6
49,775 - -1.5
49,833 + -0.4
49,834 - +1.4
49,860 + -0.9
49,864 + +0.9
49,865 - +0.1
49,866 + +1.2
49,876 + -2.4
49,876 + -1.2
49,877 - -1.5
49,878 + +1.5
49,878 + +2.3
49,953 + +2.1
49,954 - +3.2
49,956 + +0.6
49,956 + +0.9
50,004 - HMPREF1058_RS04370 0.13 +1.0
50,023 + HMPREF1058_RS04370 0.15 +4.8
50,068 + HMPREF1058_RS04370 0.19 +3.0
50,101 + HMPREF1058_RS04370 0.22 +2.5
50,169 + HMPREF1058_RS04370 0.29 +2.0
50,170 - HMPREF1058_RS04370 0.29 -0.2
50,233 + HMPREF1058_RS04370 0.35 +1.9
50,234 - HMPREF1058_RS04370 0.35 +1.9
50,234 - HMPREF1058_RS04370 0.35 +1.2
50,322 + HMPREF1058_RS04370 0.44 +5.4
50,322 + HMPREF1058_RS04370 0.44 +2.6
50,334 + HMPREF1058_RS04370 0.45 +1.7
50,545 + HMPREF1058_RS04370 0.65 +2.1
50,701 + HMPREF1058_RS04370 0.80 +2.0
50,701 + HMPREF1058_RS04370 0.80 -0.7
50,709 + HMPREF1058_RS04370 0.81 +3.6
50,709 + HMPREF1058_RS04370 0.81 +1.9
50,714 + HMPREF1058_RS04370 0.82 +2.6
50,714 + HMPREF1058_RS04370 0.82 +3.1
50,714 + HMPREF1058_RS04370 0.82 +3.8
50,715 - HMPREF1058_RS04370 0.82 +3.2
50,715 - HMPREF1058_RS04370 0.82 +3.2
50,818 + +3.0
50,818 + +2.1
50,819 - +2.4
50,851 - +3.7
50,891 - +3.0
50,904 - +0.8
51,074 + +2.3
51,107 + -0.2
51,108 - +0.5
51,109 + +1.0
51,257 + -0.1
51,257 + +1.6
51,313 - -0.3
51,350 + +1.0
51,350 + +2.6
51,351 - -0.6
51,351 - +0.1
51,351 - +0.6
51,375 - +0.2
51,375 - +0.3
51,436 + HMPREF1058_RS04365 0.11 +0.3
51,437 - HMPREF1058_RS04365 0.11 -1.9
51,473 + HMPREF1058_RS04365 0.12 -0.4
51,503 + HMPREF1058_RS04365 0.12 -0.3
51,504 - HMPREF1058_RS04365 0.12 +1.5
51,636 + HMPREF1058_RS04365 0.15 +1.5
51,673 + HMPREF1058_RS04365 0.16 +0.6
51,675 + HMPREF1058_RS04365 0.16 +1.0
51,676 - HMPREF1058_RS04365 0.16 -1.2
51,760 - HMPREF1058_RS04365 0.18 -0.1
51,762 + HMPREF1058_RS04365 0.18 +0.7
51,777 + HMPREF1058_RS04365 0.18 +1.0
51,777 + HMPREF1058_RS04365 0.18 -0.3
51,778 - HMPREF1058_RS04365 0.19 -0.1
51,782 + HMPREF1058_RS04365 0.19 -1.0
51,785 - HMPREF1058_RS04365 0.19 +0.2
51,798 + HMPREF1058_RS04365 0.19 +0.4
51,805 + HMPREF1058_RS04365 0.19 +1.9
51,805 + HMPREF1058_RS04365 0.19 +1.9
51,806 - HMPREF1058_RS04365 0.19 -0.4
51,806 - HMPREF1058_RS04365 0.19 +0.2
51,806 - HMPREF1058_RS04365 0.19 +0.9
51,876 - HMPREF1058_RS04365 0.21 +0.2
51,878 + HMPREF1058_RS04365 0.21 -0.0
51,879 + HMPREF1058_RS04365 0.21 +0.9
51,879 - HMPREF1058_RS04365 0.21 +1.4

Or see this region's nucleotide sequence