Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS04880

Experiment: D-Glucose (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_RS04890 and HMPREF1058_RS04885 are separated by 92 nucleotidesHMPREF1058_RS04885 and HMPREF1058_RS04880 are separated by 88 nucleotidesHMPREF1058_RS04880 and HMPREF1058_RS04875 are separated by 65 nucleotidesHMPREF1058_RS04875 and HMPREF1058_RS04870 are separated by 104 nucleotides HMPREF1058_RS04890: HMPREF1058_RS04890 - hypothetical protein, at 296,568 to 297,089 _RS04890 HMPREF1058_RS04885: HMPREF1058_RS04885 - hypothetical protein, at 297,182 to 297,715 _RS04885 HMPREF1058_RS04880: HMPREF1058_RS04880 - SMI1/KNR4 family protein, at 297,804 to 298,472 _RS04880 HMPREF1058_RS04875: HMPREF1058_RS04875 - hypothetical protein, at 298,538 to 299,233 _RS04875 HMPREF1058_RS04870: HMPREF1058_RS04870 - RhsIA family immunity protein, at 299,338 to 300,315 _RS04870 Position (kb) 297 298 299Strain fitness (log2 ratio) -2 -1 0 1 2at 296.806 kb on - strand, within HMPREF1058_RS04890at 296.806 kb on - strand, within HMPREF1058_RS04890at 296.900 kb on - strand, within HMPREF1058_RS04890at 296.919 kb on - strand, within HMPREF1058_RS04890at 296.933 kb on - strand, within HMPREF1058_RS04890at 297.064 kb on + strandat 297.082 kb on - strandat 297.093 kb on - strandat 297.155 kb on - strandat 297.172 kb on - strandat 297.194 kb on + strandat 297.194 kb on + strandat 297.197 kb on + strandat 297.209 kb on - strandat 297.218 kb on + strandat 297.225 kb on + strandat 297.256 kb on + strand, within HMPREF1058_RS04885at 297.257 kb on - strand, within HMPREF1058_RS04885at 297.268 kb on + strand, within HMPREF1058_RS04885at 297.268 kb on + strand, within HMPREF1058_RS04885at 297.268 kb on + strand, within HMPREF1058_RS04885at 297.269 kb on - strand, within HMPREF1058_RS04885at 297.269 kb on - strand, within HMPREF1058_RS04885at 297.275 kb on - strand, within HMPREF1058_RS04885at 297.336 kb on - strand, within HMPREF1058_RS04885at 297.392 kb on - strand, within HMPREF1058_RS04885at 297.412 kb on + strand, within HMPREF1058_RS04885at 297.435 kb on + strand, within HMPREF1058_RS04885at 297.504 kb on + strand, within HMPREF1058_RS04885at 297.519 kb on + strand, within HMPREF1058_RS04885at 297.539 kb on - strand, within HMPREF1058_RS04885at 297.539 kb on - strand, within HMPREF1058_RS04885at 297.541 kb on + strand, within HMPREF1058_RS04885at 297.545 kb on + strand, within HMPREF1058_RS04885at 297.546 kb on - strand, within HMPREF1058_RS04885at 297.565 kb on + strand, within HMPREF1058_RS04885at 297.572 kb on - strand, within HMPREF1058_RS04885at 297.584 kb on + strand, within HMPREF1058_RS04885at 297.584 kb on + strand, within HMPREF1058_RS04885at 297.585 kb on - strand, within HMPREF1058_RS04885at 297.585 kb on - strand, within HMPREF1058_RS04885at 297.585 kb on - strand, within HMPREF1058_RS04885at 297.594 kb on - strand, within HMPREF1058_RS04885at 297.634 kb on + strand, within HMPREF1058_RS04885at 297.653 kb on + strand, within HMPREF1058_RS04885at 297.653 kb on + strand, within HMPREF1058_RS04885at 297.667 kb on - strandat 297.776 kb on + strandat 297.798 kb on + strandat 297.799 kb on - strandat 297.804 kb on - strandat 297.829 kb on + strandat 297.829 kb on + strandat 297.829 kb on + strandat 297.830 kb on - strandat 297.868 kb on - strandat 297.873 kb on - strand, within HMPREF1058_RS04880at 297.876 kb on + strand, within HMPREF1058_RS04880at 297.876 kb on + strand, within HMPREF1058_RS04880at 297.877 kb on - strand, within HMPREF1058_RS04880at 297.877 kb on - strand, within HMPREF1058_RS04880at 297.877 kb on - strand, within HMPREF1058_RS04880at 297.877 kb on - strand, within HMPREF1058_RS04880at 297.901 kb on + strand, within HMPREF1058_RS04880at 297.964 kb on - strand, within HMPREF1058_RS04880at 297.968 kb on + strand, within HMPREF1058_RS04880at 297.984 kb on - strand, within HMPREF1058_RS04880at 297.990 kb on + strand, within HMPREF1058_RS04880at 297.991 kb on - strand, within HMPREF1058_RS04880at 298.005 kb on - strand, within HMPREF1058_RS04880at 298.025 kb on - strand, within HMPREF1058_RS04880at 298.061 kb on + strand, within HMPREF1058_RS04880at 298.107 kb on + strand, within HMPREF1058_RS04880at 298.126 kb on - strand, within HMPREF1058_RS04880at 298.156 kb on + strand, within HMPREF1058_RS04880at 298.169 kb on - strand, within HMPREF1058_RS04880at 298.196 kb on + strand, within HMPREF1058_RS04880at 298.289 kb on - strand, within HMPREF1058_RS04880at 298.334 kb on - strand, within HMPREF1058_RS04880at 298.366 kb on + strand, within HMPREF1058_RS04880at 298.376 kb on + strand, within HMPREF1058_RS04880at 298.556 kb on + strandat 298.579 kb on + strandat 298.579 kb on + strandat 298.580 kb on - strandat 298.642 kb on + strand, within HMPREF1058_RS04875at 298.643 kb on - strand, within HMPREF1058_RS04875at 298.731 kb on + strand, within HMPREF1058_RS04875at 298.732 kb on - strand, within HMPREF1058_RS04875at 298.851 kb on - strand, within HMPREF1058_RS04875at 298.911 kb on - strand, within HMPREF1058_RS04875at 298.913 kb on + strand, within HMPREF1058_RS04875at 298.914 kb on - strand, within HMPREF1058_RS04875at 298.927 kb on - strand, within HMPREF1058_RS04875at 298.998 kb on + strand, within HMPREF1058_RS04875at 299.011 kb on + strand, within HMPREF1058_RS04875at 299.016 kb on + strand, within HMPREF1058_RS04875at 299.074 kb on + strand, within HMPREF1058_RS04875at 299.079 kb on + strand, within HMPREF1058_RS04875at 299.079 kb on + strand, within HMPREF1058_RS04875at 299.080 kb on - strand, within HMPREF1058_RS04875at 299.080 kb on - strand, within HMPREF1058_RS04875at 299.080 kb on - strand, within HMPREF1058_RS04875at 299.080 kb on - strand, within HMPREF1058_RS04875at 299.100 kb on + strand, within HMPREF1058_RS04875at 299.184 kb on + strandat 299.219 kb on - strandat 299.322 kb on + strandat 299.352 kb on + strandat 299.377 kb on - strandat 299.418 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction D-Glucose (C)
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296,806 - HMPREF1058_RS04890 0.46 +0.0
296,806 - HMPREF1058_RS04890 0.46 -0.1
296,900 - HMPREF1058_RS04890 0.64 -1.6
296,919 - HMPREF1058_RS04890 0.67 -1.6
296,933 - HMPREF1058_RS04890 0.70 +1.9
297,064 + -0.7
297,082 - -0.1
297,093 - -1.8
297,155 - -0.7
297,172 - +1.1
297,194 + -0.9
297,194 + +0.5
297,197 + -1.8
297,209 - +1.9
297,218 + +0.8
297,225 + +0.0
297,256 + HMPREF1058_RS04885 0.14 +0.1
297,257 - HMPREF1058_RS04885 0.14 +1.8
297,268 + HMPREF1058_RS04885 0.16 -0.5
297,268 + HMPREF1058_RS04885 0.16 +0.2
297,268 + HMPREF1058_RS04885 0.16 +1.1
297,269 - HMPREF1058_RS04885 0.16 -0.6
297,269 - HMPREF1058_RS04885 0.16 -1.8
297,275 - HMPREF1058_RS04885 0.17 -0.6
297,336 - HMPREF1058_RS04885 0.29 +1.1
297,392 - HMPREF1058_RS04885 0.39 +2.7
297,412 + HMPREF1058_RS04885 0.43 +0.0
297,435 + HMPREF1058_RS04885 0.47 +0.7
297,504 + HMPREF1058_RS04885 0.60 -1.6
297,519 + HMPREF1058_RS04885 0.63 +1.1
297,539 - HMPREF1058_RS04885 0.67 -2.0
297,539 - HMPREF1058_RS04885 0.67 -1.6
297,541 + HMPREF1058_RS04885 0.67 +0.9
297,545 + HMPREF1058_RS04885 0.68 -0.2
297,546 - HMPREF1058_RS04885 0.68 -0.8
297,565 + HMPREF1058_RS04885 0.72 +0.6
297,572 - HMPREF1058_RS04885 0.73 -1.2
297,584 + HMPREF1058_RS04885 0.75 +0.7
297,584 + HMPREF1058_RS04885 0.75 -1.1
297,585 - HMPREF1058_RS04885 0.75 -1.1
297,585 - HMPREF1058_RS04885 0.75 -1.0
297,585 - HMPREF1058_RS04885 0.75 +0.4
297,594 - HMPREF1058_RS04885 0.77 -1.0
297,634 + HMPREF1058_RS04885 0.85 +0.0
297,653 + HMPREF1058_RS04885 0.88 +0.1
297,653 + HMPREF1058_RS04885 0.88 -2.3
297,667 - -1.6
297,776 + +0.8
297,798 + -1.4
297,799 - +1.8
297,804 - +0.0
297,829 + -0.9
297,829 + -0.5
297,829 + -0.0
297,830 - +1.1
297,868 - +1.0
297,873 - HMPREF1058_RS04880 0.10 +0.3
297,876 + HMPREF1058_RS04880 0.11 +0.4
297,876 + HMPREF1058_RS04880 0.11 +0.7
297,877 - HMPREF1058_RS04880 0.11 -0.2
297,877 - HMPREF1058_RS04880 0.11 -0.2
297,877 - HMPREF1058_RS04880 0.11 +0.2
297,877 - HMPREF1058_RS04880 0.11 +1.3
297,901 + HMPREF1058_RS04880 0.14 -0.2
297,964 - HMPREF1058_RS04880 0.24 -0.5
297,968 + HMPREF1058_RS04880 0.25 +1.4
297,984 - HMPREF1058_RS04880 0.27 -0.2
297,990 + HMPREF1058_RS04880 0.28 +0.5
297,991 - HMPREF1058_RS04880 0.28 -0.2
298,005 - HMPREF1058_RS04880 0.30 +0.5
298,025 - HMPREF1058_RS04880 0.33 -0.9
298,061 + HMPREF1058_RS04880 0.38 +2.0
298,107 + HMPREF1058_RS04880 0.45 -0.0
298,126 - HMPREF1058_RS04880 0.48 -0.2
298,156 + HMPREF1058_RS04880 0.53 +0.7
298,169 - HMPREF1058_RS04880 0.55 -0.2
298,196 + HMPREF1058_RS04880 0.59 +0.9
298,289 - HMPREF1058_RS04880 0.72 +0.4
298,334 - HMPREF1058_RS04880 0.79 -0.2
298,366 + HMPREF1058_RS04880 0.84 +0.3
298,376 + HMPREF1058_RS04880 0.86 +0.8
298,556 + -0.8
298,579 + -0.6
298,579 + +0.5
298,580 - -0.1
298,642 + HMPREF1058_RS04875 0.15 -1.2
298,643 - HMPREF1058_RS04875 0.15 +0.0
298,731 + HMPREF1058_RS04875 0.28 +0.2
298,732 - HMPREF1058_RS04875 0.28 -0.6
298,851 - HMPREF1058_RS04875 0.45 -1.0
298,911 - HMPREF1058_RS04875 0.54 -0.5
298,913 + HMPREF1058_RS04875 0.54 -2.1
298,914 - HMPREF1058_RS04875 0.54 -0.3
298,927 - HMPREF1058_RS04875 0.56 -0.6
298,998 + HMPREF1058_RS04875 0.66 -0.4
299,011 + HMPREF1058_RS04875 0.68 +0.8
299,016 + HMPREF1058_RS04875 0.69 +0.0
299,074 + HMPREF1058_RS04875 0.77 +1.0
299,079 + HMPREF1058_RS04875 0.78 +1.5
299,079 + HMPREF1058_RS04875 0.78 +0.4
299,080 - HMPREF1058_RS04875 0.78 -2.0
299,080 - HMPREF1058_RS04875 0.78 -0.8
299,080 - HMPREF1058_RS04875 0.78 -0.2
299,080 - HMPREF1058_RS04875 0.78 -0.5
299,100 + HMPREF1058_RS04875 0.81 +2.1
299,184 + -0.8
299,219 - +0.3
299,322 + -0.2
299,352 + +0.8
299,377 - -0.5
299,418 + -0.7

Or see this region's nucleotide sequence