Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS03000

Experiment: Rhamnogalacturonan from soy bean pectic fibre 2.5 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_RS03015 and HMPREF1058_RS03010 are separated by 123 nucleotidesHMPREF1058_RS03010 and HMPREF1058_RS03000 are separated by 251 nucleotidesHMPREF1058_RS03000 and HMPREF1058_RS02995 are separated by 12 nucleotides HMPREF1058_RS03015: HMPREF1058_RS03015 - DUF3874 domain-containing protein, at 31,658 to 33,754 _RS03015 HMPREF1058_RS03010: HMPREF1058_RS03010 - hypothetical protein, at 33,878 to 34,312 _RS03010 HMPREF1058_RS03000: HMPREF1058_RS03000 - IMP dehydrogenase, at 34,564 to 36,039 _RS03000 HMPREF1058_RS02995: HMPREF1058_RS02995 - peptidylprolyl isomerase, at 36,052 to 37,389 _RS02995 Position (kb) 34 35 36 37Strain fitness (log2 ratio) -4 -3 -2 -1 0 1at 33.783 kb on + strandat 33.784 kb on - strandat 33.784 kb on - strandat 33.831 kb on + strandat 34.040 kb on - strand, within HMPREF1058_RS03010at 34.188 kb on - strand, within HMPREF1058_RS03010at 34.340 kb on - strandat 34.373 kb on + strandat 34.423 kb on + strandat 34.526 kb on - strandat 34.540 kb on + strandat 34.564 kb on - strandat 34.572 kb on + strandat 34.572 kb on + strandat 34.573 kb on - strandat 34.573 kb on - strandat 34.616 kb on + strandat 34.617 kb on - strandat 34.617 kb on - strandat 34.823 kb on + strand, within HMPREF1058_RS03000at 34.858 kb on + strand, within HMPREF1058_RS03000at 34.960 kb on + strand, within HMPREF1058_RS03000at 34.961 kb on - strand, within HMPREF1058_RS03000at 34.968 kb on - strand, within HMPREF1058_RS03000at 34.971 kb on + strand, within HMPREF1058_RS03000at 35.020 kb on - strand, within HMPREF1058_RS03000at 35.160 kb on + strand, within HMPREF1058_RS03000at 35.160 kb on + strand, within HMPREF1058_RS03000at 35.161 kb on - strand, within HMPREF1058_RS03000at 35.173 kb on - strand, within HMPREF1058_RS03000at 35.176 kb on - strand, within HMPREF1058_RS03000at 35.388 kb on + strand, within HMPREF1058_RS03000at 35.397 kb on - strand, within HMPREF1058_RS03000at 35.401 kb on - strand, within HMPREF1058_RS03000at 35.481 kb on + strand, within HMPREF1058_RS03000at 35.537 kb on - strand, within HMPREF1058_RS03000at 35.568 kb on + strand, within HMPREF1058_RS03000at 35.568 kb on + strand, within HMPREF1058_RS03000at 35.569 kb on - strand, within HMPREF1058_RS03000at 35.640 kb on + strand, within HMPREF1058_RS03000at 35.641 kb on - strand, within HMPREF1058_RS03000at 35.692 kb on - strand, within HMPREF1058_RS03000at 35.776 kb on + strand, within HMPREF1058_RS03000at 35.838 kb on - strand, within HMPREF1058_RS03000at 35.838 kb on - strand, within HMPREF1058_RS03000at 35.924 kb on + strandat 35.924 kb on + strandat 35.924 kb on + strandat 35.925 kb on - strandat 35.925 kb on - strandat 35.958 kb on + strandat 35.959 kb on - strandat 35.972 kb on + strandat 36.022 kb on + strandat 36.023 kb on - strandat 36.044 kb on + strandat 36.131 kb on + strandat 36.175 kb on + strandat 36.234 kb on + strand, within HMPREF1058_RS02995at 36.234 kb on + strand, within HMPREF1058_RS02995at 36.239 kb on + strand, within HMPREF1058_RS02995at 36.245 kb on + strand, within HMPREF1058_RS02995at 36.261 kb on + strand, within HMPREF1058_RS02995at 36.270 kb on - strand, within HMPREF1058_RS02995at 36.273 kb on + strand, within HMPREF1058_RS02995at 36.273 kb on + strand, within HMPREF1058_RS02995at 36.274 kb on - strand, within HMPREF1058_RS02995at 36.274 kb on - strand, within HMPREF1058_RS02995at 36.439 kb on + strand, within HMPREF1058_RS02995at 36.503 kb on - strand, within HMPREF1058_RS02995at 36.684 kb on + strand, within HMPREF1058_RS02995at 36.697 kb on - strand, within HMPREF1058_RS02995at 36.697 kb on - strand, within HMPREF1058_RS02995at 36.697 kb on - strand, within HMPREF1058_RS02995at 36.786 kb on + strand, within HMPREF1058_RS02995at 36.786 kb on + strand, within HMPREF1058_RS02995at 36.787 kb on - strand, within HMPREF1058_RS02995at 36.953 kb on - strand, within HMPREF1058_RS02995at 36.953 kb on - strand, within HMPREF1058_RS02995

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Per-strain Table

Position Strand Gene LocusTag Fraction Rhamnogalacturonan from soy bean pectic fibre 2.5 mg/ml (C)
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33,783 + -0.0
33,784 - +0.1
33,784 - +0.5
33,831 + +0.3
34,040 - HMPREF1058_RS03010 0.37 -0.6
34,188 - HMPREF1058_RS03010 0.71 -0.6
34,340 - +0.6
34,373 + -1.2
34,423 + +0.3
34,526 - -3.2
34,540 + +1.7
34,564 - -2.9
34,572 + -3.0
34,572 + -1.1
34,573 - -1.2
34,573 - -3.8
34,616 + -3.7
34,617 - -1.4
34,617 - +0.2
34,823 + HMPREF1058_RS03000 0.18 +0.0
34,858 + HMPREF1058_RS03000 0.20 -1.0
34,960 + HMPREF1058_RS03000 0.27 -3.1
34,961 - HMPREF1058_RS03000 0.27 -3.2
34,968 - HMPREF1058_RS03000 0.27 -2.4
34,971 + HMPREF1058_RS03000 0.28 -3.1
35,020 - HMPREF1058_RS03000 0.31 -1.1
35,160 + HMPREF1058_RS03000 0.40 -1.7
35,160 + HMPREF1058_RS03000 0.40 -0.8
35,161 - HMPREF1058_RS03000 0.40 -1.5
35,173 - HMPREF1058_RS03000 0.41 +1.2
35,176 - HMPREF1058_RS03000 0.41 -1.6
35,388 + HMPREF1058_RS03000 0.56 -3.8
35,397 - HMPREF1058_RS03000 0.56 -1.0
35,401 - HMPREF1058_RS03000 0.57 -2.7
35,481 + HMPREF1058_RS03000 0.62 -3.5
35,537 - HMPREF1058_RS03000 0.66 -1.3
35,568 + HMPREF1058_RS03000 0.68 -2.8
35,568 + HMPREF1058_RS03000 0.68 -2.2
35,569 - HMPREF1058_RS03000 0.68 -2.1
35,640 + HMPREF1058_RS03000 0.73 -4.5
35,641 - HMPREF1058_RS03000 0.73 -1.4
35,692 - HMPREF1058_RS03000 0.76 -2.6
35,776 + HMPREF1058_RS03000 0.82 -4.1
35,838 - HMPREF1058_RS03000 0.86 -3.0
35,838 - HMPREF1058_RS03000 0.86 -3.0
35,924 + -3.1
35,924 + -4.2
35,924 + -1.8
35,925 - -0.6
35,925 - -0.7
35,958 + -2.8
35,959 - -2.5
35,972 + -0.2
36,022 + +1.0
36,023 - -0.9
36,044 + -0.6
36,131 + +1.4
36,175 + -0.4
36,234 + HMPREF1058_RS02995 0.14 -0.4
36,234 + HMPREF1058_RS02995 0.14 -0.4
36,239 + HMPREF1058_RS02995 0.14 -0.0
36,245 + HMPREF1058_RS02995 0.14 +0.8
36,261 + HMPREF1058_RS02995 0.16 +0.4
36,270 - HMPREF1058_RS02995 0.16 -0.3
36,273 + HMPREF1058_RS02995 0.17 -0.3
36,273 + HMPREF1058_RS02995 0.17 -0.6
36,274 - HMPREF1058_RS02995 0.17 +0.9
36,274 - HMPREF1058_RS02995 0.17 -0.1
36,439 + HMPREF1058_RS02995 0.29 -0.2
36,503 - HMPREF1058_RS02995 0.34 -0.5
36,684 + HMPREF1058_RS02995 0.47 +0.3
36,697 - HMPREF1058_RS02995 0.48 +0.4
36,697 - HMPREF1058_RS02995 0.48 -0.7
36,697 - HMPREF1058_RS02995 0.48 -1.5
36,786 + HMPREF1058_RS02995 0.55 +0.7
36,786 + HMPREF1058_RS02995 0.55 +0.2
36,787 - HMPREF1058_RS02995 0.55 -1.7
36,953 - HMPREF1058_RS02995 0.67 -0.3
36,953 - HMPREF1058_RS02995 0.67 +0.2

Or see this region's nucleotide sequence