Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS01800

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_RS01815 and HMPREF1058_RS01810 are separated by 162 nucleotidesHMPREF1058_RS01810 and HMPREF1058_RS01805 are separated by 62 nucleotidesHMPREF1058_RS01805 and HMPREF1058_RS01800 overlap by 4 nucleotidesHMPREF1058_RS01800 and HMPREF1058_RS01795 are separated by 4 nucleotides HMPREF1058_RS01815: HMPREF1058_RS01815 - phage integrase SAM-like domain-containing protein, at 36,723 to 37,964 _RS01815 HMPREF1058_RS01810: HMPREF1058_RS01810 - tRNA-Ala, at 38,127 to 38,200 _RS01810 HMPREF1058_RS01805: HMPREF1058_RS01805 - DUF4286 family protein, at 38,263 to 38,568 _RS01805 HMPREF1058_RS01800: HMPREF1058_RS01800 - crossover junction endodeoxyribonuclease RuvC, at 38,565 to 39,134 _RS01800 HMPREF1058_RS01795: HMPREF1058_RS01795 - type I pullulanase, at 39,139 to 41,133 _RS01795 Position (kb) 38 39 40Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 37.588 kb on - strand, within HMPREF1058_RS01815at 37.636 kb on - strand, within HMPREF1058_RS01815at 37.665 kb on + strand, within HMPREF1058_RS01815at 37.697 kb on + strand, within HMPREF1058_RS01815at 37.697 kb on + strand, within HMPREF1058_RS01815at 37.697 kb on + strand, within HMPREF1058_RS01815at 37.697 kb on + strand, within HMPREF1058_RS01815at 37.698 kb on - strand, within HMPREF1058_RS01815at 37.698 kb on - strand, within HMPREF1058_RS01815at 37.718 kb on + strand, within HMPREF1058_RS01815at 37.767 kb on + strand, within HMPREF1058_RS01815at 37.774 kb on - strand, within HMPREF1058_RS01815at 37.785 kb on + strand, within HMPREF1058_RS01815at 37.786 kb on - strand, within HMPREF1058_RS01815at 37.830 kb on + strand, within HMPREF1058_RS01815at 37.831 kb on - strand, within HMPREF1058_RS01815at 37.831 kb on - strand, within HMPREF1058_RS01815at 37.849 kb on + strandat 37.849 kb on + strandat 37.849 kb on + strandat 37.849 kb on + strandat 37.871 kb on + strandat 37.920 kb on + strandat 37.948 kb on + strandat 37.972 kb on + strandat 37.977 kb on - strandat 37.988 kb on - strandat 38.213 kb on + strandat 38.249 kb on + strandat 38.259 kb on - strandat 38.262 kb on + strandat 38.262 kb on + strandat 38.338 kb on + strand, within HMPREF1058_RS01805at 38.338 kb on + strand, within HMPREF1058_RS01805at 38.339 kb on - strand, within HMPREF1058_RS01805at 38.398 kb on - strand, within HMPREF1058_RS01805at 38.451 kb on + strand, within HMPREF1058_RS01805at 38.452 kb on - strand, within HMPREF1058_RS01805at 38.516 kb on + strand, within HMPREF1058_RS01805at 38.645 kb on - strand, within HMPREF1058_RS01800at 38.693 kb on + strand, within HMPREF1058_RS01800at 38.713 kb on + strand, within HMPREF1058_RS01800at 38.747 kb on + strand, within HMPREF1058_RS01800at 38.761 kb on - strand, within HMPREF1058_RS01800at 38.761 kb on - strand, within HMPREF1058_RS01800at 38.761 kb on - strand, within HMPREF1058_RS01800at 38.880 kb on - strand, within HMPREF1058_RS01800at 38.890 kb on - strand, within HMPREF1058_RS01800at 38.975 kb on - strand, within HMPREF1058_RS01800at 38.979 kb on - strand, within HMPREF1058_RS01800at 39.045 kb on + strand, within HMPREF1058_RS01800at 39.082 kb on - strandat 39.107 kb on + strandat 39.125 kb on - strandat 39.138 kb on + strandat 39.157 kb on - strandat 39.180 kb on + strandat 39.183 kb on + strandat 39.183 kb on + strandat 39.184 kb on - strandat 39.184 kb on - strandat 39.360 kb on + strand, within HMPREF1058_RS01795at 39.402 kb on + strand, within HMPREF1058_RS01795at 39.437 kb on - strand, within HMPREF1058_RS01795at 39.455 kb on + strand, within HMPREF1058_RS01795at 39.489 kb on + strand, within HMPREF1058_RS01795at 39.516 kb on + strand, within HMPREF1058_RS01795at 39.595 kb on + strand, within HMPREF1058_RS01795at 39.667 kb on - strand, within HMPREF1058_RS01795at 39.700 kb on - strand, within HMPREF1058_RS01795at 39.730 kb on - strand, within HMPREF1058_RS01795at 39.782 kb on - strand, within HMPREF1058_RS01795at 39.826 kb on + strand, within HMPREF1058_RS01795at 39.826 kb on + strand, within HMPREF1058_RS01795at 39.828 kb on + strand, within HMPREF1058_RS01795at 39.829 kb on - strand, within HMPREF1058_RS01795at 39.889 kb on + strand, within HMPREF1058_RS01795at 39.976 kb on + strand, within HMPREF1058_RS01795at 39.977 kb on - strand, within HMPREF1058_RS01795at 40.017 kb on + strand, within HMPREF1058_RS01795at 40.120 kb on + strand, within HMPREF1058_RS01795at 40.122 kb on + strand, within HMPREF1058_RS01795at 40.123 kb on - strand, within HMPREF1058_RS01795at 40.123 kb on - strand, within HMPREF1058_RS01795at 40.127 kb on + strand, within HMPREF1058_RS01795at 40.128 kb on - strand, within HMPREF1058_RS01795at 40.128 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4
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37,588 - HMPREF1058_RS01815 0.70 -2.6
37,636 - HMPREF1058_RS01815 0.74 +2.7
37,665 + HMPREF1058_RS01815 0.76 +0.2
37,697 + HMPREF1058_RS01815 0.78 -0.4
37,697 + HMPREF1058_RS01815 0.78 +2.0
37,697 + HMPREF1058_RS01815 0.78 -2.4
37,697 + HMPREF1058_RS01815 0.78 -1.4
37,698 - HMPREF1058_RS01815 0.79 -0.1
37,698 - HMPREF1058_RS01815 0.79 +0.8
37,718 + HMPREF1058_RS01815 0.80 +0.2
37,767 + HMPREF1058_RS01815 0.84 +1.6
37,774 - HMPREF1058_RS01815 0.85 -0.1
37,785 + HMPREF1058_RS01815 0.86 +0.6
37,786 - HMPREF1058_RS01815 0.86 -0.2
37,830 + HMPREF1058_RS01815 0.89 -3.0
37,831 - HMPREF1058_RS01815 0.89 -0.5
37,831 - HMPREF1058_RS01815 0.89 +0.2
37,849 + +0.5
37,849 + -0.9
37,849 + +1.5
37,849 + +0.8
37,871 + +1.5
37,920 + -1.6
37,948 + +1.1
37,972 + -0.8
37,977 - +2.2
37,988 - +0.2
38,213 + +1.0
38,249 + +2.5
38,259 - -3.0
38,262 + +1.8
38,262 + +0.8
38,338 + HMPREF1058_RS01805 0.25 -0.8
38,338 + HMPREF1058_RS01805 0.25 +0.2
38,339 - HMPREF1058_RS01805 0.25 -2.6
38,398 - HMPREF1058_RS01805 0.44 -1.4
38,451 + HMPREF1058_RS01805 0.61 -0.2
38,452 - HMPREF1058_RS01805 0.62 +0.2
38,516 + HMPREF1058_RS01805 0.83 +0.2
38,645 - HMPREF1058_RS01800 0.14 -1.8
38,693 + HMPREF1058_RS01800 0.22 -0.8
38,713 + HMPREF1058_RS01800 0.26 -1.4
38,747 + HMPREF1058_RS01800 0.32 -3.1
38,761 - HMPREF1058_RS01800 0.34 -1.4
38,761 - HMPREF1058_RS01800 0.34 -2.4
38,761 - HMPREF1058_RS01800 0.34 -0.8
38,880 - HMPREF1058_RS01800 0.55 -1.4
38,890 - HMPREF1058_RS01800 0.57 -2.4
38,975 - HMPREF1058_RS01800 0.72 +0.2
38,979 - HMPREF1058_RS01800 0.73 -2.1
39,045 + HMPREF1058_RS01800 0.84 -1.8
39,082 - -0.0
39,107 + -0.8
39,125 - -3.0
39,138 + -1.9
39,157 - +0.2
39,180 + +0.8
39,183 + -0.8
39,183 + +0.2
39,184 - -1.4
39,184 - -1.1
39,360 + HMPREF1058_RS01795 0.11 -0.3
39,402 + HMPREF1058_RS01795 0.13 +0.5
39,437 - HMPREF1058_RS01795 0.15 -0.4
39,455 + HMPREF1058_RS01795 0.16 +0.6
39,489 + HMPREF1058_RS01795 0.18 -1.2
39,516 + HMPREF1058_RS01795 0.19 -1.8
39,595 + HMPREF1058_RS01795 0.23 -0.2
39,667 - HMPREF1058_RS01795 0.26 +2.4
39,700 - HMPREF1058_RS01795 0.28 -0.0
39,730 - HMPREF1058_RS01795 0.30 +2.3
39,782 - HMPREF1058_RS01795 0.32 +0.2
39,826 + HMPREF1058_RS01795 0.34 +2.0
39,826 + HMPREF1058_RS01795 0.34 +0.9
39,828 + HMPREF1058_RS01795 0.35 +1.2
39,829 - HMPREF1058_RS01795 0.35 -1.4
39,889 + HMPREF1058_RS01795 0.38 +0.2
39,976 + HMPREF1058_RS01795 0.42 +0.6
39,977 - HMPREF1058_RS01795 0.42 -0.8
40,017 + HMPREF1058_RS01795 0.44 -1.4
40,120 + HMPREF1058_RS01795 0.49 +0.8
40,122 + HMPREF1058_RS01795 0.49 +0.6
40,123 - HMPREF1058_RS01795 0.49 +2.7
40,123 - HMPREF1058_RS01795 0.49 +2.4
40,127 + HMPREF1058_RS01795 0.50 +0.2
40,128 - HMPREF1058_RS01795 0.50 -0.8
40,128 - -0.8

Or see this region's nucleotide sequence