Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS05880

Experiment: Mucin from porcine stomach type II 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_RS05890 and HMPREF1058_RS05885 overlap by 11 nucleotidesHMPREF1058_RS05885 and HMPREF1058_RS05880 overlap by 4 nucleotidesHMPREF1058_RS05880 and HMPREF1058_RS05875 are separated by 104 nucleotides HMPREF1058_RS05890: HMPREF1058_RS05890 - class I SAM-dependent rRNA methyltransferase, at 55,218 to 56,402 _RS05890 HMPREF1058_RS05885: HMPREF1058_RS05885 - 3'-5' exonuclease domain-containing protein 2, at 56,392 to 57,042 _RS05885 HMPREF1058_RS05880: HMPREF1058_RS05880 - DUF5063 domain-containing protein, at 57,039 to 57,602 _RS05880 HMPREF1058_RS05875: HMPREF1058_RS05875 - DNA translocase FtsK, at 57,707 to 60,172 _RS05875 Position (kb) 57 58Strain fitness (log2 ratio) -2 -1 0 1 2 3at 56.041 kb on + strand, within HMPREF1058_RS05890at 56.042 kb on - strand, within HMPREF1058_RS05890at 56.043 kb on + strandat 56.043 kb on + strand, within HMPREF1058_RS05890at 56.163 kb on - strand, within HMPREF1058_RS05890at 56.163 kb on - strand, within HMPREF1058_RS05890at 56.223 kb on - strand, within HMPREF1058_RS05890at 56.223 kb on - strand, within HMPREF1058_RS05890at 56.223 kb on - strand, within HMPREF1058_RS05890at 56.230 kb on - strand, within HMPREF1058_RS05890at 56.250 kb on + strand, within HMPREF1058_RS05890at 56.250 kb on + strand, within HMPREF1058_RS05890at 56.252 kb on + strand, within HMPREF1058_RS05890at 56.252 kb on + strand, within HMPREF1058_RS05890at 56.253 kb on - strand, within HMPREF1058_RS05890at 56.284 kb on - strandat 56.284 kb on - strandat 56.394 kb on - strandat 56.407 kb on - strandat 56.423 kb on - strandat 56.520 kb on - strand, within HMPREF1058_RS05885at 56.648 kb on - strand, within HMPREF1058_RS05885at 56.651 kb on + strand, within HMPREF1058_RS05885at 56.652 kb on - strand, within HMPREF1058_RS05885at 56.652 kb on - strand, within HMPREF1058_RS05885at 56.652 kb on - strand, within HMPREF1058_RS05885at 56.659 kb on + strand, within HMPREF1058_RS05885at 56.660 kb on - strand, within HMPREF1058_RS05885at 56.740 kb on + strand, within HMPREF1058_RS05885at 56.741 kb on - strand, within HMPREF1058_RS05885at 56.788 kb on - strand, within HMPREF1058_RS05885at 56.821 kb on - strand, within HMPREF1058_RS05885at 56.830 kb on - strand, within HMPREF1058_RS05885at 56.854 kb on - strand, within HMPREF1058_RS05885at 56.906 kb on - strand, within HMPREF1058_RS05885at 56.925 kb on - strand, within HMPREF1058_RS05885at 57.005 kb on - strandat 57.015 kb on + strandat 57.046 kb on - strandat 57.097 kb on + strand, within HMPREF1058_RS05880at 57.097 kb on + strand, within HMPREF1058_RS05880at 57.326 kb on - strand, within HMPREF1058_RS05880at 57.367 kb on - strand, within HMPREF1058_RS05880at 57.469 kb on - strand, within HMPREF1058_RS05880at 57.507 kb on - strand, within HMPREF1058_RS05880at 57.567 kb on - strandat 57.609 kb on + strandat 57.655 kb on + strandat 57.686 kb on + strandat 57.693 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Mucin from porcine stomach type II 2.5 mg/ml (C)
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56,041 + HMPREF1058_RS05890 0.69 +0.0
56,042 - HMPREF1058_RS05890 0.70 +1.1
56,043 + +1.6
56,043 + HMPREF1058_RS05890 0.70 -0.9
56,163 - HMPREF1058_RS05890 0.80 -0.1
56,163 - HMPREF1058_RS05890 0.80 +0.6
56,223 - HMPREF1058_RS05890 0.85 +0.2
56,223 - HMPREF1058_RS05890 0.85 +0.7
56,223 - HMPREF1058_RS05890 0.85 -1.9
56,230 - HMPREF1058_RS05890 0.85 +0.3
56,250 + HMPREF1058_RS05890 0.87 +0.8
56,250 + HMPREF1058_RS05890 0.87 -0.1
56,252 + HMPREF1058_RS05890 0.87 +0.5
56,252 + HMPREF1058_RS05890 0.87 -0.6
56,253 - HMPREF1058_RS05890 0.87 -0.1
56,284 - +0.6
56,284 - +0.1
56,394 - +0.7
56,407 - +0.0
56,423 - +0.9
56,520 - HMPREF1058_RS05885 0.20 +0.5
56,648 - HMPREF1058_RS05885 0.39 +0.7
56,651 + HMPREF1058_RS05885 0.40 -0.6
56,652 - HMPREF1058_RS05885 0.40 +0.9
56,652 - HMPREF1058_RS05885 0.40 +1.1
56,652 - HMPREF1058_RS05885 0.40 +0.1
56,659 + HMPREF1058_RS05885 0.41 -0.0
56,660 - HMPREF1058_RS05885 0.41 +0.4
56,740 + HMPREF1058_RS05885 0.53 +3.6
56,741 - HMPREF1058_RS05885 0.54 +2.1
56,788 - HMPREF1058_RS05885 0.61 +0.1
56,821 - HMPREF1058_RS05885 0.66 +0.5
56,830 - HMPREF1058_RS05885 0.67 -0.3
56,854 - HMPREF1058_RS05885 0.71 +0.6
56,906 - HMPREF1058_RS05885 0.79 -0.1
56,925 - HMPREF1058_RS05885 0.82 -0.0
57,005 - +0.6
57,015 + -0.3
57,046 - -0.3
57,097 + HMPREF1058_RS05880 0.10 +0.9
57,097 + HMPREF1058_RS05880 0.10 +0.7
57,326 - HMPREF1058_RS05880 0.51 -2.7
57,367 - HMPREF1058_RS05880 0.58 -1.6
57,469 - HMPREF1058_RS05880 0.76 -0.2
57,507 - HMPREF1058_RS05880 0.83 -1.2
57,567 - -1.3
57,609 + -0.3
57,655 + -2.2
57,686 + +0.0
57,693 + +0.6

Or see this region's nucleotide sequence