Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS12730

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_RS12735 and HMPREF1058_RS12730 overlap by 26 nucleotidesHMPREF1058_RS12730 and HMPREF1058_RS12725 are separated by 7 nucleotidesHMPREF1058_RS12725 and HMPREF1058_RS12720 are separated by 47 nucleotides HMPREF1058_RS12735: HMPREF1058_RS12735 - HDIG domain-containing protein, at 45,741 to 47,798 _RS12735 HMPREF1058_RS12730: HMPREF1058_RS12730 - low molecular weight phosphotyrosine protein phosphatase, at 47,773 to 48,243 _RS12730 HMPREF1058_RS12725: HMPREF1058_RS12725 - phosphatase, at 48,251 to 48,961 _RS12725 HMPREF1058_RS12720: HMPREF1058_RS12720 - primosomal protein N', at 49,009 to 51,471 _RS12720 Position (kb) 47 48 49Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3 4at 46.819 kb on + strand, within HMPREF1058_RS12735at 46.930 kb on + strand, within HMPREF1058_RS12735at 46.930 kb on + strand, within HMPREF1058_RS12735at 46.941 kb on + strand, within HMPREF1058_RS12735at 46.948 kb on + strand, within HMPREF1058_RS12735at 46.951 kb on + strand, within HMPREF1058_RS12735at 47.011 kb on - strand, within HMPREF1058_RS12735at 47.011 kb on - strand, within HMPREF1058_RS12735at 47.011 kb on - strand, within HMPREF1058_RS12735at 47.260 kb on + strand, within HMPREF1058_RS12735at 47.261 kb on - strand, within HMPREF1058_RS12735at 47.262 kb on + strand, within HMPREF1058_RS12735at 47.262 kb on + strand, within HMPREF1058_RS12735at 47.263 kb on - strandat 47.343 kb on + strandat 47.469 kb on + strand, within HMPREF1058_RS12735at 47.470 kb on - strand, within HMPREF1058_RS12735at 47.671 kb on + strandat 47.717 kb on - strandat 47.760 kb on + strandat 47.760 kb on + strandat 47.760 kb on + strandat 47.761 kb on - strandat 47.797 kb on - strandat 47.880 kb on - strand, within HMPREF1058_RS12730at 47.880 kb on - strandat 47.968 kb on + strand, within HMPREF1058_RS12730at 47.969 kb on - strand, within HMPREF1058_RS12730at 47.974 kb on - strand, within HMPREF1058_RS12730at 47.997 kb on + strand, within HMPREF1058_RS12730at 48.022 kb on - strand, within HMPREF1058_RS12730at 48.106 kb on - strand, within HMPREF1058_RS12730at 48.139 kb on + strand, within HMPREF1058_RS12730at 48.140 kb on - strand, within HMPREF1058_RS12730at 48.174 kb on + strand, within HMPREF1058_RS12730at 48.244 kb on - strandat 48.245 kb on + strandat 48.245 kb on + strandat 48.246 kb on - strandat 48.248 kb on - strandat 48.248 kb on - strandat 48.248 kb on - strandat 48.248 kb on - strandat 48.416 kb on + strand, within HMPREF1058_RS12725at 48.417 kb on - strand, within HMPREF1058_RS12725at 48.474 kb on - strand, within HMPREF1058_RS12725at 48.488 kb on + strand, within HMPREF1058_RS12725at 48.489 kb on - strand, within HMPREF1058_RS12725at 48.503 kb on - strand, within HMPREF1058_RS12725at 48.503 kb on - strand, within HMPREF1058_RS12725at 48.542 kb on + strand, within HMPREF1058_RS12725at 48.578 kb on - strand, within HMPREF1058_RS12725at 48.645 kb on + strand, within HMPREF1058_RS12725at 48.651 kb on - strand, within HMPREF1058_RS12725at 48.692 kb on - strand, within HMPREF1058_RS12725at 48.693 kb on + strand, within HMPREF1058_RS12725at 48.694 kb on - strand, within HMPREF1058_RS12725at 48.736 kb on + strand, within HMPREF1058_RS12725at 48.769 kb on - strand, within HMPREF1058_RS12725at 48.800 kb on - strand, within HMPREF1058_RS12725at 48.808 kb on + strand, within HMPREF1058_RS12725at 48.854 kb on + strand, within HMPREF1058_RS12725at 48.900 kb on - strandat 48.941 kb on + strandat 48.941 kb on + strandat 48.942 kb on - strandat 48.942 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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46,819 + HMPREF1058_RS12735 0.52 +1.9
46,930 + HMPREF1058_RS12735 0.58 +0.2
46,930 + HMPREF1058_RS12735 0.58 -2.4
46,941 + HMPREF1058_RS12735 0.58 -1.1
46,948 + HMPREF1058_RS12735 0.59 -1.1
46,951 + HMPREF1058_RS12735 0.59 -3.0
47,011 - HMPREF1058_RS12735 0.62 -2.0
47,011 - HMPREF1058_RS12735 0.62 -0.4
47,011 - HMPREF1058_RS12735 0.62 +0.6
47,260 + HMPREF1058_RS12735 0.74 -1.4
47,261 - HMPREF1058_RS12735 0.74 -1.4
47,262 + HMPREF1058_RS12735 0.74 -1.4
47,262 + HMPREF1058_RS12735 0.74 -1.2
47,263 - -0.4
47,343 + +1.2
47,469 + HMPREF1058_RS12735 0.84 -0.4
47,470 - HMPREF1058_RS12735 0.84 -3.5
47,671 + -2.7
47,717 - -1.6
47,760 + +1.2
47,760 + +0.8
47,760 + +0.5
47,761 - -4.6
47,797 - -0.6
47,880 - HMPREF1058_RS12730 0.23 +0.8
47,880 - +1.6
47,968 + HMPREF1058_RS12730 0.41 +0.2
47,969 - HMPREF1058_RS12730 0.42 +1.3
47,974 - HMPREF1058_RS12730 0.43 +0.9
47,997 + HMPREF1058_RS12730 0.48 +4.0
48,022 - HMPREF1058_RS12730 0.53 +0.9
48,106 - HMPREF1058_RS12730 0.71 +0.9
48,139 + HMPREF1058_RS12730 0.78 -1.8
48,140 - HMPREF1058_RS12730 0.78 +1.2
48,174 + HMPREF1058_RS12730 0.85 +0.1
48,244 - +0.3
48,245 + +0.2
48,245 + -0.6
48,246 - -0.2
48,248 - -0.1
48,248 - -1.4
48,248 - -0.1
48,248 - -1.4
48,416 + HMPREF1058_RS12725 0.23 +1.3
48,417 - HMPREF1058_RS12725 0.23 +0.5
48,474 - HMPREF1058_RS12725 0.31 +1.9
48,488 + HMPREF1058_RS12725 0.33 +0.2
48,489 - HMPREF1058_RS12725 0.33 +0.4
48,503 - HMPREF1058_RS12725 0.35 -0.8
48,503 - HMPREF1058_RS12725 0.35 -0.4
48,542 + HMPREF1058_RS12725 0.41 +0.3
48,578 - HMPREF1058_RS12725 0.46 -0.2
48,645 + HMPREF1058_RS12725 0.55 -0.8
48,651 - HMPREF1058_RS12725 0.56 +1.2
48,692 - HMPREF1058_RS12725 0.62 +0.6
48,693 + HMPREF1058_RS12725 0.62 +0.3
48,694 - HMPREF1058_RS12725 0.62 -1.7
48,736 + HMPREF1058_RS12725 0.68 +0.0
48,769 - HMPREF1058_RS12725 0.73 +0.9
48,800 - HMPREF1058_RS12725 0.77 +0.9
48,808 + HMPREF1058_RS12725 0.78 +0.9
48,854 + HMPREF1058_RS12725 0.85 +2.4
48,900 - +0.5
48,941 + +0.7
48,941 + -2.1
48,942 - +1.3
48,942 - +0.3

Or see this region's nucleotide sequence