Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS00750

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse14; day6

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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_RS00760 and HMPREF1058_RS00755 are separated by 101 nucleotidesHMPREF1058_RS00755 and HMPREF1058_RS00750 are separated by 146 nucleotidesHMPREF1058_RS00750 and HMPREF1058_RS00745 are separated by 203 nucleotidesHMPREF1058_RS00745 and HMPREF1058_RS00740 are separated by 204 nucleotides HMPREF1058_RS00760: HMPREF1058_RS00760 - phosphoribosylaminoimidazolecarboxamide formyltransferase, at 512 to 1,687 _RS00760 HMPREF1058_RS00755: HMPREF1058_RS00755 - PorT family protein, at 1,789 to 2,460 _RS00755 HMPREF1058_RS00750: HMPREF1058_RS00750 - PorT family protein, at 2,607 to 3,212 _RS00750 HMPREF1058_RS00745: HMPREF1058_RS00745 - porin family protein, at 3,416 to 3,952 _RS00745 HMPREF1058_RS00740: HMPREF1058_RS00740 - hypothetical protein, at 4,157 to 4,348 _RS00740 Position (kb) 2 3 4Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 1.689 kb on + strandat 1.742 kb on + strandat 1.747 kb on - strandat 1.775 kb on + strandat 1.824 kb on + strandat 1.969 kb on - strand, within HMPREF1058_RS00755at 2.007 kb on + strand, within HMPREF1058_RS00755at 2.026 kb on - strand, within HMPREF1058_RS00755at 2.089 kb on + strand, within HMPREF1058_RS00755at 2.089 kb on + strand, within HMPREF1058_RS00755at 2.089 kb on + strand, within HMPREF1058_RS00755at 2.089 kb on + strand, within HMPREF1058_RS00755at 2.090 kb on - strand, within HMPREF1058_RS00755at 2.090 kb on - strand, within HMPREF1058_RS00755at 2.090 kb on - strand, within HMPREF1058_RS00755at 2.090 kb on - strand, within HMPREF1058_RS00755at 2.091 kb on + strand, within HMPREF1058_RS00755at 2.092 kb on - strand, within HMPREF1058_RS00755at 2.094 kb on - strand, within HMPREF1058_RS00755at 2.098 kb on - strand, within HMPREF1058_RS00755at 2.147 kb on + strand, within HMPREF1058_RS00755at 2.148 kb on - strand, within HMPREF1058_RS00755at 2.158 kb on + strand, within HMPREF1058_RS00755at 2.326 kb on + strand, within HMPREF1058_RS00755at 2.326 kb on + strand, within HMPREF1058_RS00755at 2.327 kb on - strand, within HMPREF1058_RS00755at 2.357 kb on - strand, within HMPREF1058_RS00755at 2.399 kb on - strandat 2.406 kb on + strandat 2.440 kb on + strandat 2.441 kb on - strandat 2.441 kb on - strandat 2.445 kb on + strandat 2.449 kb on + strandat 2.449 kb on + strandat 2.450 kb on - strandat 2.500 kb on - strandat 2.502 kb on - strandat 2.576 kb on + strandat 2.577 kb on - strandat 2.584 kb on + strandat 2.585 kb on - strandat 2.590 kb on + strandat 2.590 kb on + strandat 2.591 kb on - strandat 2.591 kb on - strandat 2.596 kb on + strandat 2.597 kb on - strandat 2.598 kb on + strandat 2.599 kb on - strandat 2.663 kb on + strandat 2.668 kb on - strand, within HMPREF1058_RS00750at 2.672 kb on + strand, within HMPREF1058_RS00750at 2.700 kb on + strand, within HMPREF1058_RS00750at 2.700 kb on + strand, within HMPREF1058_RS00750at 2.700 kb on + strand, within HMPREF1058_RS00750at 2.701 kb on - strand, within HMPREF1058_RS00750at 2.701 kb on - strand, within HMPREF1058_RS00750at 2.701 kb on - strand, within HMPREF1058_RS00750at 2.706 kb on + strand, within HMPREF1058_RS00750at 2.706 kb on + strand, within HMPREF1058_RS00750at 2.707 kb on - strand, within HMPREF1058_RS00750at 2.707 kb on - strand, within HMPREF1058_RS00750at 2.707 kb on - strand, within HMPREF1058_RS00750at 2.760 kb on + strand, within HMPREF1058_RS00750at 2.805 kb on + strand, within HMPREF1058_RS00750at 2.811 kb on - strand, within HMPREF1058_RS00750at 2.879 kb on + strand, within HMPREF1058_RS00750at 2.884 kb on - strand, within HMPREF1058_RS00750at 3.018 kb on + strand, within HMPREF1058_RS00750at 3.019 kb on - strand, within HMPREF1058_RS00750at 3.020 kb on + strand, within HMPREF1058_RS00750at 3.020 kb on + strand, within HMPREF1058_RS00750at 3.020 kb on + strand, within HMPREF1058_RS00750at 3.020 kb on + strand, within HMPREF1058_RS00750at 3.020 kb on + strand, within HMPREF1058_RS00750at 3.021 kb on - strand, within HMPREF1058_RS00750at 3.026 kb on + strand, within HMPREF1058_RS00750at 3.026 kb on + strand, within HMPREF1058_RS00750at 3.039 kb on + strand, within HMPREF1058_RS00750at 3.051 kb on + strand, within HMPREF1058_RS00750at 3.062 kb on + strand, within HMPREF1058_RS00750at 3.062 kb on + strand, within HMPREF1058_RS00750at 3.062 kb on + strand, within HMPREF1058_RS00750at 3.062 kb on + strand, within HMPREF1058_RS00750at 3.062 kb on + strand, within HMPREF1058_RS00750at 3.063 kb on - strand, within HMPREF1058_RS00750at 3.064 kb on + strand, within HMPREF1058_RS00750at 3.116 kb on + strand, within HMPREF1058_RS00750at 3.116 kb on + strand, within HMPREF1058_RS00750at 3.168 kb on + strandat 3.168 kb on + strandat 3.169 kb on - strandat 3.173 kb on + strandat 3.186 kb on + strandat 3.270 kb on + strandat 3.270 kb on + strandat 3.283 kb on - strandat 3.284 kb on + strandat 3.284 kb on + strandat 3.317 kb on - strandat 3.373 kb on + strandat 3.374 kb on - strandat 3.374 kb on - strandat 3.374 kb on - strandat 3.374 kb on - strandat 3.380 kb on - strandat 3.407 kb on + strandat 3.408 kb on - strandat 3.408 kb on - strandat 3.408 kb on - strandat 3.408 kb on - strandat 3.409 kb on + strandat 3.409 kb on + strandat 3.410 kb on - strandat 3.412 kb on - strandat 3.418 kb on - strandat 3.422 kb on + strandat 3.423 kb on - strandat 3.424 kb on + strandat 3.424 kb on + strandat 3.425 kb on - strandat 3.426 kb on + strandat 3.465 kb on - strandat 3.511 kb on - strand, within HMPREF1058_RS00745at 3.577 kb on + strand, within HMPREF1058_RS00745at 3.577 kb on + strand, within HMPREF1058_RS00745at 3.665 kb on + strand, within HMPREF1058_RS00745at 3.666 kb on - strand, within HMPREF1058_RS00745at 3.715 kb on + strand, within HMPREF1058_RS00745at 3.740 kb on - strand, within HMPREF1058_RS00745at 3.743 kb on - strand, within HMPREF1058_RS00745at 3.745 kb on - strand, within HMPREF1058_RS00745at 3.745 kb on - strand, within HMPREF1058_RS00745at 3.785 kb on + strand, within HMPREF1058_RS00745at 3.786 kb on - strand, within HMPREF1058_RS00745at 3.824 kb on - strand, within HMPREF1058_RS00745at 3.866 kb on + strand, within HMPREF1058_RS00745at 3.884 kb on + strand, within HMPREF1058_RS00745at 3.888 kb on + strand, within HMPREF1058_RS00745at 3.888 kb on + strand, within HMPREF1058_RS00745at 3.888 kb on + strand, within HMPREF1058_RS00745at 3.888 kb on + strand, within HMPREF1058_RS00745at 3.889 kb on - strand, within HMPREF1058_RS00745at 3.889 kb on - strand, within HMPREF1058_RS00745at 3.889 kb on - strand, within HMPREF1058_RS00745at 3.923 kb on + strandat 3.924 kb on - strandat 3.924 kb on - strandat 3.986 kb on + strandat 3.990 kb on - strandat 4.118 kb on + strandat 4.129 kb on + strandat 4.130 kb on - strandat 4.136 kb on + strandat 4.162 kb on + strandat 4.169 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse14; day6
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1,689 + +1.3
1,742 + -2.9
1,747 - +0.9
1,775 + -2.0
1,824 + -1.7
1,969 - HMPREF1058_RS00755 0.27 -0.6
2,007 + HMPREF1058_RS00755 0.32 -0.3
2,026 - HMPREF1058_RS00755 0.35 +0.1
2,089 + HMPREF1058_RS00755 0.45 +2.4
2,089 + HMPREF1058_RS00755 0.45 +0.8
2,089 + HMPREF1058_RS00755 0.45 +0.2
2,089 + HMPREF1058_RS00755 0.45 -2.7
2,090 - HMPREF1058_RS00755 0.45 -2.1
2,090 - HMPREF1058_RS00755 0.45 +0.7
2,090 - HMPREF1058_RS00755 0.45 +0.1
2,090 - HMPREF1058_RS00755 0.45 +0.9
2,091 + HMPREF1058_RS00755 0.45 -1.9
2,092 - HMPREF1058_RS00755 0.45 +0.2
2,094 - HMPREF1058_RS00755 0.45 +0.6
2,098 - HMPREF1058_RS00755 0.46 +3.2
2,147 + HMPREF1058_RS00755 0.53 +0.7
2,148 - HMPREF1058_RS00755 0.53 +3.0
2,158 + HMPREF1058_RS00755 0.55 -0.0
2,326 + HMPREF1058_RS00755 0.80 +0.4
2,326 + HMPREF1058_RS00755 0.80 +2.5
2,327 - HMPREF1058_RS00755 0.80 +0.5
2,357 - HMPREF1058_RS00755 0.85 +0.3
2,399 - -3.3
2,406 + +0.4
2,440 + +0.2
2,441 - +0.7
2,441 - +0.3
2,445 + -2.0
2,449 + +0.4
2,449 + -0.7
2,450 - -0.4
2,500 - -1.0
2,502 - +0.6
2,576 + -1.7
2,577 - -0.4
2,584 + +1.3
2,585 - +0.5
2,590 + -0.1
2,590 + +0.1
2,591 - +0.8
2,591 - -1.0
2,596 + -0.2
2,597 - -0.4
2,598 + -0.1
2,599 - -1.0
2,663 + +0.5
2,668 - HMPREF1058_RS00750 0.10 +0.2
2,672 + HMPREF1058_RS00750 0.11 -2.6
2,700 + HMPREF1058_RS00750 0.15 +0.7
2,700 + HMPREF1058_RS00750 0.15 +0.3
2,700 + HMPREF1058_RS00750 0.15 -0.5
2,701 - HMPREF1058_RS00750 0.16 +0.3
2,701 - HMPREF1058_RS00750 0.16 -0.2
2,701 - HMPREF1058_RS00750 0.16 -0.4
2,706 + HMPREF1058_RS00750 0.16 -0.0
2,706 + HMPREF1058_RS00750 0.16 +1.3
2,707 - HMPREF1058_RS00750 0.17 +0.9
2,707 - HMPREF1058_RS00750 0.17 +0.1
2,707 - HMPREF1058_RS00750 0.17 -1.3
2,760 + HMPREF1058_RS00750 0.25 -1.5
2,805 + HMPREF1058_RS00750 0.33 +0.9
2,811 - HMPREF1058_RS00750 0.34 -0.3
2,879 + HMPREF1058_RS00750 0.45 +0.4
2,884 - HMPREF1058_RS00750 0.46 -0.1
3,018 + HMPREF1058_RS00750 0.68 +0.3
3,019 - HMPREF1058_RS00750 0.68 -0.8
3,020 + HMPREF1058_RS00750 0.68 +0.3
3,020 + HMPREF1058_RS00750 0.68 -0.4
3,020 + HMPREF1058_RS00750 0.68 -0.9
3,020 + HMPREF1058_RS00750 0.68 -1.0
3,020 + HMPREF1058_RS00750 0.68 +0.2
3,021 - HMPREF1058_RS00750 0.68 +0.8
3,026 + HMPREF1058_RS00750 0.69 +0.5
3,026 + HMPREF1058_RS00750 0.69 -1.4
3,039 + HMPREF1058_RS00750 0.71 -1.2
3,051 + HMPREF1058_RS00750 0.73 -1.5
3,062 + HMPREF1058_RS00750 0.75 +1.7
3,062 + HMPREF1058_RS00750 0.75 -1.2
3,062 + HMPREF1058_RS00750 0.75 +0.1
3,062 + HMPREF1058_RS00750 0.75 +0.3
3,062 + HMPREF1058_RS00750 0.75 +0.1
3,063 - HMPREF1058_RS00750 0.75 +0.1
3,064 + HMPREF1058_RS00750 0.75 +0.8
3,116 + HMPREF1058_RS00750 0.84 -1.7
3,116 + HMPREF1058_RS00750 0.84 +0.8
3,168 + +1.0
3,168 + -0.2
3,169 - -0.4
3,173 + +1.0
3,186 + -0.0
3,270 + -1.8
3,270 + +0.8
3,283 - +0.5
3,284 + -0.4
3,284 + -1.3
3,317 - +0.1
3,373 + -0.9
3,374 - -1.1
3,374 - +1.2
3,374 - +0.3
3,374 - +1.0
3,380 - +0.3
3,407 + +1.2
3,408 - +0.3
3,408 - -1.9
3,408 - +0.7
3,408 - +0.4
3,409 + -0.2
3,409 + -0.2
3,410 - -1.8
3,412 - +0.2
3,418 - +0.8
3,422 + +0.1
3,423 - -0.5
3,424 + -1.7
3,424 + -2.0
3,425 - -0.5
3,426 + +0.2
3,465 - -0.4
3,511 - HMPREF1058_RS00745 0.18 -0.2
3,577 + HMPREF1058_RS00745 0.30 -4.0
3,577 + HMPREF1058_RS00745 0.30 -0.0
3,665 + HMPREF1058_RS00745 0.46 +0.8
3,666 - HMPREF1058_RS00745 0.47 +0.0
3,715 + HMPREF1058_RS00745 0.56 +0.2
3,740 - HMPREF1058_RS00745 0.60 +0.1
3,743 - HMPREF1058_RS00745 0.61 +0.3
3,745 - HMPREF1058_RS00745 0.61 -0.0
3,745 - HMPREF1058_RS00745 0.61 +2.7
3,785 + HMPREF1058_RS00745 0.69 -2.2
3,786 - HMPREF1058_RS00745 0.69 +0.3
3,824 - HMPREF1058_RS00745 0.76 +0.2
3,866 + HMPREF1058_RS00745 0.84 +0.5
3,884 + HMPREF1058_RS00745 0.87 -1.0
3,888 + HMPREF1058_RS00745 0.88 -2.5
3,888 + HMPREF1058_RS00745 0.88 +0.4
3,888 + HMPREF1058_RS00745 0.88 -2.8
3,888 + HMPREF1058_RS00745 0.88 -0.7
3,889 - HMPREF1058_RS00745 0.88 -0.3
3,889 - HMPREF1058_RS00745 0.88 +1.4
3,889 - HMPREF1058_RS00745 0.88 -1.6
3,923 + +0.3
3,924 - +0.5
3,924 - +0.8
3,986 + -1.5
3,990 - -0.2
4,118 + +2.4
4,129 + -0.6
4,130 - +0.3
4,136 + -2.2
4,162 + +0.2
4,169 - -1.2

Or see this region's nucleotide sequence