Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS12050

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse14; day3

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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_RS12055 and HMPREF1058_RS12050 are separated by 48 nucleotidesHMPREF1058_RS12050 and HMPREF1058_RS0119610 are separated by 50 nucleotides HMPREF1058_RS12055: HMPREF1058_RS12055 - HAMP domain-containing histidine kinase, at 213,428 to 214,789 _RS12055 HMPREF1058_RS12050: HMPREF1058_RS12050 - response regulator transcription factor, at 214,838 to 215,506 _RS12050 HMPREF1058_RS0119610: HMPREF1058_RS0119610 - TonB-dependent receptor, at 215,557 to 217,956 _RS0119610 Position (kb) 214 215 216Strain fitness (log2 ratio) -2 -1 0 1 2at 213.851 kb on - strand, within HMPREF1058_RS12055at 213.860 kb on + strand, within HMPREF1058_RS12055at 213.861 kb on - strand, within HMPREF1058_RS12055at 213.872 kb on - strand, within HMPREF1058_RS12055at 213.899 kb on - strand, within HMPREF1058_RS12055at 213.919 kb on + strand, within HMPREF1058_RS12055at 213.919 kb on + strand, within HMPREF1058_RS12055at 213.924 kb on + strand, within HMPREF1058_RS12055at 213.925 kb on - strand, within HMPREF1058_RS12055at 213.942 kb on - strand, within HMPREF1058_RS12055at 213.963 kb on + strand, within HMPREF1058_RS12055at 213.964 kb on - strand, within HMPREF1058_RS12055at 213.964 kb on - strand, within HMPREF1058_RS12055at 214.015 kb on + strand, within HMPREF1058_RS12055at 214.025 kb on - strand, within HMPREF1058_RS12055at 214.030 kb on - strand, within HMPREF1058_RS12055at 214.080 kb on + strand, within HMPREF1058_RS12055at 214.156 kb on - strand, within HMPREF1058_RS12055at 214.348 kb on - strand, within HMPREF1058_RS12055at 214.348 kb on - strand, within HMPREF1058_RS12055at 214.351 kb on - strand, within HMPREF1058_RS12055at 214.452 kb on + strand, within HMPREF1058_RS12055at 214.452 kb on + strand, within HMPREF1058_RS12055at 214.453 kb on - strand, within HMPREF1058_RS12055at 214.453 kb on - strandat 214.461 kb on + strand, within HMPREF1058_RS12055at 214.462 kb on - strand, within HMPREF1058_RS12055at 214.463 kb on + strand, within HMPREF1058_RS12055at 214.463 kb on + strand, within HMPREF1058_RS12055at 214.464 kb on - strand, within HMPREF1058_RS12055at 214.464 kb on - strand, within HMPREF1058_RS12055at 214.464 kb on - strand, within HMPREF1058_RS12055at 214.508 kb on + strand, within HMPREF1058_RS12055at 214.620 kb on + strand, within HMPREF1058_RS12055at 214.625 kb on - strand, within HMPREF1058_RS12055at 214.681 kb on - strandat 214.686 kb on + strandat 214.700 kb on + strandat 214.700 kb on + strandat 214.700 kb on + strandat 214.701 kb on - strandat 214.703 kb on - strandat 214.705 kb on - strandat 214.707 kb on + strandat 214.708 kb on - strandat 214.832 kb on + strandat 214.833 kb on - strandat 214.833 kb on - strandat 214.833 kb on - strandat 214.850 kb on - strandat 214.876 kb on - strandat 214.892 kb on - strandat 214.926 kb on + strand, within HMPREF1058_RS12050at 214.926 kb on + strand, within HMPREF1058_RS12050at 214.993 kb on - strand, within HMPREF1058_RS12050at 215.080 kb on - strand, within HMPREF1058_RS12050at 215.160 kb on + strand, within HMPREF1058_RS12050at 215.178 kb on - strand, within HMPREF1058_RS12050at 215.178 kb on - strand, within HMPREF1058_RS12050at 215.216 kb on - strand, within HMPREF1058_RS12050at 215.217 kb on + strand, within HMPREF1058_RS12050at 215.217 kb on + strand, within HMPREF1058_RS12050at 215.217 kb on + strand, within HMPREF1058_RS12050at 215.218 kb on - strand, within HMPREF1058_RS12050at 215.262 kb on - strand, within HMPREF1058_RS12050at 215.326 kb on + strand, within HMPREF1058_RS12050at 215.332 kb on + strand, within HMPREF1058_RS12050at 215.411 kb on + strand, within HMPREF1058_RS12050at 215.419 kb on - strand, within HMPREF1058_RS12050at 215.454 kb on + strandat 215.455 kb on - strandat 215.455 kb on - strandat 215.455 kb on - strandat 215.486 kb on - strandat 215.486 kb on - strandat 215.486 kb on - strandat 215.523 kb on + strandat 215.527 kb on + strandat 215.536 kb on - strandat 215.628 kb on - strandat 215.685 kb on - strandat 215.698 kb on + strandat 215.840 kb on + strand, within HMPREF1058_RS0119610at 215.841 kb on - strand, within HMPREF1058_RS0119610at 215.933 kb on + strand, within HMPREF1058_RS0119610at 215.934 kb on - strand, within HMPREF1058_RS0119610at 215.934 kb on - strand, within HMPREF1058_RS0119610at 215.982 kb on + strand, within HMPREF1058_RS0119610at 216.015 kb on + strand, within HMPREF1058_RS0119610at 216.017 kb on + strand, within HMPREF1058_RS0119610at 216.017 kb on + strand, within HMPREF1058_RS0119610at 216.018 kb on - strand, within HMPREF1058_RS0119610at 216.068 kb on + strand, within HMPREF1058_RS0119610at 216.104 kb on + strand, within HMPREF1058_RS0119610at 216.162 kb on - strand, within HMPREF1058_RS0119610at 216.162 kb on - strand, within HMPREF1058_RS0119610at 216.227 kb on + strand, within HMPREF1058_RS0119610at 216.234 kb on - strand, within HMPREF1058_RS0119610at 216.234 kb on - strand, within HMPREF1058_RS0119610at 216.401 kb on - strand, within HMPREF1058_RS0119610at 216.402 kb on + strand, within HMPREF1058_RS0119610at 216.402 kb on + strand, within HMPREF1058_RS0119610at 216.403 kb on - strand, within HMPREF1058_RS0119610at 216.414 kb on + strand, within HMPREF1058_RS0119610at 216.417 kb on - strand, within HMPREF1058_RS0119610at 216.417 kb on - strand, within HMPREF1058_RS0119610at 216.462 kb on - strand, within HMPREF1058_RS0119610at 216.462 kb on - strand, within HMPREF1058_RS0119610at 216.475 kb on - strand, within HMPREF1058_RS0119610at 216.506 kb on + strand, within HMPREF1058_RS0119610

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse14; day3
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213,851 - HMPREF1058_RS12055 0.31 -1.0
213,860 + HMPREF1058_RS12055 0.32 +0.4
213,861 - HMPREF1058_RS12055 0.32 -0.9
213,872 - HMPREF1058_RS12055 0.33 -0.8
213,899 - HMPREF1058_RS12055 0.35 +0.5
213,919 + HMPREF1058_RS12055 0.36 -0.0
213,919 + HMPREF1058_RS12055 0.36 -0.1
213,924 + HMPREF1058_RS12055 0.36 +1.5
213,925 - HMPREF1058_RS12055 0.36 +0.2
213,942 - HMPREF1058_RS12055 0.38 +0.3
213,963 + HMPREF1058_RS12055 0.39 -0.3
213,964 - HMPREF1058_RS12055 0.39 -0.1
213,964 - HMPREF1058_RS12055 0.39 -0.7
214,015 + HMPREF1058_RS12055 0.43 -0.8
214,025 - HMPREF1058_RS12055 0.44 -0.3
214,030 - HMPREF1058_RS12055 0.44 -0.8
214,080 + HMPREF1058_RS12055 0.48 +0.4
214,156 - HMPREF1058_RS12055 0.53 +0.2
214,348 - HMPREF1058_RS12055 0.68 -1.1
214,348 - HMPREF1058_RS12055 0.68 +0.5
214,351 - HMPREF1058_RS12055 0.68 +0.5
214,452 + HMPREF1058_RS12055 0.75 +0.6
214,452 + HMPREF1058_RS12055 0.75 -0.2
214,453 - HMPREF1058_RS12055 0.75 +0.1
214,453 - -0.1
214,461 + HMPREF1058_RS12055 0.76 -2.3
214,462 - HMPREF1058_RS12055 0.76 +0.1
214,463 + HMPREF1058_RS12055 0.76 -1.5
214,463 + HMPREF1058_RS12055 0.76 -0.1
214,464 - HMPREF1058_RS12055 0.76 -0.1
214,464 - HMPREF1058_RS12055 0.76 +0.7
214,464 - HMPREF1058_RS12055 0.76 +0.9
214,508 + HMPREF1058_RS12055 0.79 -1.0
214,620 + HMPREF1058_RS12055 0.88 +0.6
214,625 - HMPREF1058_RS12055 0.88 +0.3
214,681 - -0.4
214,686 + -0.9
214,700 + +0.5
214,700 + -0.1
214,700 + -0.7
214,701 - +0.4
214,703 - -0.7
214,705 - +1.4
214,707 + +0.6
214,708 - -0.0
214,832 + +0.2
214,833 - -0.1
214,833 - +1.4
214,833 - -2.3
214,850 - +1.2
214,876 - -0.1
214,892 - +0.4
214,926 + HMPREF1058_RS12050 0.13 +1.0
214,926 + HMPREF1058_RS12050 0.13 +0.2
214,993 - HMPREF1058_RS12050 0.23 +1.2
215,080 - HMPREF1058_RS12050 0.36 +0.7
215,160 + HMPREF1058_RS12050 0.48 -0.5
215,178 - HMPREF1058_RS12050 0.51 -0.6
215,178 - HMPREF1058_RS12050 0.51 +2.4
215,216 - HMPREF1058_RS12050 0.57 +0.0
215,217 + HMPREF1058_RS12050 0.57 -0.1
215,217 + HMPREF1058_RS12050 0.57 +0.3
215,217 + HMPREF1058_RS12050 0.57 +0.1
215,218 - HMPREF1058_RS12050 0.57 +1.1
215,262 - HMPREF1058_RS12050 0.63 +0.3
215,326 + HMPREF1058_RS12050 0.73 +0.4
215,332 + HMPREF1058_RS12050 0.74 +0.3
215,411 + HMPREF1058_RS12050 0.86 +0.2
215,419 - HMPREF1058_RS12050 0.87 -1.5
215,454 + -0.2
215,455 - -1.0
215,455 - -0.9
215,455 - +0.4
215,486 - -1.1
215,486 - -0.8
215,486 - -0.6
215,523 + +0.1
215,527 + -1.0
215,536 - +2.2
215,628 - -1.8
215,685 - +0.7
215,698 + -0.8
215,840 + HMPREF1058_RS0119610 0.12 +0.7
215,841 - HMPREF1058_RS0119610 0.12 +0.4
215,933 + HMPREF1058_RS0119610 0.16 +1.8
215,934 - HMPREF1058_RS0119610 0.16 +0.7
215,934 - HMPREF1058_RS0119610 0.16 +0.6
215,982 + HMPREF1058_RS0119610 0.18 +0.2
216,015 + HMPREF1058_RS0119610 0.19 -0.5
216,017 + HMPREF1058_RS0119610 0.19 -0.6
216,017 + HMPREF1058_RS0119610 0.19 -1.4
216,018 - HMPREF1058_RS0119610 0.19 +0.7
216,068 + HMPREF1058_RS0119610 0.21 +0.2
216,104 + HMPREF1058_RS0119610 0.23 +0.1
216,162 - HMPREF1058_RS0119610 0.25 -1.6
216,162 - HMPREF1058_RS0119610 0.25 +0.1
216,227 + HMPREF1058_RS0119610 0.28 -0.5
216,234 - HMPREF1058_RS0119610 0.28 +0.6
216,234 - HMPREF1058_RS0119610 0.28 -0.2
216,401 - HMPREF1058_RS0119610 0.35 +0.5
216,402 + HMPREF1058_RS0119610 0.35 -0.1
216,402 + HMPREF1058_RS0119610 0.35 -1.4
216,403 - HMPREF1058_RS0119610 0.35 -1.1
216,414 + HMPREF1058_RS0119610 0.36 +0.2
216,417 - HMPREF1058_RS0119610 0.36 -0.1
216,417 - HMPREF1058_RS0119610 0.36 +0.1
216,462 - HMPREF1058_RS0119610 0.38 -1.9
216,462 - HMPREF1058_RS0119610 0.38 -0.3
216,475 - HMPREF1058_RS0119610 0.38 +0.2
216,506 + HMPREF1058_RS0119610 0.40 +0.0

Or see this region's nucleotide sequence