Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS03610

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; 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_RS03615 and HMPREF1058_RS03610 are separated by 57 nucleotidesHMPREF1058_RS03610 and HMPREF1058_RS03605 overlap by 1 nucleotidesHMPREF1058_RS03605 and HMPREF1058_RS03600 are separated by 4 nucleotides HMPREF1058_RS03615: HMPREF1058_RS03615 - glycosyltransferase, at 237,269 to 238,279 _RS03615 HMPREF1058_RS03610: HMPREF1058_RS03610 - glycosyltransferase family 4 protein, at 238,337 to 239,446 _RS03610 HMPREF1058_RS03605: HMPREF1058_RS03605 - glycosyltransferase family 2 protein, at 239,446 to 240,321 _RS03605 HMPREF1058_RS03600: HMPREF1058_RS03600 - oligosaccharide repeat unit polymerase, at 240,326 to 241,426 _RS03600 Position (kb) 238 239 240Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 237.338 kb on - strandat 237.392 kb on - strand, within HMPREF1058_RS03615at 237.398 kb on + strand, within HMPREF1058_RS03615at 237.440 kb on + strand, within HMPREF1058_RS03615at 237.459 kb on + strand, within HMPREF1058_RS03615at 237.480 kb on - strand, within HMPREF1058_RS03615at 237.487 kb on + strand, within HMPREF1058_RS03615at 237.487 kb on + strand, within HMPREF1058_RS03615at 237.488 kb on - strand, within HMPREF1058_RS03615at 237.495 kb on - strand, within HMPREF1058_RS03615at 237.533 kb on - strand, within HMPREF1058_RS03615at 237.537 kb on - strand, within HMPREF1058_RS03615at 237.549 kb on - strand, within HMPREF1058_RS03615at 237.572 kb on - strand, within HMPREF1058_RS03615at 237.626 kb on + strand, within HMPREF1058_RS03615at 237.626 kb on + strand, within HMPREF1058_RS03615at 237.641 kb on - strand, within HMPREF1058_RS03615at 237.683 kb on + strand, within HMPREF1058_RS03615at 237.685 kb on + strand, within HMPREF1058_RS03615at 237.751 kb on + strand, within HMPREF1058_RS03615at 237.765 kb on - strand, within HMPREF1058_RS03615at 237.765 kb on - strand, within HMPREF1058_RS03615at 237.826 kb on + strand, within HMPREF1058_RS03615at 237.863 kb on + strand, within HMPREF1058_RS03615at 237.864 kb on - strand, within HMPREF1058_RS03615at 237.886 kb on - strand, within HMPREF1058_RS03615at 237.886 kb on - strand, within HMPREF1058_RS03615at 237.923 kb on + strand, within HMPREF1058_RS03615at 237.979 kb on + strand, within HMPREF1058_RS03615at 237.980 kb on - strand, within HMPREF1058_RS03615at 238.008 kb on + strand, within HMPREF1058_RS03615at 238.034 kb on + strand, within HMPREF1058_RS03615at 238.035 kb on - strand, within HMPREF1058_RS03615at 238.035 kb on - strand, within HMPREF1058_RS03615at 238.039 kb on + strand, within HMPREF1058_RS03615at 238.040 kb on - strand, within HMPREF1058_RS03615at 238.047 kb on - strand, within HMPREF1058_RS03615at 238.047 kb on - strand, within HMPREF1058_RS03615at 238.055 kb on - strand, within HMPREF1058_RS03615at 238.265 kb on - strandat 238.272 kb on + strandat 238.338 kb on + strandat 238.339 kb on - strandat 238.339 kb on - strandat 238.416 kb on + strandat 238.417 kb on - strandat 238.469 kb on - strand, within HMPREF1058_RS03610at 238.491 kb on - strand, within HMPREF1058_RS03610at 238.537 kb on + strand, within HMPREF1058_RS03610at 238.553 kb on - strand, within HMPREF1058_RS03610at 238.620 kb on + strand, within HMPREF1058_RS03610at 238.658 kb on + strand, within HMPREF1058_RS03610at 238.658 kb on + strand, within HMPREF1058_RS03610at 238.667 kb on + strand, within HMPREF1058_RS03610at 238.667 kb on + strand, within HMPREF1058_RS03610at 238.667 kb on + strand, within HMPREF1058_RS03610at 238.673 kb on - strand, within HMPREF1058_RS03610at 238.799 kb on + strand, within HMPREF1058_RS03610at 238.827 kb on + strand, within HMPREF1058_RS03610at 238.828 kb on - strand, within HMPREF1058_RS03610at 238.844 kb on + strand, within HMPREF1058_RS03610at 238.850 kb on - strand, within HMPREF1058_RS03610at 238.861 kb on + strand, within HMPREF1058_RS03610at 238.861 kb on + strand, within HMPREF1058_RS03610at 238.901 kb on + strand, within HMPREF1058_RS03610at 238.919 kb on + strand, within HMPREF1058_RS03610at 239.009 kb on + strand, within HMPREF1058_RS03610at 239.060 kb on + strand, within HMPREF1058_RS03610at 239.060 kb on + strand, within HMPREF1058_RS03610at 239.063 kb on + strand, within HMPREF1058_RS03610at 239.122 kb on + strand, within HMPREF1058_RS03610at 239.123 kb on - strand, within HMPREF1058_RS03610at 239.129 kb on + strand, within HMPREF1058_RS03610at 239.171 kb on - strand, within HMPREF1058_RS03610at 239.174 kb on + strand, within HMPREF1058_RS03610at 239.175 kb on - strand, within HMPREF1058_RS03610at 239.175 kb on - strand, within HMPREF1058_RS03610at 239.175 kb on - strand, within HMPREF1058_RS03610at 239.175 kb on - strand, within HMPREF1058_RS03610at 239.180 kb on - strand, within HMPREF1058_RS03610at 239.193 kb on - strand, within HMPREF1058_RS03610at 239.193 kb on - strand, within HMPREF1058_RS03610at 239.201 kb on + strand, within HMPREF1058_RS03610at 239.201 kb on + strand, within HMPREF1058_RS03610at 239.203 kb on + strand, within HMPREF1058_RS03610at 239.207 kb on - strand, within HMPREF1058_RS03610at 239.211 kb on - strand, within HMPREF1058_RS03610at 239.211 kb on - strand, within HMPREF1058_RS03610at 239.222 kb on + strand, within HMPREF1058_RS03610at 239.261 kb on + strand, within HMPREF1058_RS03610at 239.269 kb on + strand, within HMPREF1058_RS03610at 239.270 kb on - strand, within HMPREF1058_RS03610at 239.302 kb on - strand, within HMPREF1058_RS03610at 239.303 kb on + strand, within HMPREF1058_RS03610at 239.304 kb on - strand, within HMPREF1058_RS03610at 239.305 kb on + strand, within HMPREF1058_RS03610at 239.306 kb on - strand, within HMPREF1058_RS03610at 239.306 kb on - strand, within HMPREF1058_RS03610at 239.401 kb on + strandat 239.473 kb on + strandat 239.473 kb on + strandat 239.477 kb on - strandat 239.478 kb on + strandat 239.482 kb on + strandat 239.553 kb on - strand, within HMPREF1058_RS03605at 239.584 kb on + strand, within HMPREF1058_RS03605at 239.585 kb on - strand, within HMPREF1058_RS03605at 239.586 kb on + strand, within HMPREF1058_RS03605at 239.588 kb on + strand, within HMPREF1058_RS03605at 239.588 kb on + strand, within HMPREF1058_RS03605at 239.588 kb on + strand, within HMPREF1058_RS03605at 239.588 kb on + strand, within HMPREF1058_RS03605at 239.588 kb on + strand, within HMPREF1058_RS03605at 239.589 kb on - strand, within HMPREF1058_RS03605at 239.589 kb on - strand, within HMPREF1058_RS03605at 239.607 kb on - strand, within HMPREF1058_RS03605at 239.614 kb on - strand, within HMPREF1058_RS03605at 239.618 kb on + strand, within HMPREF1058_RS03605at 239.641 kb on - strand, within HMPREF1058_RS03605at 239.688 kb on + strand, within HMPREF1058_RS03605at 239.743 kb on + strand, within HMPREF1058_RS03605at 239.743 kb on + strand, within HMPREF1058_RS03605at 239.750 kb on + strand, within HMPREF1058_RS03605at 239.799 kb on + strand, within HMPREF1058_RS03605at 239.799 kb on + strand, within HMPREF1058_RS03605at 239.900 kb on + strand, within HMPREF1058_RS03605at 239.990 kb on + strand, within HMPREF1058_RS03605at 239.990 kb on + strand, within HMPREF1058_RS03605at 240.042 kb on - strand, within HMPREF1058_RS03605at 240.058 kb on - strand, within HMPREF1058_RS03605at 240.083 kb on + strand, within HMPREF1058_RS03605at 240.084 kb on - strand, within HMPREF1058_RS03605at 240.084 kb on - strand, within HMPREF1058_RS03605at 240.084 kb on - strand, within HMPREF1058_RS03605at 240.103 kb on - strand, within HMPREF1058_RS03605at 240.103 kb on - strand, within HMPREF1058_RS03605at 240.105 kb on + strand, within HMPREF1058_RS03605at 240.114 kb on + strand, within HMPREF1058_RS03605at 240.114 kb on + strand, within HMPREF1058_RS03605at 240.115 kb on - strand, within HMPREF1058_RS03605at 240.227 kb on - strand, within HMPREF1058_RS03605at 240.242 kb on + strandat 240.281 kb on + strandat 240.282 kb on - strandat 240.294 kb on + strandat 240.297 kb on - strandat 240.297 kb on - strandat 240.343 kb on + strandat 240.350 kb on + strandat 240.350 kb on + strandat 240.350 kb on + strandat 240.394 kb on + strandat 240.394 kb on + strandat 240.394 kb on + strandat 240.396 kb on + strandat 240.396 kb on + strandat 240.396 kb on + strandat 240.396 kb on + strandat 240.396 kb on + strandat 240.396 kb on + strandat 240.397 kb on - strandat 240.397 kb on - strandat 240.397 kb on - strandat 240.398 kb on + strandat 240.399 kb on - strandat 240.407 kb on - strandat 240.418 kb on + strandat 240.437 kb on + strand, within HMPREF1058_RS03600at 240.438 kb on - strand, within HMPREF1058_RS03600at 240.446 kb on - strand, within HMPREF1058_RS03600

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse2; day4
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237,338 - -3.3
237,392 - HMPREF1058_RS03615 0.12 -1.3
237,398 + HMPREF1058_RS03615 0.13 +1.2
237,440 + HMPREF1058_RS03615 0.17 -0.9
237,459 + HMPREF1058_RS03615 0.19 +1.4
237,480 - HMPREF1058_RS03615 0.21 -3.4
237,487 + HMPREF1058_RS03615 0.22 -1.2
237,487 + HMPREF1058_RS03615 0.22 -2.7
237,488 - HMPREF1058_RS03615 0.22 -1.2
237,495 - HMPREF1058_RS03615 0.22 -0.6
237,533 - HMPREF1058_RS03615 0.26 -0.6
237,537 - HMPREF1058_RS03615 0.27 -1.2
237,549 - HMPREF1058_RS03615 0.28 -4.1
237,572 - HMPREF1058_RS03615 0.30 -3.7
237,626 + HMPREF1058_RS03615 0.35 -2.4
237,626 + HMPREF1058_RS03615 0.35 -1.0
237,641 - HMPREF1058_RS03615 0.37 -0.6
237,683 + HMPREF1058_RS03615 0.41 -1.2
237,685 + HMPREF1058_RS03615 0.41 +0.6
237,751 + HMPREF1058_RS03615 0.48 -0.3
237,765 - HMPREF1058_RS03615 0.49 -1.2
237,765 - HMPREF1058_RS03615 0.49 -2.2
237,826 + HMPREF1058_RS03615 0.55 +1.7
237,863 + HMPREF1058_RS03615 0.59 -1.2
237,864 - HMPREF1058_RS03615 0.59 -2.6
237,886 - HMPREF1058_RS03615 0.61 -1.0
237,886 - HMPREF1058_RS03615 0.61 -1.9
237,923 + HMPREF1058_RS03615 0.65 +0.8
237,979 + HMPREF1058_RS03615 0.70 -1.6
237,980 - HMPREF1058_RS03615 0.70 -2.2
238,008 + HMPREF1058_RS03615 0.73 -2.7
238,034 + HMPREF1058_RS03615 0.76 +0.0
238,035 - HMPREF1058_RS03615 0.76 -1.6
238,035 - HMPREF1058_RS03615 0.76 -2.2
238,039 + HMPREF1058_RS03615 0.76 -2.9
238,040 - HMPREF1058_RS03615 0.76 -1.4
238,047 - HMPREF1058_RS03615 0.77 -0.6
238,047 - HMPREF1058_RS03615 0.77 -3.6
238,055 - HMPREF1058_RS03615 0.78 -0.8
238,265 - -2.0
238,272 + +0.4
238,338 + -1.9
238,339 - -0.6
238,339 - -1.9
238,416 + -1.3
238,417 - -2.2
238,469 - HMPREF1058_RS03610 0.12 -1.6
238,491 - HMPREF1058_RS03610 0.14 -4.0
238,537 + HMPREF1058_RS03610 0.18 -1.6
238,553 - HMPREF1058_RS03610 0.19 -2.6
238,620 + HMPREF1058_RS03610 0.25 -0.6
238,658 + HMPREF1058_RS03610 0.29 +1.0
238,658 + HMPREF1058_RS03610 0.29 +1.4
238,667 + HMPREF1058_RS03610 0.30 -1.6
238,667 + HMPREF1058_RS03610 0.30 -1.6
238,667 + HMPREF1058_RS03610 0.30 +0.4
238,673 - HMPREF1058_RS03610 0.30 -2.2
238,799 + HMPREF1058_RS03610 0.42 +0.2
238,827 + HMPREF1058_RS03610 0.44 -1.2
238,828 - HMPREF1058_RS03610 0.44 -3.5
238,844 + HMPREF1058_RS03610 0.46 +0.4
238,850 - HMPREF1058_RS03610 0.46 -1.2
238,861 + HMPREF1058_RS03610 0.47 +0.0
238,861 + HMPREF1058_RS03610 0.47 -0.6
238,901 + HMPREF1058_RS03610 0.51 -0.1
238,919 + HMPREF1058_RS03610 0.52 -1.6
239,009 + HMPREF1058_RS03610 0.61 +1.7
239,060 + HMPREF1058_RS03610 0.65 -1.2
239,060 + HMPREF1058_RS03610 0.65 +0.4
239,063 + HMPREF1058_RS03610 0.65 -1.0
239,122 + HMPREF1058_RS03610 0.71 -1.9
239,123 - HMPREF1058_RS03610 0.71 -1.6
239,129 + HMPREF1058_RS03610 0.71 -0.6
239,171 - HMPREF1058_RS03610 0.75 -0.3
239,174 + HMPREF1058_RS03610 0.75 -2.0
239,175 - HMPREF1058_RS03610 0.75 +0.4
239,175 - HMPREF1058_RS03610 0.75 -0.8
239,175 - HMPREF1058_RS03610 0.75 -2.9
239,175 - HMPREF1058_RS03610 0.75 -1.9
239,180 - HMPREF1058_RS03610 0.76 +0.4
239,193 - HMPREF1058_RS03610 0.77 -1.6
239,193 - HMPREF1058_RS03610 0.77 -1.2
239,201 + HMPREF1058_RS03610 0.78 -0.2
239,201 + HMPREF1058_RS03610 0.78 -1.2
239,203 + HMPREF1058_RS03610 0.78 -0.6
239,207 - HMPREF1058_RS03610 0.78 -1.9
239,211 - HMPREF1058_RS03610 0.79 -1.2
239,211 - HMPREF1058_RS03610 0.79 -2.2
239,222 + HMPREF1058_RS03610 0.80 +0.4
239,261 + HMPREF1058_RS03610 0.83 -1.6
239,269 + HMPREF1058_RS03610 0.84 +0.3
239,270 - HMPREF1058_RS03610 0.84 -1.0
239,302 - HMPREF1058_RS03610 0.87 -1.6
239,303 + HMPREF1058_RS03610 0.87 -1.9
239,304 - HMPREF1058_RS03610 0.87 -0.6
239,305 + HMPREF1058_RS03610 0.87 -1.2
239,306 - HMPREF1058_RS03610 0.87 +0.4
239,306 - HMPREF1058_RS03610 0.87 +0.4
239,401 + -1.2
239,473 + +0.2
239,473 + +0.0
239,477 - -1.2
239,478 + -0.6
239,482 + -0.9
239,553 - HMPREF1058_RS03605 0.12 -2.2
239,584 + HMPREF1058_RS03605 0.16 -1.2
239,585 - HMPREF1058_RS03605 0.16 -3.7
239,586 + HMPREF1058_RS03605 0.16 +0.4
239,588 + HMPREF1058_RS03605 0.16 +0.4
239,588 + HMPREF1058_RS03605 0.16 -0.6
239,588 + HMPREF1058_RS03605 0.16 -1.6
239,588 + HMPREF1058_RS03605 0.16 -0.6
239,588 + HMPREF1058_RS03605 0.16 -0.4
239,589 - HMPREF1058_RS03605 0.16 -1.9
239,589 - HMPREF1058_RS03605 0.16 -0.6
239,607 - HMPREF1058_RS03605 0.18 -2.9
239,614 - HMPREF1058_RS03605 0.19 -0.6
239,618 + HMPREF1058_RS03605 0.20 +0.0
239,641 - HMPREF1058_RS03605 0.22 +0.8
239,688 + HMPREF1058_RS03605 0.28 +1.4
239,743 + HMPREF1058_RS03605 0.34 +0.4
239,743 + HMPREF1058_RS03605 0.34 -0.2
239,750 + HMPREF1058_RS03605 0.35 -2.2
239,799 + HMPREF1058_RS03605 0.40 +1.4
239,799 + HMPREF1058_RS03605 0.40 -0.2
239,900 + HMPREF1058_RS03605 0.52 -1.8
239,990 + HMPREF1058_RS03605 0.62 -2.4
239,990 + HMPREF1058_RS03605 0.62 +2.6
240,042 - HMPREF1058_RS03605 0.68 -1.3
240,058 - HMPREF1058_RS03605 0.70 -1.6
240,083 + HMPREF1058_RS03605 0.73 -1.0
240,084 - HMPREF1058_RS03605 0.73 +0.2
240,084 - HMPREF1058_RS03605 0.73 -0.6
240,084 - HMPREF1058_RS03605 0.73 -1.2
240,103 - HMPREF1058_RS03605 0.75 -1.2
240,103 - HMPREF1058_RS03605 0.75 -1.6
240,105 + HMPREF1058_RS03605 0.75 -1.2
240,114 + HMPREF1058_RS03605 0.76 +1.2
240,114 + HMPREF1058_RS03605 0.76 +0.4
240,115 - HMPREF1058_RS03605 0.76 -1.2
240,227 - HMPREF1058_RS03605 0.89 -1.6
240,242 + +1.4
240,281 + +2.9
240,282 - +2.0
240,294 + +0.6
240,297 - -1.3
240,297 - -1.9
240,343 + +1.0
240,350 + -0.6
240,350 + -2.7
240,350 + +1.8
240,394 + -1.4
240,394 + -0.9
240,394 + -2.3
240,396 + -1.6
240,396 + +1.1
240,396 + +0.7
240,396 + +0.1
240,396 + +0.4
240,396 + +1.2
240,397 - -3.3
240,397 - -1.2
240,397 - -0.6
240,398 + +2.0
240,399 - -3.2
240,407 - -2.2
240,418 + +1.2
240,437 + HMPREF1058_RS03600 0.10 -1.0
240,438 - HMPREF1058_RS03600 0.10 -1.9
240,446 - HMPREF1058_RS03600 0.11 -0.6

Or see this region's nucleotide sequence