Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS03605

Experiment: Arabinoxylan (Rye Flour); autoclaved 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_RS03610 and HMPREF1058_RS03605 overlap by 1 nucleotidesHMPREF1058_RS03605 and HMPREF1058_RS03600 are separated by 4 nucleotides 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) 239 240 241Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3 4at 238.469 kb on - strand, within HMPREF1058_RS03610at 238.491 kb on - strand, within HMPREF1058_RS03610at 238.532 kb on + strandat 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 238.658 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 239.332 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 239.477 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 239.597 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 240.102 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 240.195 kb on + strandat 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 240.329 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 240.397 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_RS03600at 240.499 kb on + strand, within HMPREF1058_RS03600at 240.501 kb on + strand, within HMPREF1058_RS03600at 240.579 kb on - strand, within HMPREF1058_RS03600at 240.587 kb on + strand, within HMPREF1058_RS03600at 240.588 kb on - strand, within HMPREF1058_RS03600at 240.642 kb on - strand, within HMPREF1058_RS03600at 240.702 kb on + strand, within HMPREF1058_RS03600at 240.706 kb on + strand, within HMPREF1058_RS03600at 240.711 kb on - strand, within HMPREF1058_RS03600at 240.752 kb on - strand, within HMPREF1058_RS03600at 240.752 kb on - strand, within HMPREF1058_RS03600at 240.775 kb on + strand, within HMPREF1058_RS03600at 240.852 kb on - strand, within HMPREF1058_RS03600at 240.894 kb on - strand, within HMPREF1058_RS03600at 240.915 kb on - strand, within HMPREF1058_RS03600at 240.948 kb on - strand, within HMPREF1058_RS03600at 240.956 kb on + strand, within HMPREF1058_RS03600at 240.958 kb on + strand, within HMPREF1058_RS03600at 240.959 kb on - strand, within HMPREF1058_RS03600at 241.004 kb on - strand, within HMPREF1058_RS03600at 241.018 kb on + strand, within HMPREF1058_RS03600at 241.139 kb on + strand, within HMPREF1058_RS03600at 241.169 kb on + strand, within HMPREF1058_RS03600at 241.176 kb on + strand, within HMPREF1058_RS03600at 241.191 kb on - strand, within HMPREF1058_RS03600at 241.202 kb on + strandat 241.226 kb on + strand, within HMPREF1058_RS03600at 241.252 kb on + strand, within HMPREF1058_RS03600at 241.252 kb on + strand, within HMPREF1058_RS03600at 241.253 kb on - strand, within HMPREF1058_RS03600at 241.268 kb on - strand, within HMPREF1058_RS03600at 241.305 kb on + strandat 241.305 kb on + strand, within HMPREF1058_RS03600at 241.306 kb on - strand, within HMPREF1058_RS03600at 241.314 kb on - strand, within HMPREF1058_RS03600at 241.318 kb on + strandat 241.319 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Arabinoxylan (Rye Flour); autoclaved 2.5 mg/ml (C)
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238,469 - HMPREF1058_RS03610 0.12 +3.8
238,491 - HMPREF1058_RS03610 0.14 +3.5
238,532 + -0.8
238,537 + HMPREF1058_RS03610 0.18 -1.0
238,553 - HMPREF1058_RS03610 0.19 +0.7
238,620 + HMPREF1058_RS03610 0.25 -0.0
238,658 + HMPREF1058_RS03610 0.29 +2.0
238,658 + HMPREF1058_RS03610 0.29 -3.2
238,658 + HMPREF1058_RS03610 0.29 -0.0
238,667 + HMPREF1058_RS03610 0.30 -1.0
238,667 + HMPREF1058_RS03610 0.30 -1.3
238,667 + HMPREF1058_RS03610 0.30 +1.2
238,673 - HMPREF1058_RS03610 0.30 +1.0
238,799 + HMPREF1058_RS03610 0.42 +0.3
238,827 + HMPREF1058_RS03610 0.44 +0.8
238,828 - HMPREF1058_RS03610 0.44 +2.0
238,844 + HMPREF1058_RS03610 0.46 +4.5
238,850 - HMPREF1058_RS03610 0.46 +0.4
238,861 + HMPREF1058_RS03610 0.47 -1.6
238,861 + HMPREF1058_RS03610 0.47 -0.3
238,901 + HMPREF1058_RS03610 0.51 -0.2
238,919 + HMPREF1058_RS03610 0.52 +3.2
239,009 + HMPREF1058_RS03610 0.61 +0.2
239,060 + HMPREF1058_RS03610 0.65 +2.5
239,060 + HMPREF1058_RS03610 0.65 -0.8
239,063 + HMPREF1058_RS03610 0.65 +0.1
239,122 + HMPREF1058_RS03610 0.71 +1.5
239,123 - HMPREF1058_RS03610 0.71 +4.1
239,129 + HMPREF1058_RS03610 0.71 -1.7
239,171 - HMPREF1058_RS03610 0.75 -2.7
239,174 + HMPREF1058_RS03610 0.75 -0.7
239,175 - HMPREF1058_RS03610 0.75 -1.3
239,175 - HMPREF1058_RS03610 0.75 +0.4
239,175 - HMPREF1058_RS03610 0.75 +0.9
239,175 - HMPREF1058_RS03610 0.75 +2.7
239,180 - HMPREF1058_RS03610 0.76 +3.4
239,193 - HMPREF1058_RS03610 0.77 -1.2
239,193 - HMPREF1058_RS03610 0.77 -1.0
239,201 + HMPREF1058_RS03610 0.78 -1.7
239,201 + HMPREF1058_RS03610 0.78 -0.3
239,203 + HMPREF1058_RS03610 0.78 +1.2
239,207 - HMPREF1058_RS03610 0.78 -1.6
239,211 - HMPREF1058_RS03610 0.79 +2.8
239,211 - HMPREF1058_RS03610 0.79 +0.9
239,222 + HMPREF1058_RS03610 0.80 -0.0
239,261 + HMPREF1058_RS03610 0.83 -1.7
239,269 + HMPREF1058_RS03610 0.84 +0.8
239,270 - HMPREF1058_RS03610 0.84 -0.2
239,302 - HMPREF1058_RS03610 0.87 -0.8
239,303 + HMPREF1058_RS03610 0.87 +0.8
239,304 - HMPREF1058_RS03610 0.87 -1.0
239,305 + HMPREF1058_RS03610 0.87 -2.8
239,306 - HMPREF1058_RS03610 0.87 -2.1
239,306 - HMPREF1058_RS03610 0.87 -0.3
239,332 - HMPREF1058_RS03610 0.90 +2.0
239,401 + +4.0
239,473 + +2.0
239,473 + +1.5
239,477 - -0.3
239,477 - +2.0
239,478 + -1.3
239,482 + +1.4
239,553 - HMPREF1058_RS03605 0.12 -1.3
239,584 + HMPREF1058_RS03605 0.16 +0.5
239,585 - HMPREF1058_RS03605 0.16 +2.5
239,586 + HMPREF1058_RS03605 0.16 -0.0
239,588 + HMPREF1058_RS03605 0.16 +3.6
239,588 + HMPREF1058_RS03605 0.16 +2.2
239,588 + HMPREF1058_RS03605 0.16 +2.2
239,588 + HMPREF1058_RS03605 0.16 +1.2
239,588 + HMPREF1058_RS03605 0.16 +3.6
239,589 - HMPREF1058_RS03605 0.16 +2.3
239,589 - HMPREF1058_RS03605 0.16 +2.5
239,597 - HMPREF1058_RS03605 0.17 +0.4
239,607 - HMPREF1058_RS03605 0.18 +3.7
239,614 - HMPREF1058_RS03605 0.19 +3.4
239,618 + HMPREF1058_RS03605 0.20 +0.5
239,641 - HMPREF1058_RS03605 0.22 +1.1
239,688 + HMPREF1058_RS03605 0.28 -0.3
239,743 + HMPREF1058_RS03605 0.34 -0.0
239,743 + HMPREF1058_RS03605 0.34 -2.5
239,750 + HMPREF1058_RS03605 0.35 +2.7
239,799 + HMPREF1058_RS03605 0.40 +1.1
239,799 + HMPREF1058_RS03605 0.40 +0.4
239,900 + HMPREF1058_RS03605 0.52 -0.8
239,990 + HMPREF1058_RS03605 0.62 -2.5
239,990 + HMPREF1058_RS03605 0.62 +0.4
240,042 - HMPREF1058_RS03605 0.68 +1.4
240,058 - HMPREF1058_RS03605 0.70 +1.0
240,083 + HMPREF1058_RS03605 0.73 +2.5
240,084 - HMPREF1058_RS03605 0.73 -0.6
240,084 - HMPREF1058_RS03605 0.73 +2.0
240,084 - HMPREF1058_RS03605 0.73 -0.6
240,102 + HMPREF1058_RS03605 0.75 -0.6
240,103 - HMPREF1058_RS03605 0.75 +0.4
240,103 - HMPREF1058_RS03605 0.75 +1.3
240,105 + HMPREF1058_RS03605 0.75 +0.6
240,114 + HMPREF1058_RS03605 0.76 -0.8
240,114 + HMPREF1058_RS03605 0.76 +2.3
240,115 - HMPREF1058_RS03605 0.76 -0.0
240,195 + +2.0
240,227 - HMPREF1058_RS03605 0.89 +0.8
240,242 + -0.8
240,281 + +0.9
240,282 - -0.3
240,294 + +0.2
240,297 - -2.7
240,297 - +1.0
240,329 + +3.7
240,343 + -0.2
240,350 + +0.3
240,350 + +3.5
240,350 + +1.8
240,394 + +1.2
240,394 + -1.7
240,394 + +1.5
240,396 + +2.0
240,396 + +0.5
240,396 + -3.2
240,396 + +1.0
240,396 + +4.0
240,396 + +1.3
240,397 - +4.3
240,397 - +1.3
240,397 - +3.7
240,397 - +2.4
240,398 + -0.8
240,399 - -0.9
240,407 - +1.6
240,418 + +2.4
240,437 + HMPREF1058_RS03600 0.10 +1.2
240,438 - HMPREF1058_RS03600 0.10 -0.6
240,446 - HMPREF1058_RS03600 0.11 +3.4
240,499 + HMPREF1058_RS03600 0.16 -1.2
240,501 + HMPREF1058_RS03600 0.16 +0.3
240,579 - HMPREF1058_RS03600 0.23 -0.5
240,587 + HMPREF1058_RS03600 0.24 -1.0
240,588 - HMPREF1058_RS03600 0.24 +3.2
240,642 - HMPREF1058_RS03600 0.29 -0.8
240,702 + HMPREF1058_RS03600 0.34 +0.9
240,706 + HMPREF1058_RS03600 0.35 +1.2
240,711 - HMPREF1058_RS03600 0.35 -1.2
240,752 - HMPREF1058_RS03600 0.39 -1.2
240,752 - HMPREF1058_RS03600 0.39 +1.0
240,775 + HMPREF1058_RS03600 0.41 -2.7
240,852 - HMPREF1058_RS03600 0.48 +0.4
240,894 - HMPREF1058_RS03600 0.52 -1.3
240,915 - HMPREF1058_RS03600 0.53 -0.3
240,948 - HMPREF1058_RS03600 0.56 -1.5
240,956 + HMPREF1058_RS03600 0.57 -1.2
240,958 + HMPREF1058_RS03600 0.57 -1.0
240,959 - HMPREF1058_RS03600 0.57 -1.3
241,004 - HMPREF1058_RS03600 0.62 +0.4
241,018 + HMPREF1058_RS03600 0.63 +2.2
241,139 + HMPREF1058_RS03600 0.74 -2.8
241,169 + HMPREF1058_RS03600 0.77 +3.0
241,176 + HMPREF1058_RS03600 0.77 +4.1
241,191 - HMPREF1058_RS03600 0.79 +1.0
241,202 + +1.0
241,226 + HMPREF1058_RS03600 0.82 +1.3
241,252 + HMPREF1058_RS03600 0.84 +0.6
241,252 + HMPREF1058_RS03600 0.84 -2.1
241,253 - HMPREF1058_RS03600 0.84 -0.0
241,268 - HMPREF1058_RS03600 0.86 +2.6
241,305 + -0.3
241,305 + HMPREF1058_RS03600 0.89 +1.6
241,306 - HMPREF1058_RS03600 0.89 -0.8
241,314 - HMPREF1058_RS03600 0.90 -1.0
241,318 + +4.0
241,319 - +0.7

Or see this region's nucleotide sequence