Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS03295

Experiment: Red Arabinan from sugar-beet; filtered 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_RS03300 and HMPREF1058_RS03295 are separated by 385 nucleotidesHMPREF1058_RS03295 and HMPREF1058_RS03290 overlap by 11 nucleotidesHMPREF1058_RS03290 and HMPREF1058_RS03285 are separated by 17 nucleotides HMPREF1058_RS03300: HMPREF1058_RS03300 - superoxide dismutase, at 312,621 to 313,238 _RS03300 HMPREF1058_RS03295: HMPREF1058_RS03295 - sulfur carrier protein ThiS, at 313,624 to 313,824 _RS03295 HMPREF1058_RS03290: HMPREF1058_RS03290 - thiamine phosphate synthase, at 313,814 to 314,440 _RS03290 HMPREF1058_RS03285: HMPREF1058_RS03285 - thiazole synthase, at 314,458 to 315,231 _RS03285 Position (kb) 313 314Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3 4at 312.627 kb on - strandat 312.628 kb on + strandat 312.629 kb on - strandat 312.643 kb on + strandat 312.709 kb on + strand, within HMPREF1058_RS03300at 312.725 kb on + strand, within HMPREF1058_RS03300at 312.728 kb on - strand, within HMPREF1058_RS03300at 312.732 kb on + strand, within HMPREF1058_RS03300at 312.763 kb on + strand, within HMPREF1058_RS03300at 312.763 kb on + strand, within HMPREF1058_RS03300at 312.850 kb on + strand, within HMPREF1058_RS03300at 312.882 kb on - strand, within HMPREF1058_RS03300at 312.886 kb on + strand, within HMPREF1058_RS03300at 313.063 kb on + strand, within HMPREF1058_RS03300at 313.063 kb on + strand, within HMPREF1058_RS03300at 313.064 kb on - strand, within HMPREF1058_RS03300at 313.064 kb on - strand, within HMPREF1058_RS03300at 313.068 kb on - strand, within HMPREF1058_RS03300at 313.068 kb on - strand, within HMPREF1058_RS03300at 313.135 kb on + strandat 313.136 kb on - strand, within HMPREF1058_RS03300at 313.149 kb on + strand, within HMPREF1058_RS03300at 313.149 kb on + strand, within HMPREF1058_RS03300at 313.150 kb on - strand, within HMPREF1058_RS03300at 313.185 kb on - strandat 313.219 kb on + strandat 313.219 kb on + strandat 313.220 kb on - strandat 313.235 kb on - strandat 313.235 kb on - strandat 313.237 kb on - strandat 313.252 kb on + strandat 313.253 kb on - strandat 313.254 kb on + strandat 313.254 kb on + strandat 313.254 kb on + strandat 313.254 kb on + strandat 313.261 kb on + strandat 313.261 kb on + strandat 313.262 kb on - strandat 313.325 kb on + strandat 313.325 kb on + strandat 313.335 kb on - strandat 313.335 kb on - strandat 313.358 kb on + strandat 313.359 kb on - strandat 313.378 kb on + strandat 313.409 kb on + strandat 313.425 kb on - strandat 313.461 kb on + strandat 313.462 kb on - strandat 313.505 kb on + strandat 313.507 kb on + strandat 313.507 kb on + strandat 313.550 kb on + strandat 313.618 kb on + strandat 313.619 kb on - strandat 313.620 kb on + strandat 313.621 kb on - strandat 313.621 kb on - strandat 313.623 kb on + strandat 313.659 kb on - strand, within HMPREF1058_RS03295at 313.754 kb on + strand, within HMPREF1058_RS03295at 313.865 kb on + strandat 313.866 kb on - strandat 313.866 kb on - strandat 313.866 kb on - strandat 313.871 kb on + strandat 313.875 kb on - strandat 313.924 kb on - strand, within HMPREF1058_RS03290at 314.106 kb on + strand, within HMPREF1058_RS03290at 314.107 kb on - strand, within HMPREF1058_RS03290at 314.155 kb on - strand, within HMPREF1058_RS03290at 314.183 kb on + strand, within HMPREF1058_RS03290at 314.184 kb on - strand, within HMPREF1058_RS03290at 314.388 kb on + strandat 314.389 kb on - strandat 314.441 kb on + strandat 314.455 kb on - strandat 314.455 kb on - strandat 314.475 kb on - strandat 314.490 kb on + strandat 314.623 kb on - strand, within HMPREF1058_RS03285at 314.634 kb on + strand, within HMPREF1058_RS03285at 314.651 kb on + strand, within HMPREF1058_RS03285at 314.652 kb on - strand, within HMPREF1058_RS03285at 314.652 kb on - strand, within HMPREF1058_RS03285at 314.657 kb on + strandat 314.668 kb on - strand, within HMPREF1058_RS03285

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Per-strain Table

Position Strand Gene LocusTag Fraction Red Arabinan from sugar-beet; filtered 2.5 mg/ml (C)
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312,627 - -1.2
312,628 + +0.2
312,629 - +2.3
312,643 + +1.6
312,709 + HMPREF1058_RS03300 0.14 +1.3
312,725 + HMPREF1058_RS03300 0.17 +1.3
312,728 - HMPREF1058_RS03300 0.17 +0.1
312,732 + HMPREF1058_RS03300 0.18 +1.6
312,763 + HMPREF1058_RS03300 0.23 +1.4
312,763 + HMPREF1058_RS03300 0.23 +0.9
312,850 + HMPREF1058_RS03300 0.37 +0.7
312,882 - HMPREF1058_RS03300 0.42 +0.8
312,886 + HMPREF1058_RS03300 0.43 +1.0
313,063 + HMPREF1058_RS03300 0.72 +1.6
313,063 + HMPREF1058_RS03300 0.72 +1.1
313,064 - HMPREF1058_RS03300 0.72 -0.9
313,064 - HMPREF1058_RS03300 0.72 +0.9
313,068 - HMPREF1058_RS03300 0.72 -0.1
313,068 - HMPREF1058_RS03300 0.72 +0.7
313,135 + +2.0
313,136 - HMPREF1058_RS03300 0.83 +2.2
313,149 + HMPREF1058_RS03300 0.85 +4.2
313,149 + HMPREF1058_RS03300 0.85 +1.4
313,150 - HMPREF1058_RS03300 0.86 -0.8
313,185 - +1.2
313,219 + +0.1
313,219 + +0.2
313,220 - -0.7
313,235 - +0.3
313,235 - -0.2
313,237 - -0.3
313,252 + +1.3
313,253 - -0.3
313,254 + +3.4
313,254 + +0.1
313,254 + +0.4
313,254 + +0.7
313,261 + -0.5
313,261 + +1.4
313,262 - +0.5
313,325 + +0.9
313,325 + +1.8
313,335 - +0.7
313,335 - -1.1
313,358 + -0.1
313,359 - +0.2
313,378 + +0.9
313,409 + +0.4
313,425 - -0.1
313,461 + -0.0
313,462 - -3.2
313,505 + +0.2
313,507 + +0.7
313,507 + -0.3
313,550 + +0.8
313,618 + +0.6
313,619 - -0.6
313,620 + -3.4
313,621 - -2.6
313,621 - -0.9
313,623 + -0.9
313,659 - HMPREF1058_RS03295 0.17 -2.3
313,754 + HMPREF1058_RS03295 0.65 -3.6
313,865 + -0.9
313,866 - -1.1
313,866 - -3.0
313,866 - -1.3
313,871 + -0.6
313,875 - -1.1
313,924 - HMPREF1058_RS03290 0.18 -0.1
314,106 + HMPREF1058_RS03290 0.47 -2.7
314,107 - HMPREF1058_RS03290 0.47 -3.0
314,155 - HMPREF1058_RS03290 0.54 -2.2
314,183 + HMPREF1058_RS03290 0.59 -2.0
314,184 - HMPREF1058_RS03290 0.59 -2.0
314,388 + +0.3
314,389 - -2.7
314,441 + +1.0
314,455 - -4.0
314,455 - -1.7
314,475 - -2.0
314,490 + -1.4
314,623 - HMPREF1058_RS03285 0.21 -0.3
314,634 + HMPREF1058_RS03285 0.23 -1.9
314,651 + HMPREF1058_RS03285 0.25 -2.3
314,652 - HMPREF1058_RS03285 0.25 -2.2
314,652 - HMPREF1058_RS03285 0.25 -1.8
314,657 + +0.1
314,668 - HMPREF1058_RS03285 0.27 -2.5

Or see this region's nucleotide sequence