Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS17865

Experiment: Xylan from corn core 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_RS17875 and HMPREF1058_RS17870 are separated by 208 nucleotidesHMPREF1058_RS17870 and HMPREF1058_RS17865 overlap by 35 nucleotidesHMPREF1058_RS17865 and HMPREF1058_RS17860 are separated by 85 nucleotides HMPREF1058_RS17875: HMPREF1058_RS17875 - DUF1573 domain-containing protein, at 310,740 to 311,153 _RS17875 HMPREF1058_RS17870: HMPREF1058_RS17870 - metallophosphoesterase, at 311,362 to 312,168 _RS17870 HMPREF1058_RS17865: HMPREF1058_RS17865 - hypothetical protein, at 312,134 to 312,895 _RS17865 HMPREF1058_RS17860: HMPREF1058_RS17860 - oligopeptide transporter, OPT family, at 312,981 to 314,972 _RS17860 Position (kb) 312 313Strain fitness (log2 ratio) -2 -1 0 1 2at 311.167 kb on + strandat 311.167 kb on + strandat 311.181 kb on + strandat 311.211 kb on - strandat 311.211 kb on - strandat 311.224 kb on - strandat 311.262 kb on + strandat 311.448 kb on + strand, within HMPREF1058_RS17870at 311.448 kb on + strand, within HMPREF1058_RS17870at 311.449 kb on - strand, within HMPREF1058_RS17870at 311.449 kb on - strand, within HMPREF1058_RS17870at 311.449 kb on - strand, within HMPREF1058_RS17870at 311.449 kb on - strand, within HMPREF1058_RS17870at 311.449 kb on - strand, within HMPREF1058_RS17870at 311.558 kb on - strand, within HMPREF1058_RS17870at 311.579 kb on + strand, within HMPREF1058_RS17870at 311.679 kb on - strand, within HMPREF1058_RS17870at 311.679 kb on - strand, within HMPREF1058_RS17870at 311.701 kb on + strand, within HMPREF1058_RS17870at 311.705 kb on + strandat 311.705 kb on + strand, within HMPREF1058_RS17870at 311.706 kb on - strand, within HMPREF1058_RS17870at 311.706 kb on - strand, within HMPREF1058_RS17870at 311.836 kb on + strand, within HMPREF1058_RS17870at 312.023 kb on - strand, within HMPREF1058_RS17870at 312.057 kb on - strand, within HMPREF1058_RS17870at 312.096 kb on - strandat 312.109 kb on + strandat 312.113 kb on + strandat 312.113 kb on + strandat 312.114 kb on - strandat 312.114 kb on - strandat 312.186 kb on + strandat 312.187 kb on - strandat 312.208 kb on + strandat 312.264 kb on + strand, within HMPREF1058_RS17865at 312.264 kb on + strand, within HMPREF1058_RS17865at 312.264 kb on + strand, within HMPREF1058_RS17865at 312.264 kb on + strand, within HMPREF1058_RS17865at 312.265 kb on - strand, within HMPREF1058_RS17865at 312.304 kb on + strand, within HMPREF1058_RS17865at 312.335 kb on - strand, within HMPREF1058_RS17865at 312.339 kb on - strand, within HMPREF1058_RS17865at 312.339 kb on - strand, within HMPREF1058_RS17865at 312.402 kb on + strand, within HMPREF1058_RS17865at 312.407 kb on + strand, within HMPREF1058_RS17865at 312.551 kb on + strandat 312.554 kb on - strand, within HMPREF1058_RS17865at 312.565 kb on + strand, within HMPREF1058_RS17865at 312.565 kb on + strand, within HMPREF1058_RS17865at 312.709 kb on + strand, within HMPREF1058_RS17865at 312.836 kb on + strandat 312.836 kb on + strandat 312.865 kb on - strandat 312.889 kb on - strandat 312.943 kb on + strandat 312.944 kb on - strandat 313.093 kb on + strandat 313.099 kb on + strandat 313.100 kb on - strandat 313.155 kb on + strandat 313.335 kb on + strand, within HMPREF1058_RS17860at 313.337 kb on + strand, within HMPREF1058_RS17860at 313.338 kb on - strandat 313.338 kb on - strand, within HMPREF1058_RS17860at 313.354 kb on - strand, within HMPREF1058_RS17860at 313.565 kb on - strandat 313.568 kb on - strand, within HMPREF1058_RS17860at 313.592 kb on - strand, within HMPREF1058_RS17860at 313.703 kb on - strand, within HMPREF1058_RS17860at 313.716 kb on + strand, within HMPREF1058_RS17860at 313.717 kb on - strand, within HMPREF1058_RS17860at 313.719 kb on - strand, within HMPREF1058_RS17860at 313.768 kb on + strand, within HMPREF1058_RS17860at 313.791 kb on - strand, within HMPREF1058_RS17860at 313.875 kb on - strand, within HMPREF1058_RS17860at 313.876 kb on + strand, within HMPREF1058_RS17860at 313.876 kb on + strand, within HMPREF1058_RS17860at 313.887 kb on + strand, within HMPREF1058_RS17860

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Per-strain Table

Position Strand Gene LocusTag Fraction Xylan from corn core 2.5 mg/ml (C)
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311,167 + +0.2
311,167 + +0.3
311,181 + -1.7
311,211 - -0.3
311,211 - +0.3
311,224 - +1.4
311,262 + +0.3
311,448 + HMPREF1058_RS17870 0.11 -0.1
311,448 + HMPREF1058_RS17870 0.11 +0.9
311,449 - HMPREF1058_RS17870 0.11 -0.1
311,449 - HMPREF1058_RS17870 0.11 +0.6
311,449 - HMPREF1058_RS17870 0.11 +1.2
311,449 - HMPREF1058_RS17870 0.11 +1.0
311,449 - HMPREF1058_RS17870 0.11 -0.2
311,558 - HMPREF1058_RS17870 0.24 -1.9
311,579 + HMPREF1058_RS17870 0.27 +0.2
311,679 - HMPREF1058_RS17870 0.39 +1.0
311,679 - HMPREF1058_RS17870 0.39 -0.5
311,701 + HMPREF1058_RS17870 0.42 +0.5
311,705 + -1.4
311,705 + HMPREF1058_RS17870 0.43 +0.3
311,706 - HMPREF1058_RS17870 0.43 +0.6
311,706 - HMPREF1058_RS17870 0.43 -0.2
311,836 + HMPREF1058_RS17870 0.59 +0.3
312,023 - HMPREF1058_RS17870 0.82 +0.4
312,057 - HMPREF1058_RS17870 0.86 +1.7
312,096 - +0.2
312,109 + +0.4
312,113 + +0.4
312,113 + -1.1
312,114 - +0.2
312,114 - +0.7
312,186 + +1.2
312,187 - -0.7
312,208 + +0.2
312,264 + HMPREF1058_RS17865 0.17 +0.2
312,264 + HMPREF1058_RS17865 0.17 +0.4
312,264 + HMPREF1058_RS17865 0.17 +0.5
312,264 + HMPREF1058_RS17865 0.17 +0.6
312,265 - HMPREF1058_RS17865 0.17 -0.4
312,304 + HMPREF1058_RS17865 0.22 +1.6
312,335 - HMPREF1058_RS17865 0.26 +1.5
312,339 - HMPREF1058_RS17865 0.27 -0.6
312,339 - HMPREF1058_RS17865 0.27 +0.5
312,402 + HMPREF1058_RS17865 0.35 +1.0
312,407 + HMPREF1058_RS17865 0.36 +0.3
312,551 + +1.3
312,554 - HMPREF1058_RS17865 0.55 +0.7
312,565 + HMPREF1058_RS17865 0.57 -0.2
312,565 + HMPREF1058_RS17865 0.57 -0.7
312,709 + HMPREF1058_RS17865 0.75 +1.2
312,836 + +0.4
312,836 + -0.2
312,865 - +0.9
312,889 - -0.9
312,943 + -0.7
312,944 - -0.3
313,093 + +0.4
313,099 + -1.1
313,100 - +0.4
313,155 + +1.2
313,335 + HMPREF1058_RS17860 0.18 +0.5
313,337 + HMPREF1058_RS17860 0.18 +1.3
313,338 - +1.0
313,338 - HMPREF1058_RS17860 0.18 -0.6
313,354 - HMPREF1058_RS17860 0.19 +0.4
313,565 - -0.9
313,568 - HMPREF1058_RS17860 0.29 +2.5
313,592 - HMPREF1058_RS17860 0.31 +1.3
313,703 - HMPREF1058_RS17860 0.36 +1.5
313,716 + HMPREF1058_RS17860 0.37 +2.6
313,717 - HMPREF1058_RS17860 0.37 +0.6
313,719 - HMPREF1058_RS17860 0.37 +1.1
313,768 + HMPREF1058_RS17860 0.40 +0.6
313,791 - HMPREF1058_RS17860 0.41 -0.3
313,875 - HMPREF1058_RS17860 0.45 +0.9
313,876 + HMPREF1058_RS17860 0.45 -1.0
313,876 + HMPREF1058_RS17860 0.45 -0.2
313,887 + HMPREF1058_RS17860 0.45 -0.6

Or see this region's nucleotide sequence