Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS20195

Experiment: Arabinoxylan (Rye Flour) 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_RS19055 and HMPREF1058_RS19050 are separated by 6 nucleotidesHMPREF1058_RS19050 and HMPREF1058_RS20335 overlap by 11 nucleotidesHMPREF1058_RS20335 and HMPREF1058_RS19045 are separated by 5 nucleotidesHMPREF1058_RS19045 and HMPREF1058_RS20195 are separated by 7 nucleotidesHMPREF1058_RS20195 and HMPREF1058_RS20340 are separated by 272 nucleotidesHMPREF1058_RS20340 and HMPREF1058_RS19030 are separated by 289 nucleotides HMPREF1058_RS19055: HMPREF1058_RS19055 - hypothetical protein, at 28,764 to 29,039 _RS19055 HMPREF1058_RS19050: HMPREF1058_RS19050 - hypothetical protein, at 29,046 to 29,246 _RS19050 HMPREF1058_RS20335: HMPREF1058_RS20335 - DpnD/PcfM family protein, at 29,236 to 29,412 _RS20335 HMPREF1058_RS19045: HMPREF1058_RS19045 - hypothetical protein, at 29,418 to 29,828 _RS19045 HMPREF1058_RS20195: HMPREF1058_RS20195 - hypothetical protein, at 29,836 to 30,306 _RS20195 HMPREF1058_RS20340: HMPREF1058_RS20340 - DUF3873 family protein, at 30,579 to 30,812 _RS20340 HMPREF1058_RS19030: HMPREF1058_RS19030 - hypothetical protein, at 31,102 to 31,452 _RS19030 Position (kb) 29 30 31Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 28.857 kb on - strand, within HMPREF1058_RS19055at 28.877 kb on - strand, within HMPREF1058_RS19055at 28.887 kb on - strand, within HMPREF1058_RS19055at 28.900 kb on + strand, within HMPREF1058_RS19055at 28.901 kb on - strand, within HMPREF1058_RS19055at 28.998 kb on + strand, within HMPREF1058_RS19055at 28.999 kb on - strand, within HMPREF1058_RS19055at 28.999 kb on - strandat 29.235 kb on - strandat 29.293 kb on - strand, within HMPREF1058_RS20335at 29.369 kb on - strand, within HMPREF1058_RS20335at 29.376 kb on + strand, within HMPREF1058_RS20335at 29.389 kb on + strand, within HMPREF1058_RS20335at 29.389 kb on + strand, within HMPREF1058_RS20335at 29.428 kb on - strandat 29.481 kb on - strand, within HMPREF1058_RS19045at 29.508 kb on - strand, within HMPREF1058_RS19045at 29.538 kb on + strand, within HMPREF1058_RS19045at 29.538 kb on + strand, within HMPREF1058_RS19045at 29.559 kb on - strand, within HMPREF1058_RS19045at 29.577 kb on + strand, within HMPREF1058_RS19045at 29.599 kb on + strand, within HMPREF1058_RS19045at 29.668 kb on - strand, within HMPREF1058_RS19045at 29.668 kb on - strand, within HMPREF1058_RS19045at 29.705 kb on - strand, within HMPREF1058_RS19045at 29.742 kb on + strand, within HMPREF1058_RS19045at 29.742 kb on + strand, within HMPREF1058_RS19045at 29.747 kb on - strand, within HMPREF1058_RS19045at 29.815 kb on - strandat 29.842 kb on + strandat 29.970 kb on + strand, within HMPREF1058_RS20195at 30.031 kb on - strand, within HMPREF1058_RS20195at 30.031 kb on - strand, within HMPREF1058_RS20195at 30.074 kb on + strand, within HMPREF1058_RS20195at 30.081 kb on - strand, within HMPREF1058_RS20195at 30.160 kb on - strand, within HMPREF1058_RS20195at 30.174 kb on - strand, within HMPREF1058_RS20195at 30.183 kb on + strand, within HMPREF1058_RS20195at 30.184 kb on - strand, within HMPREF1058_RS20195at 30.202 kb on - strand, within HMPREF1058_RS20195at 30.202 kb on - strand, within HMPREF1058_RS20195at 30.202 kb on - strand, within HMPREF1058_RS20195at 30.202 kb on - strand, within HMPREF1058_RS20195at 30.287 kb on - strandat 30.357 kb on + strandat 30.405 kb on + strandat 30.405 kb on + strandat 30.584 kb on - strandat 30.618 kb on - strand, within HMPREF1058_RS20340at 30.704 kb on - strand, within HMPREF1058_RS20340at 30.710 kb on - strand, within HMPREF1058_RS20340at 30.733 kb on - strand, within HMPREF1058_RS20340at 30.746 kb on - strand, within HMPREF1058_RS20340at 30.746 kb on - strand, within HMPREF1058_RS20340at 30.754 kb on + strand, within HMPREF1058_RS20340at 30.755 kb on - strand, within HMPREF1058_RS20340at 30.813 kb on - strandat 30.820 kb on + strandat 30.820 kb on + strandat 30.820 kb on + strandat 30.821 kb on - strandat 30.827 kb on - strandat 30.869 kb on - strandat 30.940 kb on + strandat 30.952 kb on - strandat 31.007 kb on + strandat 31.007 kb on + strandat 31.007 kb on + strandat 31.007 kb on + strandat 31.008 kb on - strandat 31.008 kb on - strandat 31.008 kb on - strandat 31.008 kb on - strandat 31.008 kb on - strandat 31.009 kb on - strandat 31.010 kb on - strandat 31.010 kb on - strandat 31.010 kb on - strandat 31.059 kb on + strandat 31.104 kb on - strandat 31.124 kb on - strandat 31.211 kb on + strand, within HMPREF1058_RS19030at 31.240 kb on + strand, within HMPREF1058_RS19030at 31.241 kb on - strand, within HMPREF1058_RS19030at 31.278 kb on + strand, within HMPREF1058_RS19030at 31.279 kb on - strand, within HMPREF1058_RS19030at 31.282 kb on + strand, within HMPREF1058_RS19030at 31.282 kb on + strand, within HMPREF1058_RS19030at 31.293 kb on + strand, within HMPREF1058_RS19030at 31.294 kb on - strand, within HMPREF1058_RS19030

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Per-strain Table

Position Strand Gene LocusTag Fraction Arabinoxylan (Rye Flour) 2.5 mg/ml (C)
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28,857 - HMPREF1058_RS19055 0.34 -1.0
28,877 - HMPREF1058_RS19055 0.41 -0.2
28,887 - HMPREF1058_RS19055 0.45 +0.1
28,900 + HMPREF1058_RS19055 0.49 +1.6
28,901 - HMPREF1058_RS19055 0.50 -0.3
28,998 + HMPREF1058_RS19055 0.85 +3.2
28,999 - HMPREF1058_RS19055 0.85 -1.1
28,999 - +2.1
29,235 - -1.1
29,293 - HMPREF1058_RS20335 0.32 +0.6
29,369 - HMPREF1058_RS20335 0.75 +0.6
29,376 + HMPREF1058_RS20335 0.79 +1.9
29,389 + HMPREF1058_RS20335 0.86 -2.5
29,389 + HMPREF1058_RS20335 0.86 -4.3
29,428 - +0.6
29,481 - HMPREF1058_RS19045 0.15 +0.3
29,508 - HMPREF1058_RS19045 0.22 -2.7
29,538 + HMPREF1058_RS19045 0.29 -2.2
29,538 + HMPREF1058_RS19045 0.29 +0.6
29,559 - HMPREF1058_RS19045 0.34 +0.5
29,577 + HMPREF1058_RS19045 0.39 -2.2
29,599 + HMPREF1058_RS19045 0.44 +0.9
29,668 - HMPREF1058_RS19045 0.61 -1.1
29,668 - HMPREF1058_RS19045 0.61 -3.7
29,705 - HMPREF1058_RS19045 0.70 -0.8
29,742 + HMPREF1058_RS19045 0.79 -1.4
29,742 + HMPREF1058_RS19045 0.79 +0.9
29,747 - HMPREF1058_RS19045 0.80 -0.3
29,815 - -2.1
29,842 + -1.0
29,970 + HMPREF1058_RS20195 0.28 +0.9
30,031 - HMPREF1058_RS20195 0.41 -1.1
30,031 - HMPREF1058_RS20195 0.41 -2.1
30,074 + HMPREF1058_RS20195 0.51 -2.0
30,081 - HMPREF1058_RS20195 0.52 -1.9
30,160 - HMPREF1058_RS20195 0.69 -1.0
30,174 - HMPREF1058_RS20195 0.72 -0.7
30,183 + HMPREF1058_RS20195 0.74 +1.9
30,184 - HMPREF1058_RS20195 0.74 -0.5
30,202 - HMPREF1058_RS20195 0.78 -0.9
30,202 - HMPREF1058_RS20195 0.78 +1.0
30,202 - HMPREF1058_RS20195 0.78 -1.2
30,202 - HMPREF1058_RS20195 0.78 -1.5
30,287 - -1.4
30,357 + -1.5
30,405 + -0.6
30,405 + -1.5
30,584 - +0.6
30,618 - HMPREF1058_RS20340 0.17 -2.3
30,704 - HMPREF1058_RS20340 0.53 -1.4
30,710 - HMPREF1058_RS20340 0.56 -2.0
30,733 - HMPREF1058_RS20340 0.66 -1.2
30,746 - HMPREF1058_RS20340 0.71 -0.9
30,746 - HMPREF1058_RS20340 0.71 -1.0
30,754 + HMPREF1058_RS20340 0.75 +0.3
30,755 - HMPREF1058_RS20340 0.75 +1.0
30,813 - -0.1
30,820 + -0.4
30,820 + -0.1
30,820 + -0.4
30,821 - -0.6
30,827 - +0.1
30,869 - +3.6
30,940 + -0.5
30,952 - -0.4
31,007 + -2.0
31,007 + +0.6
31,007 + +0.1
31,007 + -1.6
31,008 - +0.7
31,008 - +0.9
31,008 - +0.6
31,008 - -2.2
31,008 - -0.9
31,009 - -2.1
31,010 - -0.2
31,010 - -2.4
31,010 - -0.8
31,059 + +1.3
31,104 - -3.2
31,124 - +2.1
31,211 + HMPREF1058_RS19030 0.31 +1.1
31,240 + HMPREF1058_RS19030 0.39 +1.5
31,241 - HMPREF1058_RS19030 0.40 +1.0
31,278 + HMPREF1058_RS19030 0.50 -0.3
31,279 - HMPREF1058_RS19030 0.50 -2.6
31,282 + HMPREF1058_RS19030 0.51 -1.4
31,282 + HMPREF1058_RS19030 0.51 -0.7
31,293 + HMPREF1058_RS19030 0.54 -1.4
31,294 - HMPREF1058_RS19030 0.55 -2.5

Or see this region's nucleotide sequence