Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS01795

Experiment: D-Glucose-6-Phosphate 10 mM (C) mhCom Varel_Bryant_medium_lowCys Passage4

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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_RS01810 and HMPREF1058_RS01805 are separated by 62 nucleotidesHMPREF1058_RS01805 and HMPREF1058_RS01800 overlap by 4 nucleotidesHMPREF1058_RS01800 and HMPREF1058_RS01795 are separated by 4 nucleotidesHMPREF1058_RS01795 and HMPREF1058_RS01790 are separated by 57 nucleotides HMPREF1058_RS01810: HMPREF1058_RS01810 - tRNA-Ala, at 38,127 to 38,200 _RS01810 HMPREF1058_RS01805: HMPREF1058_RS01805 - DUF4286 family protein, at 38,263 to 38,568 _RS01805 HMPREF1058_RS01800: HMPREF1058_RS01800 - crossover junction endodeoxyribonuclease RuvC, at 38,565 to 39,134 _RS01800 HMPREF1058_RS01795: HMPREF1058_RS01795 - type I pullulanase, at 39,139 to 41,133 _RS01795 HMPREF1058_RS01790: HMPREF1058_RS01790 - mannonate dehydratase, at 41,191 to 42,369 _RS01790 Position (kb) 39 40 41 42Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 38.213 kb on + strandat 38.249 kb on + strandat 38.259 kb on - strandat 38.262 kb on + strandat 38.262 kb on + strandat 38.338 kb on + strand, within HMPREF1058_RS01805at 38.338 kb on + strand, within HMPREF1058_RS01805at 38.339 kb on - strand, within HMPREF1058_RS01805at 38.398 kb on - strand, within HMPREF1058_RS01805at 38.451 kb on + strand, within HMPREF1058_RS01805at 38.452 kb on - strand, within HMPREF1058_RS01805at 38.516 kb on + strand, within HMPREF1058_RS01805at 38.645 kb on - strand, within HMPREF1058_RS01800at 38.693 kb on + strand, within HMPREF1058_RS01800at 38.713 kb on + strand, within HMPREF1058_RS01800at 38.747 kb on + strand, within HMPREF1058_RS01800at 38.761 kb on - strand, within HMPREF1058_RS01800at 38.761 kb on - strand, within HMPREF1058_RS01800at 38.761 kb on - strand, within HMPREF1058_RS01800at 38.880 kb on - strand, within HMPREF1058_RS01800at 38.890 kb on - strand, within HMPREF1058_RS01800at 38.975 kb on - strand, within HMPREF1058_RS01800at 38.979 kb on - strand, within HMPREF1058_RS01800at 39.045 kb on + strand, within HMPREF1058_RS01800at 39.082 kb on - strandat 39.107 kb on + strandat 39.125 kb on - strandat 39.138 kb on + strandat 39.157 kb on - strandat 39.180 kb on + strandat 39.183 kb on + strandat 39.183 kb on + strandat 39.184 kb on - strandat 39.184 kb on - strandat 39.360 kb on + strand, within HMPREF1058_RS01795at 39.402 kb on + strand, within HMPREF1058_RS01795at 39.437 kb on - strand, within HMPREF1058_RS01795at 39.455 kb on + strand, within HMPREF1058_RS01795at 39.489 kb on + strand, within HMPREF1058_RS01795at 39.516 kb on + strand, within HMPREF1058_RS01795at 39.595 kb on + strand, within HMPREF1058_RS01795at 39.667 kb on - strand, within HMPREF1058_RS01795at 39.700 kb on - strand, within HMPREF1058_RS01795at 39.730 kb on - strand, within HMPREF1058_RS01795at 39.826 kb on + strand, within HMPREF1058_RS01795at 39.826 kb on + strand, within HMPREF1058_RS01795at 39.828 kb on + strand, within HMPREF1058_RS01795at 39.829 kb on - strand, within HMPREF1058_RS01795at 39.889 kb on + strand, within HMPREF1058_RS01795at 39.976 kb on + strand, within HMPREF1058_RS01795at 39.977 kb on - strand, within HMPREF1058_RS01795at 40.017 kb on + strand, within HMPREF1058_RS01795at 40.120 kb on + strand, within HMPREF1058_RS01795at 40.122 kb on + strand, within HMPREF1058_RS01795at 40.123 kb on - strand, within HMPREF1058_RS01795at 40.123 kb on - strand, within HMPREF1058_RS01795at 40.127 kb on + strand, within HMPREF1058_RS01795at 40.128 kb on - strand, within HMPREF1058_RS01795at 40.128 kb on - strandat 40.193 kb on + strand, within HMPREF1058_RS01795at 40.220 kb on + strand, within HMPREF1058_RS01795at 40.221 kb on - strand, within HMPREF1058_RS01795at 40.404 kb on + strand, within HMPREF1058_RS01795at 40.419 kb on - strand, within HMPREF1058_RS01795at 40.489 kb on - strand, within HMPREF1058_RS01795at 40.510 kb on - strand, within HMPREF1058_RS01795at 40.512 kb on + strand, within HMPREF1058_RS01795at 40.529 kb on + strand, within HMPREF1058_RS01795at 40.547 kb on + strand, within HMPREF1058_RS01795at 40.552 kb on + strand, within HMPREF1058_RS01795at 40.552 kb on + strand, within HMPREF1058_RS01795at 40.557 kb on - strand, within HMPREF1058_RS01795at 40.731 kb on + strand, within HMPREF1058_RS01795at 40.740 kb on + strand, within HMPREF1058_RS01795at 40.766 kb on + strand, within HMPREF1058_RS01795at 40.823 kb on + strand, within HMPREF1058_RS01795at 40.824 kb on - strand, within HMPREF1058_RS01795at 40.827 kb on + strand, within HMPREF1058_RS01795at 40.827 kb on + strand, within HMPREF1058_RS01795at 40.874 kb on + strand, within HMPREF1058_RS01795at 40.874 kb on + strand, within HMPREF1058_RS01795at 41.026 kb on + strandat 41.049 kb on + strandat 41.122 kb on - strandat 41.123 kb on + strandat 41.131 kb on + strandat 41.132 kb on - strandat 41.167 kb on + strandat 41.174 kb on + strandat 41.186 kb on + strandat 41.291 kb on + strandat 41.292 kb on - strandat 41.450 kb on + strand, within HMPREF1058_RS01790at 41.489 kb on + strand, within HMPREF1058_RS01790at 41.495 kb on - strand, within HMPREF1058_RS01790at 41.496 kb on + strand, within HMPREF1058_RS01790at 41.604 kb on + strand, within HMPREF1058_RS01790at 41.639 kb on - strand, within HMPREF1058_RS01790at 41.683 kb on - strand, within HMPREF1058_RS01790at 41.721 kb on + strand, within HMPREF1058_RS01790at 41.721 kb on + strand, within HMPREF1058_RS01790at 41.722 kb on - strand, within HMPREF1058_RS01790at 41.723 kb on + strand, within HMPREF1058_RS01790at 41.745 kb on - strand, within HMPREF1058_RS01790at 41.756 kb on + strand, within HMPREF1058_RS01790at 41.757 kb on - strand, within HMPREF1058_RS01790at 41.786 kb on + strand, within HMPREF1058_RS01790at 41.809 kb on + strand, within HMPREF1058_RS01790at 41.810 kb on - strand, within HMPREF1058_RS01790at 41.888 kb on - strand, within HMPREF1058_RS01790at 41.894 kb on + strand, within HMPREF1058_RS01790at 41.895 kb on - strand, within HMPREF1058_RS01790at 41.895 kb on - strand, within HMPREF1058_RS01790at 41.898 kb on + strand, within HMPREF1058_RS01790at 41.898 kb on + strand, within HMPREF1058_RS01790at 41.898 kb on + strand, within HMPREF1058_RS01790at 42.060 kb on - strand, within HMPREF1058_RS01790at 42.076 kb on - strand, within HMPREF1058_RS01790at 42.101 kb on + strand, within HMPREF1058_RS01790at 42.101 kb on + strand, within HMPREF1058_RS01790

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Per-strain Table

Position Strand Gene LocusTag Fraction D-Glucose-6-Phosphate 10 mM (C) mhCom Varel_Bryant_medium_lowCys Passage4
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38,213 + +1.3
38,249 + -1.4
38,259 - -0.2
38,262 + +1.2
38,262 + +1.1
38,338 + HMPREF1058_RS01805 0.25 -0.3
38,338 + HMPREF1058_RS01805 0.25 -0.8
38,339 - HMPREF1058_RS01805 0.25 -1.4
38,398 - HMPREF1058_RS01805 0.44 +0.2
38,451 + HMPREF1058_RS01805 0.61 -1.3
38,452 - HMPREF1058_RS01805 0.62 +0.5
38,516 + HMPREF1058_RS01805 0.83 -0.2
38,645 - HMPREF1058_RS01800 0.14 -1.3
38,693 + HMPREF1058_RS01800 0.22 -0.8
38,713 + HMPREF1058_RS01800 0.26 -0.3
38,747 + HMPREF1058_RS01800 0.32 -0.6
38,761 - HMPREF1058_RS01800 0.34 +0.5
38,761 - HMPREF1058_RS01800 0.34 +0.2
38,761 - HMPREF1058_RS01800 0.34 +0.5
38,880 - HMPREF1058_RS01800 0.55 -1.7
38,890 - HMPREF1058_RS01800 0.57 -1.6
38,975 - HMPREF1058_RS01800 0.72 -0.3
38,979 - HMPREF1058_RS01800 0.73 -0.9
39,045 + HMPREF1058_RS01800 0.84 -1.0
39,082 - -2.2
39,107 + +0.8
39,125 - +0.5
39,138 + +0.7
39,157 - -0.3
39,180 + -2.2
39,183 + +1.6
39,183 + -0.1
39,184 - +1.2
39,184 - -0.8
39,360 + HMPREF1058_RS01795 0.11 +1.2
39,402 + HMPREF1058_RS01795 0.13 +0.7
39,437 - HMPREF1058_RS01795 0.15 +2.9
39,455 + HMPREF1058_RS01795 0.16 +2.2
39,489 + HMPREF1058_RS01795 0.18 -1.0
39,516 + HMPREF1058_RS01795 0.19 +0.5
39,595 + HMPREF1058_RS01795 0.23 +1.5
39,667 - HMPREF1058_RS01795 0.26 -0.5
39,700 - HMPREF1058_RS01795 0.28 +2.1
39,730 - HMPREF1058_RS01795 0.30 -0.6
39,826 + HMPREF1058_RS01795 0.34 +1.0
39,826 + HMPREF1058_RS01795 0.34 -2.0
39,828 + HMPREF1058_RS01795 0.35 -0.0
39,829 - HMPREF1058_RS01795 0.35 +0.2
39,889 + HMPREF1058_RS01795 0.38 +3.7
39,976 + HMPREF1058_RS01795 0.42 +1.4
39,977 - HMPREF1058_RS01795 0.42 +0.6
40,017 + HMPREF1058_RS01795 0.44 +0.8
40,120 + HMPREF1058_RS01795 0.49 +1.9
40,122 + HMPREF1058_RS01795 0.49 -0.6
40,123 - HMPREF1058_RS01795 0.49 -0.9
40,123 - HMPREF1058_RS01795 0.49 +2.2
40,127 + HMPREF1058_RS01795 0.50 -1.2
40,128 - HMPREF1058_RS01795 0.50 +0.0
40,128 - +3.5
40,193 + HMPREF1058_RS01795 0.53 +1.1
40,220 + HMPREF1058_RS01795 0.54 -0.1
40,221 - HMPREF1058_RS01795 0.54 +0.6
40,404 + HMPREF1058_RS01795 0.63 -1.3
40,419 - HMPREF1058_RS01795 0.64 +0.7
40,489 - HMPREF1058_RS01795 0.68 +0.2
40,510 - HMPREF1058_RS01795 0.69 +0.2
40,512 + HMPREF1058_RS01795 0.69 -2.0
40,529 + HMPREF1058_RS01795 0.70 +1.8
40,547 + HMPREF1058_RS01795 0.71 -0.3
40,552 + HMPREF1058_RS01795 0.71 -0.1
40,552 + HMPREF1058_RS01795 0.71 -0.2
40,557 - HMPREF1058_RS01795 0.71 -1.3
40,731 + HMPREF1058_RS01795 0.80 -1.2
40,740 + HMPREF1058_RS01795 0.80 -0.5
40,766 + HMPREF1058_RS01795 0.82 +0.7
40,823 + HMPREF1058_RS01795 0.84 -1.3
40,824 - HMPREF1058_RS01795 0.84 -1.0
40,827 + HMPREF1058_RS01795 0.85 -0.2
40,827 + HMPREF1058_RS01795 0.85 -0.7
40,874 + HMPREF1058_RS01795 0.87 +0.9
40,874 + HMPREF1058_RS01795 0.87 +1.1
41,026 + +0.3
41,049 + +0.7
41,122 - -0.2
41,123 + +1.8
41,131 + +3.5
41,132 - +0.5
41,167 + -0.8
41,174 + -1.1
41,186 + +0.7
41,291 + -0.9
41,292 - -2.2
41,450 + HMPREF1058_RS01790 0.22 -1.3
41,489 + HMPREF1058_RS01790 0.25 -0.6
41,495 - HMPREF1058_RS01790 0.26 -0.2
41,496 + HMPREF1058_RS01790 0.26 -1.0
41,604 + HMPREF1058_RS01790 0.35 -1.2
41,639 - HMPREF1058_RS01790 0.38 +0.3
41,683 - HMPREF1058_RS01790 0.42 +1.6
41,721 + HMPREF1058_RS01790 0.45 +0.9
41,721 + HMPREF1058_RS01790 0.45 -1.6
41,722 - HMPREF1058_RS01790 0.45 -1.1
41,723 + HMPREF1058_RS01790 0.45 +1.0
41,745 - HMPREF1058_RS01790 0.47 -0.7
41,756 + HMPREF1058_RS01790 0.48 -3.9
41,757 - HMPREF1058_RS01790 0.48 -0.7
41,786 + HMPREF1058_RS01790 0.50 -0.9
41,809 + HMPREF1058_RS01790 0.52 -1.2
41,810 - HMPREF1058_RS01790 0.53 +0.4
41,888 - HMPREF1058_RS01790 0.59 +0.8
41,894 + HMPREF1058_RS01790 0.60 +1.9
41,895 - HMPREF1058_RS01790 0.60 +3.2
41,895 - HMPREF1058_RS01790 0.60 -1.4
41,898 + HMPREF1058_RS01790 0.60 -2.7
41,898 + HMPREF1058_RS01790 0.60 +1.5
41,898 + HMPREF1058_RS01790 0.60 -2.3
42,060 - HMPREF1058_RS01790 0.74 -0.3
42,076 - HMPREF1058_RS01790 0.75 +0.8
42,101 + HMPREF1058_RS01790 0.77 +1.0
42,101 + HMPREF1058_RS01790 0.77 -0.2

Or see this region's nucleotide sequence