Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS12120

Experiment: Polygalacturonic 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_RS12130 and HMPREF1058_RS12125 are separated by 197 nucleotidesHMPREF1058_RS12125 and HMPREF1058_RS12120 overlap by 11 nucleotidesHMPREF1058_RS12120 and HMPREF1058_RS12115 are separated by 63 nucleotidesHMPREF1058_RS12115 and HMPREF1058_RS12110 are separated by 4 nucleotides HMPREF1058_RS12130: HMPREF1058_RS12130 - DUF2807 domain-containing protein, at 195,109 to 195,840 _RS12130 HMPREF1058_RS12125: HMPREF1058_RS12125 - hypothetical protein, at 196,038 to 196,517 _RS12125 HMPREF1058_RS12120: HMPREF1058_RS12120 - RNA polymerase sigma factor, at 196,507 to 197,016 _RS12120 HMPREF1058_RS12115: HMPREF1058_RS12115 - acetylglutamate kinase, at 197,080 to 197,853 _RS12115 HMPREF1058_RS12110: HMPREF1058_RS12110 - biosynthetic arginine decarboxylase, at 197,858 to 199,750 _RS12110 Position (kb) 196 197 198Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1 2at 195.590 kb on + strand, within HMPREF1058_RS12130at 195.598 kb on - strand, within HMPREF1058_RS12130at 195.606 kb on - strand, within HMPREF1058_RS12130at 195.631 kb on + strand, within HMPREF1058_RS12130at 195.744 kb on + strand, within HMPREF1058_RS12130at 195.839 kb on - strandat 195.862 kb on + strandat 195.868 kb on - strandat 195.992 kb on - strandat 195.995 kb on - strandat 196.001 kb on + strandat 196.002 kb on - strandat 196.010 kb on + strandat 196.011 kb on - strandat 196.014 kb on + strandat 196.014 kb on + strandat 196.015 kb on - strandat 196.015 kb on - strandat 196.015 kb on - strandat 196.095 kb on - strand, within HMPREF1058_RS12125at 196.140 kb on - strand, within HMPREF1058_RS12125at 196.161 kb on + strand, within HMPREF1058_RS12125at 196.212 kb on - strand, within HMPREF1058_RS12125at 196.440 kb on + strand, within HMPREF1058_RS12125at 196.440 kb on + strand, within HMPREF1058_RS12125at 196.441 kb on - strand, within HMPREF1058_RS12125at 196.443 kb on + strand, within HMPREF1058_RS12125at 196.444 kb on - strand, within HMPREF1058_RS12125at 196.505 kb on - strandat 196.505 kb on - strandat 196.508 kb on + strandat 196.509 kb on - strandat 196.509 kb on - strandat 196.509 kb on - strandat 196.535 kb on + strandat 196.535 kb on + strandat 196.536 kb on - strandat 196.574 kb on - strand, within HMPREF1058_RS12120at 196.606 kb on - strand, within HMPREF1058_RS12120at 196.606 kb on - strand, within HMPREF1058_RS12120at 196.653 kb on + strand, within HMPREF1058_RS12120at 196.659 kb on + strand, within HMPREF1058_RS12120at 196.659 kb on + strand, within HMPREF1058_RS12120at 196.659 kb on + strand, within HMPREF1058_RS12120at 196.660 kb on - strand, within HMPREF1058_RS12120at 196.705 kb on + strand, within HMPREF1058_RS12120at 196.747 kb on - strand, within HMPREF1058_RS12120at 196.747 kb on - strand, within HMPREF1058_RS12120at 196.845 kb on - strand, within HMPREF1058_RS12120at 196.947 kb on + strand, within HMPREF1058_RS12120at 196.964 kb on + strand, within HMPREF1058_RS12120at 196.965 kb on - strand, within HMPREF1058_RS12120at 197.024 kb on + strandat 197.135 kb on - strandat 197.135 kb on - strandat 197.245 kb on - strand, within HMPREF1058_RS12115at 197.287 kb on + strand, within HMPREF1058_RS12115at 197.288 kb on - strand, within HMPREF1058_RS12115at 197.310 kb on - strand, within HMPREF1058_RS12115at 197.368 kb on - strand, within HMPREF1058_RS12115at 197.471 kb on - strand, within HMPREF1058_RS12115at 197.625 kb on - strand, within HMPREF1058_RS12115at 197.626 kb on + strand, within HMPREF1058_RS12115at 197.626 kb on + strand, within HMPREF1058_RS12115at 197.626 kb on + strand, within HMPREF1058_RS12115at 197.627 kb on - strand, within HMPREF1058_RS12115at 197.627 kb on - strandat 197.699 kb on - strand, within HMPREF1058_RS12115at 197.751 kb on + strand, within HMPREF1058_RS12115at 197.751 kb on + strand, within HMPREF1058_RS12115at 197.761 kb on + strand, within HMPREF1058_RS12115at 197.761 kb on + strand, within HMPREF1058_RS12115at 197.761 kb on + strand, within HMPREF1058_RS12115at 197.790 kb on + strandat 197.830 kb on + strandat 197.831 kb on - strandat 197.835 kb on + strandat 197.857 kb on - strandat 197.868 kb on + strandat 197.872 kb on + strandat 197.872 kb on + strandat 197.873 kb on - strandat 197.880 kb on + strandat 197.881 kb on - strandat 197.896 kb on - strandat 197.899 kb on + strandat 197.899 kb on + strandat 197.975 kb on - strandat 197.997 kb on + strandat 197.997 kb on + strandat 197.998 kb on - strandat 198.006 kb on + strandat 198.007 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Polygalacturonic 5 mg/ml (C)
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195,590 + HMPREF1058_RS12130 0.66 -0.5
195,598 - HMPREF1058_RS12130 0.67 -0.5
195,606 - HMPREF1058_RS12130 0.68 -0.2
195,631 + HMPREF1058_RS12130 0.71 +0.3
195,744 + HMPREF1058_RS12130 0.87 +2.2
195,839 - -1.1
195,862 + +0.5
195,868 - +0.5
195,992 - -2.6
195,995 - -1.8
196,001 + -1.5
196,002 - -0.8
196,010 + -2.1
196,011 - -1.1
196,014 + -0.5
196,014 + -1.8
196,015 - -1.3
196,015 - +1.6
196,015 - +0.2
196,095 - HMPREF1058_RS12125 0.12 -0.9
196,140 - HMPREF1058_RS12125 0.21 -1.5
196,161 + HMPREF1058_RS12125 0.26 -1.0
196,212 - HMPREF1058_RS12125 0.36 -0.1
196,440 + HMPREF1058_RS12125 0.84 -2.2
196,440 + HMPREF1058_RS12125 0.84 -1.9
196,441 - HMPREF1058_RS12125 0.84 -0.7
196,443 + HMPREF1058_RS12125 0.84 -1.2
196,444 - HMPREF1058_RS12125 0.85 -1.8
196,505 - -1.6
196,505 - -2.5
196,508 + -1.9
196,509 - -1.9
196,509 - -1.0
196,509 - -1.6
196,535 + -1.5
196,535 + -1.5
196,536 - -0.9
196,574 - HMPREF1058_RS12120 0.13 -1.1
196,606 - HMPREF1058_RS12120 0.19 -1.3
196,606 - HMPREF1058_RS12120 0.19 -0.2
196,653 + HMPREF1058_RS12120 0.29 -2.3
196,659 + HMPREF1058_RS12120 0.30 -1.3
196,659 + HMPREF1058_RS12120 0.30 -2.6
196,659 + HMPREF1058_RS12120 0.30 -2.0
196,660 - HMPREF1058_RS12120 0.30 -0.9
196,705 + HMPREF1058_RS12120 0.39 -1.7
196,747 - HMPREF1058_RS12120 0.47 -1.0
196,747 - HMPREF1058_RS12120 0.47 -1.6
196,845 - HMPREF1058_RS12120 0.66 +1.6
196,947 + HMPREF1058_RS12120 0.86 -2.1
196,964 + HMPREF1058_RS12120 0.90 -1.9
196,965 - HMPREF1058_RS12120 0.90 -1.4
197,024 + -0.8
197,135 - -3.3
197,135 - -2.8
197,245 - HMPREF1058_RS12115 0.21 -2.0
197,287 + HMPREF1058_RS12115 0.27 +0.6
197,288 - HMPREF1058_RS12115 0.27 -0.2
197,310 - HMPREF1058_RS12115 0.30 -2.3
197,368 - HMPREF1058_RS12115 0.37 -3.0
197,471 - HMPREF1058_RS12115 0.51 -5.3
197,625 - HMPREF1058_RS12115 0.70 -2.9
197,626 + HMPREF1058_RS12115 0.71 -0.4
197,626 + HMPREF1058_RS12115 0.71 -3.2
197,626 + HMPREF1058_RS12115 0.71 -4.6
197,627 - HMPREF1058_RS12115 0.71 -3.5
197,627 - +0.6
197,699 - HMPREF1058_RS12115 0.80 -4.8
197,751 + HMPREF1058_RS12115 0.87 -2.1
197,751 + HMPREF1058_RS12115 0.87 -4.3
197,761 + HMPREF1058_RS12115 0.88 -4.0
197,761 + HMPREF1058_RS12115 0.88 -3.1
197,761 + HMPREF1058_RS12115 0.88 -3.8
197,790 + +0.2
197,830 + -4.3
197,831 - -3.4
197,835 + -5.0
197,857 - +0.7
197,868 + -3.3
197,872 + -4.5
197,872 + -3.8
197,873 - -0.6
197,880 + -3.9
197,881 - +0.3
197,896 - +0.1
197,899 + -3.9
197,899 + -4.3
197,975 - -1.5
197,997 + -4.6
197,997 + -3.5
197,998 - -2.5
198,006 + -2.9
198,007 - -1.3

Or see this region's nucleotide sequence