Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS02410

Experiment: Rhamnogalacturonan from soy bean pectic fibre 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_RS02415 and HMPREF1058_RS02410 are separated by 322 nucleotidesHMPREF1058_RS02410 and HMPREF1058_RS02405 are separated by 9 nucleotides HMPREF1058_RS02415: HMPREF1058_RS02415 - RagB/SusD family nutrient uptake outer membrane protein, at 192,799 to 194,289 _RS02415 HMPREF1058_RS02410: HMPREF1058_RS02410 - methylmalonyl-CoA mutase, at 194,612 to 196,762 _RS02410 HMPREF1058_RS02405: HMPREF1058_RS02405 - methylmalonyl-CoA mutase small subunit, at 196,772 to 198,682 _RS02405 Position (kb) 194 195 196 197Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 193.657 kb on + strand, within HMPREF1058_RS02415at 193.657 kb on + strand, within HMPREF1058_RS02415at 193.657 kb on + strand, within HMPREF1058_RS02415at 193.657 kb on + strand, within HMPREF1058_RS02415at 193.658 kb on - strand, within HMPREF1058_RS02415at 193.658 kb on - strand, within HMPREF1058_RS02415at 193.658 kb on - strand, within HMPREF1058_RS02415at 193.702 kb on + strand, within HMPREF1058_RS02415at 193.712 kb on - strand, within HMPREF1058_RS02415at 193.712 kb on - strand, within HMPREF1058_RS02415at 193.712 kb on - strand, within HMPREF1058_RS02415at 193.713 kb on + strand, within HMPREF1058_RS02415at 193.713 kb on + strand, within HMPREF1058_RS02415at 193.713 kb on + strand, within HMPREF1058_RS02415at 193.713 kb on + strand, within HMPREF1058_RS02415at 193.713 kb on + strand, within HMPREF1058_RS02415at 193.713 kb on + strandat 193.713 kb on + strand, within HMPREF1058_RS02415at 193.714 kb on - strand, within HMPREF1058_RS02415at 193.714 kb on - strand, within HMPREF1058_RS02415at 193.714 kb on - strand, within HMPREF1058_RS02415at 193.714 kb on - strand, within HMPREF1058_RS02415at 193.764 kb on - strand, within HMPREF1058_RS02415at 193.764 kb on - strand, within HMPREF1058_RS02415at 193.803 kb on - strand, within HMPREF1058_RS02415at 193.870 kb on + strand, within HMPREF1058_RS02415at 193.881 kb on + strand, within HMPREF1058_RS02415at 193.930 kb on - strand, within HMPREF1058_RS02415at 194.010 kb on + strand, within HMPREF1058_RS02415at 194.013 kb on + strand, within HMPREF1058_RS02415at 194.013 kb on + strand, within HMPREF1058_RS02415at 194.014 kb on - strand, within HMPREF1058_RS02415at 194.085 kb on + strand, within HMPREF1058_RS02415at 194.131 kb on + strand, within HMPREF1058_RS02415at 194.151 kb on + strandat 194.151 kb on + strandat 194.151 kb on + strandat 194.151 kb on + strandat 194.157 kb on + strandat 194.184 kb on - strandat 194.240 kb on + strandat 194.240 kb on + strandat 194.290 kb on + strandat 194.290 kb on + strandat 194.424 kb on + strandat 194.427 kb on + strandat 194.428 kb on - strandat 194.437 kb on + strandat 194.438 kb on - strandat 194.471 kb on - strandat 194.543 kb on - strandat 194.573 kb on - strandat 194.595 kb on + strandat 194.596 kb on - strandat 194.690 kb on + strandat 194.706 kb on + strandat 194.792 kb on - strandat 194.841 kb on - strand, within HMPREF1058_RS02410at 194.844 kb on - strand, within HMPREF1058_RS02410at 194.998 kb on + strand, within HMPREF1058_RS02410at 195.087 kb on + strand, within HMPREF1058_RS02410at 195.100 kb on + strand, within HMPREF1058_RS02410at 195.100 kb on + strand, within HMPREF1058_RS02410at 195.118 kb on + strand, within HMPREF1058_RS02410at 195.118 kb on + strand, within HMPREF1058_RS02410at 195.119 kb on - strand, within HMPREF1058_RS02410at 195.119 kb on - strand, within HMPREF1058_RS02410at 195.120 kb on + strand, within HMPREF1058_RS02410at 195.128 kb on + strand, within HMPREF1058_RS02410at 195.166 kb on + strand, within HMPREF1058_RS02410at 195.189 kb on - strand, within HMPREF1058_RS02410at 195.224 kb on + strand, within HMPREF1058_RS02410at 195.317 kb on + strand, within HMPREF1058_RS02410at 195.326 kb on - strand, within HMPREF1058_RS02410at 195.372 kb on + strand, within HMPREF1058_RS02410at 195.386 kb on + strand, within HMPREF1058_RS02410at 195.424 kb on + strand, within HMPREF1058_RS02410at 195.511 kb on + strand, within HMPREF1058_RS02410at 195.511 kb on + strand, within HMPREF1058_RS02410at 195.511 kb on + strand, within HMPREF1058_RS02410at 195.559 kb on - strand, within HMPREF1058_RS02410at 195.559 kb on - strand, within HMPREF1058_RS02410at 195.559 kb on - strand, within HMPREF1058_RS02410at 195.561 kb on + strand, within HMPREF1058_RS02410at 195.562 kb on - strand, within HMPREF1058_RS02410at 195.598 kb on - strand, within HMPREF1058_RS02410at 195.613 kb on + strand, within HMPREF1058_RS02410at 195.628 kb on + strand, within HMPREF1058_RS02410at 195.637 kb on + strand, within HMPREF1058_RS02410at 195.724 kb on + strand, within HMPREF1058_RS02410at 195.734 kb on - strand, within HMPREF1058_RS02410at 195.746 kb on + strand, within HMPREF1058_RS02410at 195.746 kb on + strand, within HMPREF1058_RS02410at 195.865 kb on + strand, within HMPREF1058_RS02410at 195.866 kb on - strand, within HMPREF1058_RS02410at 195.866 kb on - strand, within HMPREF1058_RS02410at 195.957 kb on - strand, within HMPREF1058_RS02410at 195.957 kb on - strand, within HMPREF1058_RS02410at 195.985 kb on - strand, within HMPREF1058_RS02410at 196.006 kb on + strand, within HMPREF1058_RS02410at 196.007 kb on - strand, within HMPREF1058_RS02410at 196.007 kb on - strand, within HMPREF1058_RS02410at 196.007 kb on - strand, within HMPREF1058_RS02410at 196.009 kb on - strand, within HMPREF1058_RS02410at 196.099 kb on + strand, within HMPREF1058_RS02410at 196.099 kb on + strand, within HMPREF1058_RS02410at 196.101 kb on + strand, within HMPREF1058_RS02410at 196.110 kb on - strand, within HMPREF1058_RS02410at 196.146 kb on + strand, within HMPREF1058_RS02410at 196.150 kb on + strand, within HMPREF1058_RS02410at 196.153 kb on - strand, within HMPREF1058_RS02410at 196.184 kb on - strand, within HMPREF1058_RS02410at 196.247 kb on - strand, within HMPREF1058_RS02410at 196.248 kb on + strand, within HMPREF1058_RS02410at 196.248 kb on + strand, within HMPREF1058_RS02410at 196.249 kb on - strand, within HMPREF1058_RS02410at 196.269 kb on - strand, within HMPREF1058_RS02410at 196.373 kb on + strand, within HMPREF1058_RS02410at 196.373 kb on + strand, within HMPREF1058_RS02410at 196.374 kb on - strand, within HMPREF1058_RS02410at 196.374 kb on - strand, within HMPREF1058_RS02410at 196.374 kb on - strand, within HMPREF1058_RS02410at 196.374 kb on - strand, within HMPREF1058_RS02410at 196.383 kb on - strand, within HMPREF1058_RS02410at 196.486 kb on + strand, within HMPREF1058_RS02410at 196.545 kb on + strand, within HMPREF1058_RS02410at 196.546 kb on - strand, within HMPREF1058_RS02410at 196.573 kb on - strandat 196.582 kb on + strandat 196.583 kb on - strandat 196.589 kb on + strandat 196.632 kb on + strandat 196.632 kb on + strandat 196.706 kb on - strandat 196.731 kb on + strandat 196.731 kb on + strandat 196.732 kb on - strandat 196.732 kb on - strandat 196.732 kb on - strandat 196.733 kb on + strandat 196.733 kb on + strandat 196.733 kb on + strandat 196.733 kb on + strandat 196.733 kb on + strandat 196.733 kb on + strandat 196.733 kb on + strandat 196.733 kb on + strandat 196.733 kb on + strandat 196.733 kb on + strandat 196.734 kb on - strandat 196.734 kb on - strandat 196.734 kb on - strandat 196.734 kb on - strandat 196.734 kb on - strandat 196.734 kb on - strandat 196.734 kb on - strandat 196.735 kb on + strandat 196.735 kb on + strandat 196.778 kb on - strandat 196.778 kb on - strandat 196.784 kb on + strandat 196.789 kb on + strandat 196.790 kb on - strandat 196.790 kb on - strandat 196.797 kb on + strandat 196.874 kb on - strandat 196.941 kb on + strandat 196.942 kb on - strandat 196.972 kb on + strand, within HMPREF1058_RS02405at 196.977 kb on - strand, within HMPREF1058_RS02405at 197.000 kb on - strand, within HMPREF1058_RS02405at 197.022 kb on - strand, within HMPREF1058_RS02405at 197.022 kb on - strand, within HMPREF1058_RS02405at 197.271 kb on - strand, within HMPREF1058_RS02405at 197.305 kb on + strand, within HMPREF1058_RS02405at 197.306 kb on - strand, within HMPREF1058_RS02405at 197.311 kb on - strand, within HMPREF1058_RS02405at 197.438 kb on + strand, within HMPREF1058_RS02405at 197.500 kb on - strand, within HMPREF1058_RS02405at 197.522 kb on + strand, within HMPREF1058_RS02405at 197.523 kb on - strand, within HMPREF1058_RS02405at 197.556 kb on - strand, within HMPREF1058_RS02405at 197.556 kb on - strand, within HMPREF1058_RS02405at 197.604 kb on + strand, within HMPREF1058_RS02405at 197.605 kb on - strand, within HMPREF1058_RS02405at 197.605 kb on - strand, within HMPREF1058_RS02405at 197.625 kb on - strand, within HMPREF1058_RS02405at 197.690 kb on + strand, within HMPREF1058_RS02405

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Per-strain Table

Position Strand Gene LocusTag Fraction Rhamnogalacturonan from soy bean pectic fibre 2.5 mg/ml (C)
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193,657 + HMPREF1058_RS02415 0.58 -1.1
193,657 + HMPREF1058_RS02415 0.58 +0.8
193,657 + HMPREF1058_RS02415 0.58 -0.4
193,657 + HMPREF1058_RS02415 0.58 +0.2
193,658 - HMPREF1058_RS02415 0.58 -1.0
193,658 - HMPREF1058_RS02415 0.58 -2.2
193,658 - HMPREF1058_RS02415 0.58 -0.4
193,702 + HMPREF1058_RS02415 0.61 -0.9
193,712 - HMPREF1058_RS02415 0.61 -0.4
193,712 - HMPREF1058_RS02415 0.61 -0.5
193,712 - HMPREF1058_RS02415 0.61 +0.5
193,713 + HMPREF1058_RS02415 0.61 -1.9
193,713 + HMPREF1058_RS02415 0.61 -0.3
193,713 + HMPREF1058_RS02415 0.61 -0.2
193,713 + HMPREF1058_RS02415 0.61 -0.1
193,713 + HMPREF1058_RS02415 0.61 +0.3
193,713 + +0.6
193,713 + HMPREF1058_RS02415 0.61 +0.0
193,714 - HMPREF1058_RS02415 0.61 +0.1
193,714 - HMPREF1058_RS02415 0.61 -0.8
193,714 - HMPREF1058_RS02415 0.61 +0.7
193,714 - HMPREF1058_RS02415 0.61 -0.3
193,764 - HMPREF1058_RS02415 0.65 +2.0
193,764 - HMPREF1058_RS02415 0.65 -0.4
193,803 - HMPREF1058_RS02415 0.67 -1.1
193,870 + HMPREF1058_RS02415 0.72 +0.5
193,881 + HMPREF1058_RS02415 0.73 -1.1
193,930 - HMPREF1058_RS02415 0.76 +1.0
194,010 + HMPREF1058_RS02415 0.81 -0.7
194,013 + HMPREF1058_RS02415 0.81 +1.0
194,013 + HMPREF1058_RS02415 0.81 +2.6
194,014 - HMPREF1058_RS02415 0.81 +0.6
194,085 + HMPREF1058_RS02415 0.86 -0.8
194,131 + HMPREF1058_RS02415 0.89 -1.3
194,151 + +0.8
194,151 + -2.5
194,151 + +2.1
194,151 + -0.7
194,157 + -1.5
194,184 - +0.5
194,240 + +0.3
194,240 + -1.4
194,290 + +0.2
194,290 + -0.8
194,424 + +0.4
194,427 + -2.3
194,428 - +0.7
194,437 + +0.1
194,438 - +1.1
194,471 - +1.9
194,543 - -0.7
194,573 - +1.9
194,595 + -0.8
194,596 - +2.0
194,690 + -3.0
194,706 + +0.4
194,792 - -1.8
194,841 - HMPREF1058_RS02410 0.11 -2.2
194,844 - HMPREF1058_RS02410 0.11 -0.0
194,998 + HMPREF1058_RS02410 0.18 +0.2
195,087 + HMPREF1058_RS02410 0.22 -0.2
195,100 + HMPREF1058_RS02410 0.23 -1.4
195,100 + HMPREF1058_RS02410 0.23 -1.4
195,118 + HMPREF1058_RS02410 0.24 -2.2
195,118 + HMPREF1058_RS02410 0.24 -0.4
195,119 - HMPREF1058_RS02410 0.24 -1.2
195,119 - HMPREF1058_RS02410 0.24 +0.3
195,120 + HMPREF1058_RS02410 0.24 -2.0
195,128 + HMPREF1058_RS02410 0.24 -0.2
195,166 + HMPREF1058_RS02410 0.26 +0.9
195,189 - HMPREF1058_RS02410 0.27 -0.9
195,224 + HMPREF1058_RS02410 0.28 -1.6
195,317 + HMPREF1058_RS02410 0.33 -0.5
195,326 - HMPREF1058_RS02410 0.33 -1.8
195,372 + HMPREF1058_RS02410 0.35 -1.0
195,386 + HMPREF1058_RS02410 0.36 +1.3
195,424 + HMPREF1058_RS02410 0.38 +1.8
195,511 + HMPREF1058_RS02410 0.42 -3.2
195,511 + HMPREF1058_RS02410 0.42 -0.5
195,511 + HMPREF1058_RS02410 0.42 -2.5
195,559 - HMPREF1058_RS02410 0.44 -0.7
195,559 - HMPREF1058_RS02410 0.44 -1.2
195,559 - HMPREF1058_RS02410 0.44 -1.1
195,561 + HMPREF1058_RS02410 0.44 -2.0
195,562 - HMPREF1058_RS02410 0.44 -1.9
195,598 - HMPREF1058_RS02410 0.46 -1.7
195,613 + HMPREF1058_RS02410 0.47 -1.9
195,628 + HMPREF1058_RS02410 0.47 -1.0
195,637 + HMPREF1058_RS02410 0.48 +0.8
195,724 + HMPREF1058_RS02410 0.52 -2.3
195,734 - HMPREF1058_RS02410 0.52 -2.6
195,746 + HMPREF1058_RS02410 0.53 +1.0
195,746 + HMPREF1058_RS02410 0.53 +0.4
195,865 + HMPREF1058_RS02410 0.58 -0.4
195,866 - HMPREF1058_RS02410 0.58 -2.8
195,866 - HMPREF1058_RS02410 0.58 -1.0
195,957 - HMPREF1058_RS02410 0.63 -1.7
195,957 - HMPREF1058_RS02410 0.63 -2.1
195,985 - HMPREF1058_RS02410 0.64 -0.9
196,006 + HMPREF1058_RS02410 0.65 -0.9
196,007 - HMPREF1058_RS02410 0.65 +1.1
196,007 - HMPREF1058_RS02410 0.65 -1.4
196,007 - HMPREF1058_RS02410 0.65 -0.8
196,009 - HMPREF1058_RS02410 0.65 +0.4
196,099 + HMPREF1058_RS02410 0.69 -0.8
196,099 + HMPREF1058_RS02410 0.69 -0.3
196,101 + HMPREF1058_RS02410 0.69 -2.3
196,110 - HMPREF1058_RS02410 0.70 -2.7
196,146 + HMPREF1058_RS02410 0.71 -0.6
196,150 + HMPREF1058_RS02410 0.72 -3.3
196,153 - HMPREF1058_RS02410 0.72 -2.0
196,184 - HMPREF1058_RS02410 0.73 -2.3
196,247 - HMPREF1058_RS02410 0.76 -0.9
196,248 + HMPREF1058_RS02410 0.76 -2.2
196,248 + HMPREF1058_RS02410 0.76 -0.4
196,249 - HMPREF1058_RS02410 0.76 -1.5
196,269 - HMPREF1058_RS02410 0.77 -2.2
196,373 + HMPREF1058_RS02410 0.82 -0.1
196,373 + HMPREF1058_RS02410 0.82 -1.3
196,374 - HMPREF1058_RS02410 0.82 -1.0
196,374 - HMPREF1058_RS02410 0.82 -0.4
196,374 - HMPREF1058_RS02410 0.82 -2.7
196,374 - HMPREF1058_RS02410 0.82 -1.7
196,383 - HMPREF1058_RS02410 0.82 -2.4
196,486 + HMPREF1058_RS02410 0.87 -3.1
196,545 + HMPREF1058_RS02410 0.90 +0.6
196,546 - HMPREF1058_RS02410 0.90 -0.2
196,573 - -0.2
196,582 + -0.3
196,583 - +0.1
196,589 + -2.7
196,632 + -0.6
196,632 + -2.1
196,706 - -1.6
196,731 + -2.8
196,731 + +2.0
196,732 - -1.9
196,732 - -0.5
196,732 - -1.8
196,733 + -1.4
196,733 + -0.5
196,733 + +1.0
196,733 + -2.3
196,733 + -2.3
196,733 + +1.0
196,733 + -1.1
196,733 + -2.5
196,733 + -0.6
196,733 + +2.6
196,734 - -3.0
196,734 - -1.1
196,734 - -1.0
196,734 - -2.6
196,734 - -2.5
196,734 - -1.4
196,734 - +0.2
196,735 + -1.5
196,735 + -0.4
196,778 - -1.1
196,778 - -0.5
196,784 + -1.1
196,789 + -1.6
196,790 - +0.2
196,790 - -0.8
196,797 + -3.0
196,874 - -2.6
196,941 + +2.6
196,942 - -1.2
196,972 + HMPREF1058_RS02405 0.10 -1.0
196,977 - HMPREF1058_RS02405 0.11 -1.9
197,000 - HMPREF1058_RS02405 0.12 -2.1
197,022 - HMPREF1058_RS02405 0.13 -1.3
197,022 - HMPREF1058_RS02405 0.13 -0.9
197,271 - HMPREF1058_RS02405 0.26 -1.8
197,305 + HMPREF1058_RS02405 0.28 -1.0
197,306 - HMPREF1058_RS02405 0.28 +0.7
197,311 - HMPREF1058_RS02405 0.28 -3.5
197,438 + HMPREF1058_RS02405 0.35 -0.1
197,500 - HMPREF1058_RS02405 0.38 -0.8
197,522 + HMPREF1058_RS02405 0.39 -2.7
197,523 - HMPREF1058_RS02405 0.39 -1.7
197,556 - HMPREF1058_RS02405 0.41 -1.8
197,556 - HMPREF1058_RS02405 0.41 -3.5
197,604 + HMPREF1058_RS02405 0.44 -1.0
197,605 - HMPREF1058_RS02405 0.44 -2.2
197,605 - HMPREF1058_RS02405 0.44 -3.2
197,625 - HMPREF1058_RS02405 0.45 -0.9
197,690 + HMPREF1058_RS02405 0.48 -1.4

Or see this region's nucleotide sequence