Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS02405

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4

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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_RS02410 and HMPREF1058_RS02405 are separated by 9 nucleotidesHMPREF1058_RS02405 and HMPREF1058_RS02400 are separated by 285 nucleotides 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 HMPREF1058_RS02400: HMPREF1058_RS02400 - putative transporter, at 198,968 to 200,638 _RS02400 Position (kb) 196 197 198 199Strain fitness (log2 ratio) -6 -5 -4 -3 -2 -1 0 1 2at 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_RS02405at 197.821 kb on - strand, within HMPREF1058_RS02405at 197.848 kb on + strand, within HMPREF1058_RS02405at 197.848 kb on + strand, within HMPREF1058_RS02405at 197.848 kb on + strand, within HMPREF1058_RS02405at 197.848 kb on + strand, within HMPREF1058_RS02405at 197.849 kb on - strand, within HMPREF1058_RS02405at 197.849 kb on - strand, within HMPREF1058_RS02405at 197.884 kb on - strand, within HMPREF1058_RS02405at 197.952 kb on - strand, within HMPREF1058_RS02405at 198.010 kb on + strand, within HMPREF1058_RS02405at 198.052 kb on + strand, within HMPREF1058_RS02405at 198.053 kb on - strand, within HMPREF1058_RS02405at 198.053 kb on - strand, within HMPREF1058_RS02405at 198.081 kb on - strand, within HMPREF1058_RS02405at 198.081 kb on - strand, within HMPREF1058_RS02405at 198.104 kb on - strand, within HMPREF1058_RS02405at 198.134 kb on + strand, within HMPREF1058_RS02405at 198.152 kb on - strand, within HMPREF1058_RS02405at 198.159 kb on + strand, within HMPREF1058_RS02405at 198.159 kb on + strand, within HMPREF1058_RS02405at 198.159 kb on + strand, within HMPREF1058_RS02405at 198.211 kb on - strand, within HMPREF1058_RS02405at 198.211 kb on - strand, within HMPREF1058_RS02405at 198.231 kb on - strand, within HMPREF1058_RS02405at 198.240 kb on + strand, within HMPREF1058_RS02405at 198.289 kb on + strand, within HMPREF1058_RS02405at 198.290 kb on - strand, within HMPREF1058_RS02405at 198.343 kb on - strand, within HMPREF1058_RS02405at 198.388 kb on + strand, within HMPREF1058_RS02405at 198.413 kb on + strand, within HMPREF1058_RS02405at 198.442 kb on + strand, within HMPREF1058_RS02405at 198.468 kb on - strand, within HMPREF1058_RS02405at 198.671 kb on - strandat 198.673 kb on + strandat 198.700 kb on + strandat 198.712 kb on - strandat 198.744 kb on + strandat 198.764 kb on - strandat 198.875 kb on + strandat 198.959 kb on + strandat 198.963 kb on - strandat 198.963 kb on - strandat 198.963 kb on - strandat 198.963 kb on - strandat 198.963 kb on - strandat 198.964 kb on + strandat 199.029 kb on - strandat 199.151 kb on - strand, within HMPREF1058_RS02400at 199.158 kb on + strand, within HMPREF1058_RS02400at 199.162 kb on + strand, within HMPREF1058_RS02400at 199.189 kb on - strand, within HMPREF1058_RS02400at 199.319 kb on + strand, within HMPREF1058_RS02400at 199.352 kb on - strand, within HMPREF1058_RS02400at 199.433 kb on + strand, within HMPREF1058_RS02400at 199.513 kb on + strand, within HMPREF1058_RS02400at 199.617 kb on + strand, within HMPREF1058_RS02400at 199.621 kb on + strandat 199.622 kb on - strand, within HMPREF1058_RS02400at 199.622 kb on - strand, within HMPREF1058_RS02400

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4
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195,865 + HMPREF1058_RS02410 0.58 -3.6
195,866 - HMPREF1058_RS02410 0.58 -5.3
195,866 - HMPREF1058_RS02410 0.58 -5.0
195,957 - HMPREF1058_RS02410 0.63 -4.5
195,957 - HMPREF1058_RS02410 0.63 -4.3
195,985 - HMPREF1058_RS02410 0.64 -3.7
196,006 + HMPREF1058_RS02410 0.65 -1.7
196,007 - HMPREF1058_RS02410 0.65 -2.1
196,007 - HMPREF1058_RS02410 0.65 -4.7
196,007 - HMPREF1058_RS02410 0.65 -5.2
196,009 - HMPREF1058_RS02410 0.65 -3.6
196,099 + HMPREF1058_RS02410 0.69 -5.3
196,099 + HMPREF1058_RS02410 0.69 -2.7
196,101 + HMPREF1058_RS02410 0.69 -4.4
196,110 - HMPREF1058_RS02410 0.70 -3.6
196,146 + HMPREF1058_RS02410 0.71 -3.1
196,150 + HMPREF1058_RS02410 0.72 -5.0
196,153 - HMPREF1058_RS02410 0.72 -4.4
196,184 - HMPREF1058_RS02410 0.73 -3.2
196,247 - HMPREF1058_RS02410 0.76 -3.3
196,248 + HMPREF1058_RS02410 0.76 -4.9
196,248 + HMPREF1058_RS02410 0.76 -3.7
196,249 - HMPREF1058_RS02410 0.76 -2.7
196,269 - HMPREF1058_RS02410 0.77 -3.4
196,373 + HMPREF1058_RS02410 0.82 -4.4
196,373 + HMPREF1058_RS02410 0.82 -5.3
196,374 - HMPREF1058_RS02410 0.82 -2.7
196,374 - HMPREF1058_RS02410 0.82 -3.0
196,374 - HMPREF1058_RS02410 0.82 -4.1
196,374 - HMPREF1058_RS02410 0.82 -5.0
196,383 - HMPREF1058_RS02410 0.82 -5.4
196,486 + HMPREF1058_RS02410 0.87 -4.7
196,545 + HMPREF1058_RS02410 0.90 -1.7
196,546 - HMPREF1058_RS02410 0.90 -1.1
196,573 - -1.7
196,582 + -2.4
196,583 - -2.4
196,589 + -3.5
196,632 + -3.9
196,632 + -2.7
196,706 - -3.9
196,731 + -4.9
196,731 + -1.7
196,732 - -4.2
196,732 - -3.6
196,732 - -3.8
196,733 + -3.6
196,733 + -2.7
196,733 + -1.1
196,733 + -3.8
196,733 + -5.1
196,733 + -1.1
196,733 + -4.4
196,733 + -4.5
196,733 + -3.4
196,733 + -2.9
196,734 - -4.0
196,734 - -5.0
196,734 - -2.4
196,734 - -2.4
196,734 - -3.6
196,734 - -3.7
196,734 - -3.9
196,735 + -2.9
196,735 + -2.4
196,778 - -0.1
196,778 - -1.2
196,784 + -1.1
196,789 + -1.1
196,790 - +1.1
196,790 - +0.9
196,797 + -3.6
196,874 - -3.6
196,941 + -0.1
196,942 - -3.9
196,972 + HMPREF1058_RS02405 0.10 -4.2
196,977 - HMPREF1058_RS02405 0.11 -5.4
197,000 - HMPREF1058_RS02405 0.12 -5.7
197,022 - HMPREF1058_RS02405 0.13 -3.4
197,022 - HMPREF1058_RS02405 0.13 -4.9
197,271 - HMPREF1058_RS02405 0.26 -2.4
197,305 + HMPREF1058_RS02405 0.28 -2.7
197,306 - HMPREF1058_RS02405 0.28 -1.1
197,311 - HMPREF1058_RS02405 0.28 -4.1
197,438 + HMPREF1058_RS02405 0.35 -2.7
197,500 - HMPREF1058_RS02405 0.38 -4.0
197,522 + HMPREF1058_RS02405 0.39 -4.1
197,523 - HMPREF1058_RS02405 0.39 -5.3
197,556 - HMPREF1058_RS02405 0.41 -5.2
197,556 - HMPREF1058_RS02405 0.41 -2.7
197,604 + HMPREF1058_RS02405 0.44 -1.7
197,605 - HMPREF1058_RS02405 0.44 -4.7
197,605 - HMPREF1058_RS02405 0.44 -3.2
197,625 - HMPREF1058_RS02405 0.45 -5.4
197,690 + HMPREF1058_RS02405 0.48 -3.3
197,821 - HMPREF1058_RS02405 0.55 -2.4
197,848 + HMPREF1058_RS02405 0.56 -3.4
197,848 + HMPREF1058_RS02405 0.56 -4.0
197,848 + HMPREF1058_RS02405 0.56 -4.6
197,848 + HMPREF1058_RS02405 0.56 -1.7
197,849 - HMPREF1058_RS02405 0.56 -4.1
197,849 - HMPREF1058_RS02405 0.56 -2.9
197,884 - HMPREF1058_RS02405 0.58 -2.4
197,952 - HMPREF1058_RS02405 0.62 -6.5
198,010 + HMPREF1058_RS02405 0.65 -2.7
198,052 + HMPREF1058_RS02405 0.67 -3.7
198,053 - HMPREF1058_RS02405 0.67 -2.7
198,053 - HMPREF1058_RS02405 0.67 -2.4
198,081 - HMPREF1058_RS02405 0.68 -5.0
198,081 - HMPREF1058_RS02405 0.68 -5.7
198,104 - HMPREF1058_RS02405 0.70 -0.1
198,134 + HMPREF1058_RS02405 0.71 -2.7
198,152 - HMPREF1058_RS02405 0.72 -2.9
198,159 + HMPREF1058_RS02405 0.73 -4.9
198,159 + HMPREF1058_RS02405 0.73 -4.0
198,159 + HMPREF1058_RS02405 0.73 -4.8
198,211 - HMPREF1058_RS02405 0.75 -3.9
198,211 - HMPREF1058_RS02405 0.75 -0.1
198,231 - HMPREF1058_RS02405 0.76 -4.3
198,240 + HMPREF1058_RS02405 0.77 -4.0
198,289 + HMPREF1058_RS02405 0.79 -2.4
198,290 - HMPREF1058_RS02405 0.79 -5.3
198,343 - HMPREF1058_RS02405 0.82 -4.2
198,388 + HMPREF1058_RS02405 0.85 -2.4
198,413 + HMPREF1058_RS02405 0.86 -2.4
198,442 + HMPREF1058_RS02405 0.87 -4.0
198,468 - HMPREF1058_RS02405 0.89 -4.9
198,671 - -4.0
198,673 + -5.1
198,700 + -2.4
198,712 - +0.1
198,744 + -1.7
198,764 - +2.7
198,875 + -1.5
198,959 + +0.0
198,963 - -0.1
198,963 - +0.6
198,963 - +0.3
198,963 - +0.4
198,963 - +0.1
198,964 + +0.3
199,029 - +0.9
199,151 - HMPREF1058_RS02400 0.11 +0.9
199,158 + HMPREF1058_RS02400 0.11 -1.8
199,162 + HMPREF1058_RS02400 0.12 -1.1
199,189 - HMPREF1058_RS02400 0.13 +0.9
199,319 + HMPREF1058_RS02400 0.21 -1.3
199,352 - HMPREF1058_RS02400 0.23 -0.7
199,433 + HMPREF1058_RS02400 0.28 +0.3
199,513 + HMPREF1058_RS02400 0.33 +0.5
199,617 + HMPREF1058_RS02400 0.39 -0.3
199,621 + -0.1
199,622 - HMPREF1058_RS02400 0.39 +0.3
199,622 - HMPREF1058_RS02400 0.39 -0.7

Or see this region's nucleotide sequence