Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS01425

Experiment: Dextrin from potato starch 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_RS01435 and HMPREF1058_RS01430 overlap by 17 nucleotidesHMPREF1058_RS01430 and HMPREF1058_RS01425 are separated by 49 nucleotidesHMPREF1058_RS01425 and HMPREF1058_RS01420 are separated by 33 nucleotides HMPREF1058_RS01435: HMPREF1058_RS01435 - anaerobic ribonucleoside-triphosphate reductase, at 126,646 to 128,208 _RS01435 HMPREF1058_RS01430: HMPREF1058_RS01430 - anaerobic ribonucleoside-triphosphate reductase activating protein, at 128,192 to 128,659 _RS01430 HMPREF1058_RS01425: HMPREF1058_RS01425 - sirohydrochlorin cobaltochelatase, at 128,709 to 129,905 _RS01425 HMPREF1058_RS01420: HMPREF1058_RS01420 - TonB-dependent receptor, at 129,939 to 131,999 _RS01420 Position (kb) 128 129 130Strain fitness (log2 ratio) -2 -1 0 1 2 3at 127.716 kb on + strand, within HMPREF1058_RS01435at 127.763 kb on + strand, within HMPREF1058_RS01435at 127.822 kb on + strand, within HMPREF1058_RS01435at 127.832 kb on - strand, within HMPREF1058_RS01435at 127.845 kb on - strand, within HMPREF1058_RS01435at 127.899 kb on + strand, within HMPREF1058_RS01435at 127.900 kb on - strand, within HMPREF1058_RS01435at 127.954 kb on - strand, within HMPREF1058_RS01435at 127.994 kb on + strand, within HMPREF1058_RS01435at 128.009 kb on - strand, within HMPREF1058_RS01435at 128.049 kb on + strandat 128.050 kb on - strand, within HMPREF1058_RS01435at 128.056 kb on - strandat 128.201 kb on + strandat 128.266 kb on + strand, within HMPREF1058_RS01430at 128.359 kb on - strand, within HMPREF1058_RS01430at 128.552 kb on + strand, within HMPREF1058_RS01430at 128.552 kb on + strand, within HMPREF1058_RS01430at 128.553 kb on - strand, within HMPREF1058_RS01430at 128.553 kb on - strand, within HMPREF1058_RS01430at 128.553 kb on - strand, within HMPREF1058_RS01430at 128.632 kb on + strandat 128.653 kb on + strandat 128.672 kb on + strandat 128.693 kb on - strandat 128.697 kb on - strandat 128.772 kb on + strandat 128.773 kb on - strandat 128.829 kb on - strand, within HMPREF1058_RS01425at 128.907 kb on + strand, within HMPREF1058_RS01425at 128.933 kb on + strand, within HMPREF1058_RS01425at 128.934 kb on - strand, within HMPREF1058_RS01425at 128.935 kb on + strand, within HMPREF1058_RS01425at 128.961 kb on - strand, within HMPREF1058_RS01425at 129.049 kb on + strand, within HMPREF1058_RS01425at 129.091 kb on + strand, within HMPREF1058_RS01425at 129.092 kb on - strand, within HMPREF1058_RS01425at 129.104 kb on + strand, within HMPREF1058_RS01425at 129.113 kb on + strand, within HMPREF1058_RS01425at 129.114 kb on - strand, within HMPREF1058_RS01425at 129.114 kb on - strand, within HMPREF1058_RS01425at 129.114 kb on - strandat 129.148 kb on - strand, within HMPREF1058_RS01425at 129.158 kb on + strand, within HMPREF1058_RS01425at 129.231 kb on - strand, within HMPREF1058_RS01425at 129.231 kb on - strand, within HMPREF1058_RS01425at 129.231 kb on - strand, within HMPREF1058_RS01425at 129.296 kb on - strand, within HMPREF1058_RS01425at 129.312 kb on - strand, within HMPREF1058_RS01425at 129.351 kb on + strand, within HMPREF1058_RS01425at 129.364 kb on + strand, within HMPREF1058_RS01425at 129.395 kb on + strand, within HMPREF1058_RS01425at 129.396 kb on - strand, within HMPREF1058_RS01425at 129.635 kb on + strand, within HMPREF1058_RS01425at 129.635 kb on + strand, within HMPREF1058_RS01425at 129.653 kb on + strand, within HMPREF1058_RS01425at 129.654 kb on - strand, within HMPREF1058_RS01425at 129.654 kb on - strand, within HMPREF1058_RS01425at 129.655 kb on + strand, within HMPREF1058_RS01425at 129.655 kb on + strand, within HMPREF1058_RS01425at 129.725 kb on + strand, within HMPREF1058_RS01425at 129.728 kb on - strand, within HMPREF1058_RS01425at 129.787 kb on - strandat 129.889 kb on + strandat 129.890 kb on - strandat 129.905 kb on + strandat 129.937 kb on + strandat 129.938 kb on - strandat 129.956 kb on + strandat 129.969 kb on + strandat 130.030 kb on - strandat 130.042 kb on - strandat 130.042 kb on - strandat 130.092 kb on + strandat 130.142 kb on + strandat 130.149 kb on + strand, within HMPREF1058_RS01420at 130.149 kb on + strand, within HMPREF1058_RS01420at 130.149 kb on + strand, within HMPREF1058_RS01420at 130.150 kb on - strand, within HMPREF1058_RS01420at 130.151 kb on + strand, within HMPREF1058_RS01420at 130.153 kb on + strand, within HMPREF1058_RS01420at 130.154 kb on - strand, within HMPREF1058_RS01420at 130.171 kb on + strand, within HMPREF1058_RS01420at 130.181 kb on - strand, within HMPREF1058_RS01420at 130.201 kb on + strand, within HMPREF1058_RS01420at 130.265 kb on + strand, within HMPREF1058_RS01420at 130.266 kb on - strand, within HMPREF1058_RS01420at 130.281 kb on - strand, within HMPREF1058_RS01420at 130.324 kb on + strand, within HMPREF1058_RS01420at 130.328 kb on + strand, within HMPREF1058_RS01420at 130.328 kb on + strand, within HMPREF1058_RS01420at 130.328 kb on + strand, within HMPREF1058_RS01420at 130.386 kb on - strand, within HMPREF1058_RS01420at 130.390 kb on + strand, within HMPREF1058_RS01420at 130.390 kb on + strand, within HMPREF1058_RS01420at 130.395 kb on - strand, within HMPREF1058_RS01420at 130.416 kb on - strand, within HMPREF1058_RS01420at 130.416 kb on - strand, within HMPREF1058_RS01420at 130.435 kb on - strand, within HMPREF1058_RS01420at 130.499 kb on - strand, within HMPREF1058_RS01420at 130.543 kb on + strand, within HMPREF1058_RS01420at 130.564 kb on + strand, within HMPREF1058_RS01420at 130.603 kb on + strand, within HMPREF1058_RS01420at 130.603 kb on + strand, within HMPREF1058_RS01420at 130.604 kb on - strand, within HMPREF1058_RS01420at 130.604 kb on - strand, within HMPREF1058_RS01420at 130.637 kb on + strand, within HMPREF1058_RS01420at 130.643 kb on + strand, within HMPREF1058_RS01420at 130.644 kb on - strand, within HMPREF1058_RS01420at 130.649 kb on - strand, within HMPREF1058_RS01420at 130.680 kb on + strandat 130.688 kb on - strand, within HMPREF1058_RS01420at 130.704 kb on - strand, within HMPREF1058_RS01420at 130.706 kb on + strand, within HMPREF1058_RS01420at 130.707 kb on - strand, within HMPREF1058_RS01420at 130.724 kb on - strand, within HMPREF1058_RS01420at 130.831 kb on - strand, within HMPREF1058_RS01420at 130.832 kb on + strand, within HMPREF1058_RS01420at 130.832 kb on + strand, within HMPREF1058_RS01420at 130.833 kb on - strand, within HMPREF1058_RS01420at 130.834 kb on + strand, within HMPREF1058_RS01420at 130.834 kb on + strand, within HMPREF1058_RS01420at 130.835 kb on - strand, within HMPREF1058_RS01420at 130.835 kb on - strand, within HMPREF1058_RS01420at 130.835 kb on - strand, within HMPREF1058_RS01420at 130.847 kb on + strand, within HMPREF1058_RS01420at 130.848 kb on - strand, within HMPREF1058_RS01420at 130.900 kb on + strand, within HMPREF1058_RS01420at 130.900 kb on + strand, within HMPREF1058_RS01420at 130.901 kb on - strand, within HMPREF1058_RS01420

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Per-strain Table

Position Strand Gene LocusTag Fraction Dextrin from potato starch 2.5 mg/ml (C)
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127,716 + HMPREF1058_RS01435 0.68 +0.0
127,763 + HMPREF1058_RS01435 0.71 +1.6
127,822 + HMPREF1058_RS01435 0.75 -0.2
127,832 - HMPREF1058_RS01435 0.76 -1.2
127,845 - HMPREF1058_RS01435 0.77 +1.0
127,899 + HMPREF1058_RS01435 0.80 +0.1
127,900 - HMPREF1058_RS01435 0.80 -0.3
127,954 - HMPREF1058_RS01435 0.84 +0.1
127,994 + HMPREF1058_RS01435 0.86 +1.6
128,009 - HMPREF1058_RS01435 0.87 +0.0
128,049 + +2.1
128,050 - HMPREF1058_RS01435 0.90 -0.9
128,056 - +0.4
128,201 + +1.1
128,266 + HMPREF1058_RS01430 0.16 +0.4
128,359 - HMPREF1058_RS01430 0.36 +1.3
128,552 + HMPREF1058_RS01430 0.77 +0.1
128,552 + HMPREF1058_RS01430 0.77 -1.3
128,553 - HMPREF1058_RS01430 0.77 -0.1
128,553 - HMPREF1058_RS01430 0.77 -0.0
128,553 - HMPREF1058_RS01430 0.77 -1.2
128,632 + -0.5
128,653 + +0.0
128,672 + -1.2
128,693 - +0.8
128,697 - +0.3
128,772 + +1.2
128,773 - +1.0
128,829 - HMPREF1058_RS01425 0.10 -0.6
128,907 + HMPREF1058_RS01425 0.17 +1.5
128,933 + HMPREF1058_RS01425 0.19 +2.9
128,934 - HMPREF1058_RS01425 0.19 +1.8
128,935 + HMPREF1058_RS01425 0.19 +1.6
128,961 - HMPREF1058_RS01425 0.21 +1.6
129,049 + HMPREF1058_RS01425 0.28 +1.2
129,091 + HMPREF1058_RS01425 0.32 +0.6
129,092 - HMPREF1058_RS01425 0.32 +1.0
129,104 + HMPREF1058_RS01425 0.33 +0.5
129,113 + HMPREF1058_RS01425 0.34 -0.6
129,114 - HMPREF1058_RS01425 0.34 +1.7
129,114 - HMPREF1058_RS01425 0.34 +0.3
129,114 - +0.4
129,148 - HMPREF1058_RS01425 0.37 +0.4
129,158 + HMPREF1058_RS01425 0.38 +0.6
129,231 - HMPREF1058_RS01425 0.44 +0.4
129,231 - HMPREF1058_RS01425 0.44 +0.2
129,231 - HMPREF1058_RS01425 0.44 +0.8
129,296 - HMPREF1058_RS01425 0.49 -0.9
129,312 - HMPREF1058_RS01425 0.50 -1.1
129,351 + HMPREF1058_RS01425 0.54 -0.8
129,364 + HMPREF1058_RS01425 0.55 +1.6
129,395 + HMPREF1058_RS01425 0.57 +0.8
129,396 - HMPREF1058_RS01425 0.57 +0.1
129,635 + HMPREF1058_RS01425 0.77 +0.8
129,635 + HMPREF1058_RS01425 0.77 +0.2
129,653 + HMPREF1058_RS01425 0.79 +0.2
129,654 - HMPREF1058_RS01425 0.79 +2.0
129,654 - HMPREF1058_RS01425 0.79 -0.3
129,655 + HMPREF1058_RS01425 0.79 -1.3
129,655 + HMPREF1058_RS01425 0.79 +1.1
129,725 + HMPREF1058_RS01425 0.85 -0.8
129,728 - HMPREF1058_RS01425 0.85 -1.8
129,787 - +1.2
129,889 + -1.4
129,890 - -0.1
129,905 + +1.4
129,937 + +0.3
129,938 - -0.2
129,956 + +2.6
129,969 + -0.3
130,030 - +0.1
130,042 - -1.4
130,042 - -0.9
130,092 + +2.0
130,142 + +1.0
130,149 + HMPREF1058_RS01420 0.10 +1.1
130,149 + HMPREF1058_RS01420 0.10 +1.4
130,149 + HMPREF1058_RS01420 0.10 -0.5
130,150 - HMPREF1058_RS01420 0.10 -0.0
130,151 + HMPREF1058_RS01420 0.10 +0.1
130,153 + HMPREF1058_RS01420 0.10 +0.2
130,154 - HMPREF1058_RS01420 0.10 -1.1
130,171 + HMPREF1058_RS01420 0.11 +0.9
130,181 - HMPREF1058_RS01420 0.12 -0.3
130,201 + HMPREF1058_RS01420 0.13 +0.5
130,265 + HMPREF1058_RS01420 0.16 +0.7
130,266 - HMPREF1058_RS01420 0.16 -0.1
130,281 - HMPREF1058_RS01420 0.17 +0.8
130,324 + HMPREF1058_RS01420 0.19 +1.0
130,328 + HMPREF1058_RS01420 0.19 -1.3
130,328 + HMPREF1058_RS01420 0.19 +1.6
130,328 + HMPREF1058_RS01420 0.19 -0.5
130,386 - HMPREF1058_RS01420 0.22 +0.2
130,390 + HMPREF1058_RS01420 0.22 -2.0
130,390 + HMPREF1058_RS01420 0.22 +3.2
130,395 - HMPREF1058_RS01420 0.22 -1.6
130,416 - HMPREF1058_RS01420 0.23 +0.5
130,416 - HMPREF1058_RS01420 0.23 +0.6
130,435 - HMPREF1058_RS01420 0.24 +0.4
130,499 - HMPREF1058_RS01420 0.27 -0.3
130,543 + HMPREF1058_RS01420 0.29 -0.2
130,564 + HMPREF1058_RS01420 0.30 -2.2
130,603 + HMPREF1058_RS01420 0.32 -1.0
130,603 + HMPREF1058_RS01420 0.32 +0.4
130,604 - HMPREF1058_RS01420 0.32 -0.4
130,604 - HMPREF1058_RS01420 0.32 -1.4
130,637 + HMPREF1058_RS01420 0.34 +0.2
130,643 + HMPREF1058_RS01420 0.34 +0.2
130,644 - HMPREF1058_RS01420 0.34 +0.6
130,649 - HMPREF1058_RS01420 0.34 +0.2
130,680 + +0.6
130,688 - HMPREF1058_RS01420 0.36 -1.8
130,704 - HMPREF1058_RS01420 0.37 +0.7
130,706 + HMPREF1058_RS01420 0.37 -0.2
130,707 - HMPREF1058_RS01420 0.37 +0.1
130,724 - HMPREF1058_RS01420 0.38 -0.4
130,831 - HMPREF1058_RS01420 0.43 +1.5
130,832 + HMPREF1058_RS01420 0.43 -0.1
130,832 + HMPREF1058_RS01420 0.43 +0.0
130,833 - HMPREF1058_RS01420 0.43 +0.6
130,834 + HMPREF1058_RS01420 0.43 +0.0
130,834 + HMPREF1058_RS01420 0.43 +1.8
130,835 - HMPREF1058_RS01420 0.43 -1.6
130,835 - HMPREF1058_RS01420 0.43 -1.0
130,835 - HMPREF1058_RS01420 0.43 -1.1
130,847 + HMPREF1058_RS01420 0.44 +0.3
130,848 - HMPREF1058_RS01420 0.44 +0.2
130,900 + HMPREF1058_RS01420 0.47 +0.8
130,900 + HMPREF1058_RS01420 0.47 -2.1
130,901 - HMPREF1058_RS01420 0.47 -0.1

Or see this region's nucleotide sequence