Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS21440

Experiment: Arabinoxylan (Rye Flour) 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_RS12960 and HMPREF1058_RS21440 are separated by 113 nucleotidesHMPREF1058_RS21440 and HMPREF1058_RS0119555 are separated by 14 nucleotides HMPREF1058_RS12960: HMPREF1058_RS12960 - class I mannose-6-phosphate isomerase, at 1,626,989 to 1,627,960 _RS12960 HMPREF1058_RS21440: HMPREF1058_RS21440 - hypothetical protein, at 1,628,074 to 1,628,232 _RS21440 HMPREF1058_RS0119555: HMPREF1058_RS0119555 - carboxypeptidase-like regulatory domain-containing protein, at 1,628,247 to 1,629,316 _RS0119555 Position (kb) 1628 1629Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 1627.961 kb on - strandat 1627.961 kb on - strandat 1627.961 kb on - strandat 1627.977 kb on - strandat 1627.977 kb on - strandat 1628.038 kb on - strandat 1628.043 kb on + strandat 1628.050 kb on + strandat 1628.050 kb on + strandat 1628.050 kb on + strandat 1628.050 kb on + strandat 1628.073 kb on - strandat 1628.076 kb on - strandat 1628.076 kb on - strandat 1628.078 kb on + strandat 1628.078 kb on + strandat 1628.079 kb on - strandat 1628.079 kb on - strandat 1628.079 kb on - strandat 1628.088 kb on + strandat 1628.089 kb on - strandat 1628.089 kb on - strandat 1628.124 kb on + strand, within HMPREF1058_RS21440at 1628.125 kb on - strand, within HMPREF1058_RS21440at 1628.125 kb on - strand, within HMPREF1058_RS21440at 1628.149 kb on - strand, within HMPREF1058_RS21440at 1628.150 kb on + strand, within HMPREF1058_RS21440at 1628.232 kb on + strandat 1628.234 kb on + strandat 1628.234 kb on + strandat 1628.234 kb on + strandat 1628.234 kb on + strandat 1628.234 kb on + strandat 1628.235 kb on - strandat 1628.235 kb on - strandat 1628.238 kb on + strandat 1628.278 kb on + strandat 1628.279 kb on - strandat 1628.286 kb on - strandat 1628.287 kb on + strandat 1628.288 kb on - strandat 1628.318 kb on - strandat 1628.400 kb on + strand, within HMPREF1058_RS0119555at 1628.504 kb on + strand, within HMPREF1058_RS0119555at 1628.505 kb on - strand, within HMPREF1058_RS0119555at 1628.569 kb on + strand, within HMPREF1058_RS0119555at 1628.603 kb on - strand, within HMPREF1058_RS0119555at 1628.625 kb on - strand, within HMPREF1058_RS0119555at 1628.686 kb on + strand, within HMPREF1058_RS0119555at 1628.686 kb on + strand, within HMPREF1058_RS0119555at 1628.710 kb on + strand, within HMPREF1058_RS0119555at 1628.713 kb on + strand, within HMPREF1058_RS0119555at 1628.714 kb on - strand, within HMPREF1058_RS0119555at 1628.761 kb on + strand, within HMPREF1058_RS0119555at 1628.765 kb on - strand, within HMPREF1058_RS0119555at 1628.766 kb on + strand, within HMPREF1058_RS0119555at 1628.766 kb on + strand, within HMPREF1058_RS0119555at 1628.766 kb on + strand, within HMPREF1058_RS0119555at 1628.766 kb on + strand, within HMPREF1058_RS0119555at 1628.767 kb on - strand, within HMPREF1058_RS0119555at 1628.779 kb on + strand, within HMPREF1058_RS0119555at 1628.783 kb on - strand, within HMPREF1058_RS0119555at 1628.805 kb on - strand, within HMPREF1058_RS0119555at 1628.837 kb on - strand, within HMPREF1058_RS0119555at 1628.872 kb on + strand, within HMPREF1058_RS0119555at 1628.917 kb on + strand, within HMPREF1058_RS0119555at 1628.944 kb on + strand, within HMPREF1058_RS0119555at 1628.945 kb on - strand, within HMPREF1058_RS0119555at 1628.948 kb on - strand, within HMPREF1058_RS0119555at 1628.997 kb on - strand, within HMPREF1058_RS0119555at 1629.053 kb on - strand, within HMPREF1058_RS0119555at 1629.089 kb on + strand, within HMPREF1058_RS0119555at 1629.090 kb on - strand, within HMPREF1058_RS0119555at 1629.090 kb on - strand, within HMPREF1058_RS0119555at 1629.095 kb on - strand, within HMPREF1058_RS0119555at 1629.129 kb on + strand, within HMPREF1058_RS0119555at 1629.152 kb on - strand, within HMPREF1058_RS0119555at 1629.154 kb on + strand, within HMPREF1058_RS0119555at 1629.155 kb on - strand, within HMPREF1058_RS0119555at 1629.155 kb on - strand, within HMPREF1058_RS0119555at 1629.164 kb on - strand, within HMPREF1058_RS0119555at 1629.167 kb on + strand, within HMPREF1058_RS0119555at 1629.176 kb on + strand, within HMPREF1058_RS0119555at 1629.177 kb on - strand, within HMPREF1058_RS0119555

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Per-strain Table

Position Strand Gene LocusTag Fraction Arabinoxylan (Rye Flour) 2.5 mg/ml (C)
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1,627,961 - -2.1
1,627,961 - +2.5
1,627,961 - -0.7
1,627,977 - -1.9
1,627,977 - -0.6
1,628,038 - -2.8
1,628,043 + +0.5
1,628,050 + -0.1
1,628,050 + -1.0
1,628,050 + -1.2
1,628,050 + +1.3
1,628,073 - -1.1
1,628,076 - -1.5
1,628,076 - +1.3
1,628,078 + -0.5
1,628,078 + -1.2
1,628,079 - -1.0
1,628,079 - -1.8
1,628,079 - +0.9
1,628,088 + -1.8
1,628,089 - +0.9
1,628,089 - +0.8
1,628,124 + HMPREF1058_RS21440 0.31 +0.0
1,628,125 - HMPREF1058_RS21440 0.32 -0.4
1,628,125 - HMPREF1058_RS21440 0.32 -1.0
1,628,149 - HMPREF1058_RS21440 0.47 -2.4
1,628,150 + HMPREF1058_RS21440 0.48 -3.0
1,628,232 + -0.8
1,628,234 + +0.5
1,628,234 + +0.1
1,628,234 + -0.7
1,628,234 + +0.9
1,628,234 + +2.2
1,628,235 - +0.1
1,628,235 - +0.3
1,628,238 + +2.5
1,628,278 + -0.6
1,628,279 - +2.4
1,628,286 - -0.7
1,628,287 + +1.3
1,628,288 - +1.6
1,628,318 - +1.8
1,628,400 + HMPREF1058_RS0119555 0.14 +1.3
1,628,504 + HMPREF1058_RS0119555 0.24 +2.0
1,628,505 - HMPREF1058_RS0119555 0.24 +0.7
1,628,569 + HMPREF1058_RS0119555 0.30 +0.2
1,628,603 - HMPREF1058_RS0119555 0.33 -0.3
1,628,625 - HMPREF1058_RS0119555 0.35 +1.5
1,628,686 + HMPREF1058_RS0119555 0.41 -0.6
1,628,686 + HMPREF1058_RS0119555 0.41 -0.5
1,628,710 + HMPREF1058_RS0119555 0.43 +1.0
1,628,713 + HMPREF1058_RS0119555 0.44 -2.0
1,628,714 - HMPREF1058_RS0119555 0.44 +0.1
1,628,761 + HMPREF1058_RS0119555 0.48 -0.0
1,628,765 - HMPREF1058_RS0119555 0.48 +0.8
1,628,766 + HMPREF1058_RS0119555 0.49 -0.5
1,628,766 + HMPREF1058_RS0119555 0.49 -1.1
1,628,766 + HMPREF1058_RS0119555 0.49 -0.8
1,628,766 + HMPREF1058_RS0119555 0.49 -2.0
1,628,767 - HMPREF1058_RS0119555 0.49 -0.7
1,628,779 + HMPREF1058_RS0119555 0.50 -2.2
1,628,783 - HMPREF1058_RS0119555 0.50 +0.4
1,628,805 - HMPREF1058_RS0119555 0.52 -2.0
1,628,837 - HMPREF1058_RS0119555 0.55 +0.4
1,628,872 + HMPREF1058_RS0119555 0.58 +1.9
1,628,917 + HMPREF1058_RS0119555 0.63 +0.2
1,628,944 + HMPREF1058_RS0119555 0.65 -0.3
1,628,945 - HMPREF1058_RS0119555 0.65 -0.5
1,628,948 - HMPREF1058_RS0119555 0.66 +1.0
1,628,997 - HMPREF1058_RS0119555 0.70 +0.2
1,629,053 - HMPREF1058_RS0119555 0.75 -0.1
1,629,089 + HMPREF1058_RS0119555 0.79 -1.1
1,629,090 - HMPREF1058_RS0119555 0.79 -2.0
1,629,090 - HMPREF1058_RS0119555 0.79 -1.9
1,629,095 - HMPREF1058_RS0119555 0.79 -0.4
1,629,129 + HMPREF1058_RS0119555 0.82 -0.4
1,629,152 - HMPREF1058_RS0119555 0.85 +2.6
1,629,154 + HMPREF1058_RS0119555 0.85 -0.4
1,629,155 - HMPREF1058_RS0119555 0.85 +0.5
1,629,155 - HMPREF1058_RS0119555 0.85 -0.1
1,629,164 - HMPREF1058_RS0119555 0.86 +0.4
1,629,167 + HMPREF1058_RS0119555 0.86 -1.7
1,629,176 + HMPREF1058_RS0119555 0.87 -0.2
1,629,177 - HMPREF1058_RS0119555 0.87 +0.7

Or see this region's nucleotide sequence