Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS04035

Experiment: Lacto-N-tetraose 10 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_RS04045 and HMPREF1058_RS04040 are separated by 10 nucleotidesHMPREF1058_RS04040 and HMPREF1058_RS04035 are separated by 129 nucleotidesHMPREF1058_RS04035 and HMPREF1058_RS04030 are separated by 75 nucleotides HMPREF1058_RS04045: HMPREF1058_RS04045 - tetratricopeptide repeat protein, at 127,878 to 128,696 _RS04045 HMPREF1058_RS04040: HMPREF1058_RS04040 - phosphatase PAP2 family protein, at 128,707 to 129,414 _RS04040 HMPREF1058_RS04035: HMPREF1058_RS04035 - hypothetical protein, at 129,544 to 129,813 _RS04035 HMPREF1058_RS04030: HMPREF1058_RS04030 - universal stress protein, at 129,889 to 131,016 _RS04030 Position (kb) 129 130Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 128.573 kb on - strand, within HMPREF1058_RS04045at 128.573 kb on - strand, within HMPREF1058_RS04045at 128.713 kb on - strandat 128.714 kb on + strandat 128.715 kb on - strandat 128.723 kb on - strandat 128.723 kb on - strandat 128.723 kb on - strandat 128.723 kb on - strandat 128.726 kb on + strandat 128.809 kb on - strand, within HMPREF1058_RS04040at 128.836 kb on - strand, within HMPREF1058_RS04040at 128.843 kb on + strand, within HMPREF1058_RS04040at 128.846 kb on - strandat 128.848 kb on - strand, within HMPREF1058_RS04040at 128.919 kb on - strand, within HMPREF1058_RS04040at 128.988 kb on + strand, within HMPREF1058_RS04040at 128.988 kb on + strand, within HMPREF1058_RS04040at 128.992 kb on - strand, within HMPREF1058_RS04040at 128.995 kb on + strand, within HMPREF1058_RS04040at 128.995 kb on + strand, within HMPREF1058_RS04040at 128.997 kb on + strand, within HMPREF1058_RS04040at 128.998 kb on - strand, within HMPREF1058_RS04040at 129.073 kb on - strand, within HMPREF1058_RS04040at 129.167 kb on + strand, within HMPREF1058_RS04040at 129.206 kb on + strand, within HMPREF1058_RS04040at 129.206 kb on + strand, within HMPREF1058_RS04040at 129.207 kb on - strand, within HMPREF1058_RS04040at 129.221 kb on + strand, within HMPREF1058_RS04040at 129.247 kb on - strand, within HMPREF1058_RS04040at 129.298 kb on + strand, within HMPREF1058_RS04040at 129.330 kb on + strand, within HMPREF1058_RS04040at 129.345 kb on - strandat 129.362 kb on - strandat 129.373 kb on - strandat 129.399 kb on + strandat 129.433 kb on + strandat 129.443 kb on + strandat 129.444 kb on - strandat 129.555 kb on - strandat 129.555 kb on - strandat 129.555 kb on - strandat 129.631 kb on - strand, within HMPREF1058_RS04035at 129.648 kb on - strand, within HMPREF1058_RS04035at 129.648 kb on - strand, within HMPREF1058_RS04035at 129.652 kb on - strand, within HMPREF1058_RS04035at 129.728 kb on + strand, within HMPREF1058_RS04035at 129.732 kb on - strand, within HMPREF1058_RS04035at 129.816 kb on + strandat 129.897 kb on + strandat 129.925 kb on + strandat 129.931 kb on - strandat 129.944 kb on + strandat 129.979 kb on + strandat 129.980 kb on - strandat 130.101 kb on + strand, within HMPREF1058_RS04030at 130.104 kb on - strand, within HMPREF1058_RS04030at 130.114 kb on - strand, within HMPREF1058_RS04030at 130.158 kb on + strand, within HMPREF1058_RS04030at 130.227 kb on + strand, within HMPREF1058_RS04030at 130.247 kb on + strand, within HMPREF1058_RS04030at 130.247 kb on + strand, within HMPREF1058_RS04030at 130.248 kb on - strand, within HMPREF1058_RS04030at 130.266 kb on + strand, within HMPREF1058_RS04030at 130.266 kb on + strand, within HMPREF1058_RS04030at 130.271 kb on - strand, within HMPREF1058_RS04030at 130.271 kb on - strand, within HMPREF1058_RS04030at 130.341 kb on + strand, within HMPREF1058_RS04030at 130.347 kb on - strandat 130.384 kb on - strand, within HMPREF1058_RS04030at 130.425 kb on - strand, within HMPREF1058_RS04030at 130.429 kb on + strand, within HMPREF1058_RS04030at 130.431 kb on + strand, within HMPREF1058_RS04030at 130.432 kb on - strand, within HMPREF1058_RS04030at 130.438 kb on - strand, within HMPREF1058_RS04030at 130.482 kb on + strand, within HMPREF1058_RS04030at 130.502 kb on + strand, within HMPREF1058_RS04030at 130.502 kb on + strand, within HMPREF1058_RS04030at 130.541 kb on + strand, within HMPREF1058_RS04030at 130.595 kb on + strand, within HMPREF1058_RS04030at 130.595 kb on + strand, within HMPREF1058_RS04030at 130.595 kb on + strand, within HMPREF1058_RS04030at 130.596 kb on - strand, within HMPREF1058_RS04030at 130.596 kb on - strand, within HMPREF1058_RS04030at 130.597 kb on + strand, within HMPREF1058_RS04030at 130.598 kb on - strand, within HMPREF1058_RS04030at 130.614 kb on + strand, within HMPREF1058_RS04030at 130.614 kb on + strand, within HMPREF1058_RS04030at 130.614 kb on + strand, within HMPREF1058_RS04030at 130.614 kb on + strand, within HMPREF1058_RS04030at 130.615 kb on - strand, within HMPREF1058_RS04030at 130.615 kb on - strand, within HMPREF1058_RS04030at 130.615 kb on - strand, within HMPREF1058_RS04030at 130.615 kb on - strand, within HMPREF1058_RS04030at 130.683 kb on - strand, within HMPREF1058_RS04030at 130.683 kb on - strand, within HMPREF1058_RS04030at 130.703 kb on + strand, within HMPREF1058_RS04030at 130.748 kb on + strand, within HMPREF1058_RS04030at 130.801 kb on + strand, within HMPREF1058_RS04030at 130.801 kb on + strand, within HMPREF1058_RS04030

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Per-strain Table

Position Strand Gene LocusTag Fraction Lacto-N-tetraose 10 mg/mL (C)
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128,573 - HMPREF1058_RS04045 0.85 +0.2
128,573 - HMPREF1058_RS04045 0.85 +0.4
128,713 - +1.4
128,714 + -0.2
128,715 - -0.8
128,723 - +0.3
128,723 - -0.2
128,723 - +0.2
128,723 - +0.5
128,726 + -1.5
128,809 - HMPREF1058_RS04040 0.14 -1.1
128,836 - HMPREF1058_RS04040 0.18 -1.1
128,843 + HMPREF1058_RS04040 0.19 -1.1
128,846 - +1.1
128,848 - HMPREF1058_RS04040 0.20 -1.1
128,919 - HMPREF1058_RS04040 0.30 +2.2
128,988 + HMPREF1058_RS04040 0.40 +0.5
128,988 + HMPREF1058_RS04040 0.40 -0.4
128,992 - HMPREF1058_RS04040 0.40 +0.2
128,995 + HMPREF1058_RS04040 0.41 -0.3
128,995 + HMPREF1058_RS04040 0.41 -1.9
128,997 + HMPREF1058_RS04040 0.41 +0.9
128,998 - HMPREF1058_RS04040 0.41 -0.4
129,073 - HMPREF1058_RS04040 0.52 +0.8
129,167 + HMPREF1058_RS04040 0.65 -0.7
129,206 + HMPREF1058_RS04040 0.70 -0.9
129,206 + HMPREF1058_RS04040 0.70 +0.2
129,207 - HMPREF1058_RS04040 0.71 -0.9
129,221 + HMPREF1058_RS04040 0.73 +1.9
129,247 - HMPREF1058_RS04040 0.76 +2.2
129,298 + HMPREF1058_RS04040 0.83 -0.8
129,330 + HMPREF1058_RS04040 0.88 -1.2
129,345 - -0.5
129,362 - +0.2
129,373 - -3.2
129,399 + +1.2
129,433 + -0.2
129,443 + +0.0
129,444 - +3.2
129,555 - -1.6
129,555 - -0.4
129,555 - +0.0
129,631 - HMPREF1058_RS04035 0.32 +0.5
129,648 - HMPREF1058_RS04035 0.39 +0.1
129,648 - HMPREF1058_RS04035 0.39 -0.3
129,652 - HMPREF1058_RS04035 0.40 -0.8
129,728 + HMPREF1058_RS04035 0.68 -0.8
129,732 - HMPREF1058_RS04035 0.70 -0.8
129,816 + +0.2
129,897 + -0.9
129,925 + -0.1
129,931 - +0.4
129,944 + -2.1
129,979 + -0.9
129,980 - -3.0
130,101 + HMPREF1058_RS04030 0.19 -1.5
130,104 - HMPREF1058_RS04030 0.19 -1.1
130,114 - HMPREF1058_RS04030 0.20 +0.7
130,158 + HMPREF1058_RS04030 0.24 -1.1
130,227 + HMPREF1058_RS04030 0.30 -1.1
130,247 + HMPREF1058_RS04030 0.32 +0.8
130,247 + HMPREF1058_RS04030 0.32 +0.2
130,248 - HMPREF1058_RS04030 0.32 -1.0
130,266 + HMPREF1058_RS04030 0.33 -0.4
130,266 + HMPREF1058_RS04030 0.33 -0.6
130,271 - HMPREF1058_RS04030 0.34 -0.4
130,271 - HMPREF1058_RS04030 0.34 +0.5
130,341 + HMPREF1058_RS04030 0.40 +0.5
130,347 - +1.2
130,384 - HMPREF1058_RS04030 0.44 -0.0
130,425 - HMPREF1058_RS04030 0.48 +1.2
130,429 + HMPREF1058_RS04030 0.48 -1.0
130,431 + HMPREF1058_RS04030 0.48 -0.6
130,432 - HMPREF1058_RS04030 0.48 -1.0
130,438 - HMPREF1058_RS04030 0.49 +0.9
130,482 + HMPREF1058_RS04030 0.53 -0.8
130,502 + HMPREF1058_RS04030 0.54 -1.3
130,502 + HMPREF1058_RS04030 0.54 -0.9
130,541 + HMPREF1058_RS04030 0.58 +0.2
130,595 + HMPREF1058_RS04030 0.63 -1.5
130,595 + HMPREF1058_RS04030 0.63 -3.0
130,595 + HMPREF1058_RS04030 0.63 +0.0
130,596 - HMPREF1058_RS04030 0.63 +0.1
130,596 - HMPREF1058_RS04030 0.63 -0.3
130,597 + HMPREF1058_RS04030 0.63 -0.1
130,598 - HMPREF1058_RS04030 0.63 -1.9
130,614 + HMPREF1058_RS04030 0.64 -2.0
130,614 + HMPREF1058_RS04030 0.64 -1.9
130,614 + HMPREF1058_RS04030 0.64 -0.3
130,614 + HMPREF1058_RS04030 0.64 -0.6
130,615 - HMPREF1058_RS04030 0.64 +0.8
130,615 - HMPREF1058_RS04030 0.64 -1.0
130,615 - HMPREF1058_RS04030 0.64 -1.0
130,615 - HMPREF1058_RS04030 0.64 -2.1
130,683 - HMPREF1058_RS04030 0.70 +0.1
130,683 - HMPREF1058_RS04030 0.70 -0.5
130,703 + HMPREF1058_RS04030 0.72 -2.3
130,748 + HMPREF1058_RS04030 0.76 -0.4
130,801 + HMPREF1058_RS04030 0.81 -0.5
130,801 + HMPREF1058_RS04030 0.81 -2.9

Or see this region's nucleotide sequence