Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS11920

Experiment: Rhamnogalacturonan from soy bean pectic fibre 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_RS11930 and HMPREF1058_RS11925 are separated by 8 nucleotidesHMPREF1058_RS11925 and HMPREF1058_RS11920 are separated by 16 nucleotidesHMPREF1058_RS11920 and HMPREF1058_RS11915 are separated by 271 nucleotidesHMPREF1058_RS11915 and HMPREF1058_RS11910 are separated by 261 nucleotides HMPREF1058_RS11930: HMPREF1058_RS11930 - CPBP family intramembrane metalloprotease, at 242,333 to 243,163 _RS11930 HMPREF1058_RS11925: HMPREF1058_RS11925 - DUF2975 domain-containing protein, at 243,172 to 243,801 _RS11925 HMPREF1058_RS11920: HMPREF1058_RS11920 - DUF2975 domain-containing protein, at 243,818 to 244,465 _RS11920 HMPREF1058_RS11915: HMPREF1058_RS11915 - helix-turn-helix transcriptional regulator, at 244,737 to 244,949 _RS11915 HMPREF1058_RS11910: HMPREF1058_RS11910 - DEAD/DEAH box helicase, at 245,211 to 247,085 _RS11910 Position (kb) 243 244 245Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 242.874 kb on + strand, within HMPREF1058_RS11930at 242.875 kb on - strand, within HMPREF1058_RS11930at 242.916 kb on - strand, within HMPREF1058_RS11930at 242.936 kb on - strand, within HMPREF1058_RS11930at 242.961 kb on + strand, within HMPREF1058_RS11930at 242.966 kb on - strand, within HMPREF1058_RS11930at 242.993 kb on - strand, within HMPREF1058_RS11930at 243.053 kb on + strand, within HMPREF1058_RS11930at 243.096 kb on - strandat 243.096 kb on - strandat 243.096 kb on - strandat 243.161 kb on + strandat 243.161 kb on + strandat 243.162 kb on - strandat 243.165 kb on + strandat 243.165 kb on + strandat 243.166 kb on - strandat 243.166 kb on - strandat 243.166 kb on - strandat 243.168 kb on - strandat 243.229 kb on - strandat 243.229 kb on - strandat 243.232 kb on + strandat 243.232 kb on + strandat 243.233 kb on - strandat 243.372 kb on - strand, within HMPREF1058_RS11925at 243.394 kb on + strand, within HMPREF1058_RS11925at 243.409 kb on - strand, within HMPREF1058_RS11925at 243.612 kb on + strand, within HMPREF1058_RS11925at 243.853 kb on + strandat 243.856 kb on - strandat 243.931 kb on + strand, within HMPREF1058_RS11920at 243.932 kb on - strand, within HMPREF1058_RS11920at 243.932 kb on - strand, within HMPREF1058_RS11920at 243.948 kb on + strand, within HMPREF1058_RS11920at 243.949 kb on - strand, within HMPREF1058_RS11920at 243.949 kb on - strand, within HMPREF1058_RS11920at 243.950 kb on + strand, within HMPREF1058_RS11920at 243.970 kb on + strand, within HMPREF1058_RS11920at 243.970 kb on + strand, within HMPREF1058_RS11920at 244.025 kb on - strand, within HMPREF1058_RS11920at 244.071 kb on - strand, within HMPREF1058_RS11920at 244.087 kb on - strand, within HMPREF1058_RS11920at 244.215 kb on + strand, within HMPREF1058_RS11920at 244.220 kb on - strand, within HMPREF1058_RS11920at 244.220 kb on - strand, within HMPREF1058_RS11920at 244.257 kb on - strand, within HMPREF1058_RS11920at 244.257 kb on - strand, within HMPREF1058_RS11920at 244.257 kb on - strand, within HMPREF1058_RS11920at 244.285 kb on - strandat 244.358 kb on + strand, within HMPREF1058_RS11920at 244.359 kb on - strand, within HMPREF1058_RS11920at 244.544 kb on + strandat 244.556 kb on - strandat 244.569 kb on + strandat 244.607 kb on - strandat 244.651 kb on - strandat 244.661 kb on + strandat 244.661 kb on + strandat 244.746 kb on - strandat 244.762 kb on + strand, within HMPREF1058_RS11915at 244.901 kb on - strand, within HMPREF1058_RS11915at 244.950 kb on + strandat 244.950 kb on + strandat 244.966 kb on + strandat 244.966 kb on + strandat 244.966 kb on + strandat 244.966 kb on + strandat 244.967 kb on - strandat 244.967 kb on - strandat 244.967 kb on - strandat 244.996 kb on + strandat 245.042 kb on + strandat 245.064 kb on + strandat 245.067 kb on - strandat 245.121 kb on + strandat 245.159 kb on - strandat 245.159 kb on - strandat 245.161 kb on - strandat 245.252 kb on - strandat 245.275 kb on - strandat 245.305 kb on + strandat 245.314 kb on - strandat 245.338 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Rhamnogalacturonan from soy bean pectic fibre 5 mg/ml (C)
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242,874 + HMPREF1058_RS11930 0.65 +0.1
242,875 - HMPREF1058_RS11930 0.65 -2.3
242,916 - HMPREF1058_RS11930 0.70 -2.0
242,936 - HMPREF1058_RS11930 0.73 +0.4
242,961 + HMPREF1058_RS11930 0.76 -0.4
242,966 - HMPREF1058_RS11930 0.76 +0.1
242,993 - HMPREF1058_RS11930 0.79 -2.3
243,053 + HMPREF1058_RS11930 0.87 +0.4
243,096 - +0.1
243,096 - +0.5
243,096 - -1.1
243,161 + -0.6
243,161 + -3.6
243,162 - -0.6
243,165 + -0.6
243,165 + -1.4
243,166 - -2.5
243,166 - -0.2
243,166 - +0.0
243,168 - -0.8
243,229 - -0.7
243,229 - -0.1
243,232 + -3.2
243,232 + +0.6
243,233 - -2.4
243,372 - HMPREF1058_RS11925 0.32 -1.2
243,394 + HMPREF1058_RS11925 0.35 -0.2
243,409 - HMPREF1058_RS11925 0.38 -1.0
243,612 + HMPREF1058_RS11925 0.70 -3.5
243,853 + -1.5
243,856 - -2.5
243,931 + HMPREF1058_RS11920 0.17 -0.9
243,932 - HMPREF1058_RS11920 0.18 -2.0
243,932 - HMPREF1058_RS11920 0.18 -1.7
243,948 + HMPREF1058_RS11920 0.20 -2.5
243,949 - HMPREF1058_RS11920 0.20 -0.9
243,949 - HMPREF1058_RS11920 0.20 -0.9
243,950 + HMPREF1058_RS11920 0.20 +0.4
243,970 + HMPREF1058_RS11920 0.23 +1.4
243,970 + HMPREF1058_RS11920 0.23 -2.2
244,025 - HMPREF1058_RS11920 0.32 +0.6
244,071 - HMPREF1058_RS11920 0.39 -0.8
244,087 - HMPREF1058_RS11920 0.42 -2.9
244,215 + HMPREF1058_RS11920 0.61 -1.8
244,220 - HMPREF1058_RS11920 0.62 -2.3
244,220 - HMPREF1058_RS11920 0.62 +0.1
244,257 - HMPREF1058_RS11920 0.68 -1.9
244,257 - HMPREF1058_RS11920 0.68 -3.4
244,257 - HMPREF1058_RS11920 0.68 -1.5
244,285 - +0.1
244,358 + HMPREF1058_RS11920 0.83 -2.2
244,359 - HMPREF1058_RS11920 0.83 -2.1
244,544 + -2.3
244,556 - -0.9
244,569 + -2.5
244,607 - -2.8
244,651 - -2.1
244,661 + -1.5
244,661 + -1.9
244,746 - -1.8
244,762 + HMPREF1058_RS11915 0.12 +0.4
244,901 - HMPREF1058_RS11915 0.77 -0.6
244,950 + -0.1
244,950 + -0.8
244,966 + -1.1
244,966 + -0.4
244,966 + -0.7
244,966 + +0.5
244,967 - +0.5
244,967 - +0.6
244,967 - +0.3
244,996 + +3.4
245,042 + -0.2
245,064 + +0.3
245,067 - -0.2
245,121 + -1.0
245,159 - +0.8
245,159 - +0.8
245,161 - +1.2
245,252 - -0.5
245,275 - -1.6
245,305 + +0.7
245,314 - -1.0
245,338 + -2.3

Or see this region's nucleotide sequence