Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS12810

Experiment: Xylan from corn core 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_RS12815 and HMPREF1058_RS12810 are separated by 95 nucleotidesHMPREF1058_RS12810 and HMPREF1058_RS12805 are separated by 80 nucleotidesHMPREF1058_RS12805 and HMPREF1058_RS12800 are separated by 168 nucleotides HMPREF1058_RS12815: HMPREF1058_RS12815 - sodium-dependent transporter, at 25,180 to 26,544 _RS12815 HMPREF1058_RS12810: HMPREF1058_RS12810 - VanZ family protein, at 26,640 to 27,026 _RS12810 HMPREF1058_RS12805: HMPREF1058_RS12805 - RNA polymerase sigma factor, at 27,107 to 27,610 _RS12805 HMPREF1058_RS12800: HMPREF1058_RS12800 - TonB-dependent receptor, at 27,779 to 30,253 _RS12800 Position (kb) 26 27 28Strain fitness (log2 ratio) -2 -1 0 1at 25.832 kb on + strand, within HMPREF1058_RS12815at 25.994 kb on - strand, within HMPREF1058_RS12815at 25.999 kb on + strand, within HMPREF1058_RS12815at 26.197 kb on + strand, within HMPREF1058_RS12815at 26.198 kb on - strand, within HMPREF1058_RS12815at 26.198 kb on - strand, within HMPREF1058_RS12815at 26.199 kb on + strand, within HMPREF1058_RS12815at 26.200 kb on - strand, within HMPREF1058_RS12815at 26.200 kb on - strand, within HMPREF1058_RS12815at 26.239 kb on + strand, within HMPREF1058_RS12815at 26.240 kb on - strand, within HMPREF1058_RS12815at 26.271 kb on - strand, within HMPREF1058_RS12815at 26.325 kb on + strand, within HMPREF1058_RS12815at 26.367 kb on + strand, within HMPREF1058_RS12815at 26.407 kb on + strand, within HMPREF1058_RS12815at 26.413 kb on - strandat 26.413 kb on - strandat 26.413 kb on - strandat 26.458 kb on + strandat 26.458 kb on + strandat 26.458 kb on + strandat 26.460 kb on + strandat 26.461 kb on - strandat 26.640 kb on - strandat 26.645 kb on - strandat 26.646 kb on + strandat 26.655 kb on - strandat 26.688 kb on - strand, within HMPREF1058_RS12810at 26.745 kb on + strand, within HMPREF1058_RS12810at 26.766 kb on - strand, within HMPREF1058_RS12810at 26.767 kb on + strand, within HMPREF1058_RS12810at 26.767 kb on + strand, within HMPREF1058_RS12810at 26.767 kb on + strand, within HMPREF1058_RS12810at 26.767 kb on + strand, within HMPREF1058_RS12810at 26.767 kb on + strand, within HMPREF1058_RS12810at 26.767 kb on + strand, within HMPREF1058_RS12810at 26.767 kb on + strand, within HMPREF1058_RS12810at 26.767 kb on + strand, within HMPREF1058_RS12810at 26.768 kb on - strand, within HMPREF1058_RS12810at 26.768 kb on - strand, within HMPREF1058_RS12810at 26.775 kb on + strand, within HMPREF1058_RS12810at 26.804 kb on - strand, within HMPREF1058_RS12810at 26.845 kb on + strand, within HMPREF1058_RS12810at 26.846 kb on - strand, within HMPREF1058_RS12810at 26.863 kb on + strand, within HMPREF1058_RS12810at 26.864 kb on - strand, within HMPREF1058_RS12810at 26.876 kb on + strand, within HMPREF1058_RS12810at 26.877 kb on - strand, within HMPREF1058_RS12810at 26.907 kb on + strand, within HMPREF1058_RS12810at 26.981 kb on - strand, within HMPREF1058_RS12810at 26.989 kb on - strandat 26.991 kb on + strandat 26.992 kb on - strandat 26.995 kb on + strandat 26.995 kb on + strandat 27.009 kb on - strandat 27.010 kb on + strandat 27.011 kb on - strandat 27.011 kb on - strandat 27.018 kb on - strandat 27.082 kb on + strandat 27.084 kb on + strandat 27.089 kb on + strandat 27.108 kb on + strandat 27.109 kb on - strandat 27.208 kb on + strand, within HMPREF1058_RS12805at 27.224 kb on + strand, within HMPREF1058_RS12805at 27.224 kb on + strand, within HMPREF1058_RS12805at 27.228 kb on + strand, within HMPREF1058_RS12805at 27.228 kb on + strand, within HMPREF1058_RS12805at 27.228 kb on + strand, within HMPREF1058_RS12805at 27.228 kb on + strand, within HMPREF1058_RS12805at 27.228 kb on + strand, within HMPREF1058_RS12805at 27.228 kb on + strand, within HMPREF1058_RS12805at 27.228 kb on + strand, within HMPREF1058_RS12805at 27.229 kb on - strand, within HMPREF1058_RS12805at 27.229 kb on - strand, within HMPREF1058_RS12805at 27.229 kb on - strand, within HMPREF1058_RS12805at 27.232 kb on + strand, within HMPREF1058_RS12805at 27.232 kb on + strand, within HMPREF1058_RS12805at 27.233 kb on - strand, within HMPREF1058_RS12805at 27.282 kb on - strand, within HMPREF1058_RS12805at 27.409 kb on + strand, within HMPREF1058_RS12805at 27.410 kb on - strand, within HMPREF1058_RS12805at 27.490 kb on + strand, within HMPREF1058_RS12805at 27.574 kb on + strandat 27.578 kb on + strandat 27.579 kb on - strandat 27.582 kb on - strandat 27.592 kb on + strandat 27.613 kb on + strandat 27.614 kb on - strandat 27.614 kb on - strandat 27.714 kb on + strandat 27.715 kb on - strandat 27.727 kb on - strandat 27.901 kb on + strandat 27.987 kb on + strandat 28.022 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Xylan from corn core 2.5 mg/ml (C)
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25,832 + HMPREF1058_RS12815 0.48 +1.4
25,994 - HMPREF1058_RS12815 0.60 -0.2
25,999 + HMPREF1058_RS12815 0.60 +0.0
26,197 + HMPREF1058_RS12815 0.75 +0.3
26,198 - HMPREF1058_RS12815 0.75 -0.1
26,198 - HMPREF1058_RS12815 0.75 -1.1
26,199 + HMPREF1058_RS12815 0.75 +0.6
26,200 - HMPREF1058_RS12815 0.75 -0.6
26,200 - HMPREF1058_RS12815 0.75 +0.2
26,239 + HMPREF1058_RS12815 0.78 +0.1
26,240 - HMPREF1058_RS12815 0.78 -0.2
26,271 - HMPREF1058_RS12815 0.80 +0.4
26,325 + HMPREF1058_RS12815 0.84 +0.2
26,367 + HMPREF1058_RS12815 0.87 +1.2
26,407 + HMPREF1058_RS12815 0.90 +0.5
26,413 - +0.7
26,413 - +0.8
26,413 - +0.9
26,458 + -0.6
26,458 + +0.5
26,458 + +1.3
26,460 + +0.8
26,461 - +0.1
26,640 - +0.4
26,645 - +0.1
26,646 + +0.4
26,655 - -0.1
26,688 - HMPREF1058_RS12810 0.12 +0.5
26,745 + HMPREF1058_RS12810 0.27 -0.0
26,766 - HMPREF1058_RS12810 0.33 +1.3
26,767 + HMPREF1058_RS12810 0.33 +1.1
26,767 + HMPREF1058_RS12810 0.33 +0.5
26,767 + HMPREF1058_RS12810 0.33 +0.5
26,767 + HMPREF1058_RS12810 0.33 -0.4
26,767 + HMPREF1058_RS12810 0.33 +0.2
26,767 + HMPREF1058_RS12810 0.33 +0.3
26,767 + HMPREF1058_RS12810 0.33 +0.2
26,767 + HMPREF1058_RS12810 0.33 +0.6
26,768 - HMPREF1058_RS12810 0.33 +0.9
26,768 - HMPREF1058_RS12810 0.33 +0.5
26,775 + HMPREF1058_RS12810 0.35 +0.5
26,804 - HMPREF1058_RS12810 0.42 +1.0
26,845 + HMPREF1058_RS12810 0.53 -0.5
26,846 - HMPREF1058_RS12810 0.53 -0.1
26,863 + HMPREF1058_RS12810 0.58 +1.4
26,864 - HMPREF1058_RS12810 0.58 +0.7
26,876 + HMPREF1058_RS12810 0.61 -0.1
26,877 - HMPREF1058_RS12810 0.61 +0.8
26,907 + HMPREF1058_RS12810 0.69 -0.3
26,981 - HMPREF1058_RS12810 0.88 +0.1
26,989 - +0.9
26,991 + +0.6
26,992 - -0.3
26,995 + +0.9
26,995 + +0.0
27,009 - -0.7
27,010 + +0.2
27,011 - +0.0
27,011 - +0.1
27,018 - +0.5
27,082 + +0.9
27,084 + -0.2
27,089 + +0.0
27,108 + -1.4
27,109 - -0.4
27,208 + HMPREF1058_RS12805 0.20 -0.5
27,224 + HMPREF1058_RS12805 0.23 -1.1
27,224 + HMPREF1058_RS12805 0.23 -1.8
27,228 + HMPREF1058_RS12805 0.24 +0.4
27,228 + HMPREF1058_RS12805 0.24 -0.2
27,228 + HMPREF1058_RS12805 0.24 -0.3
27,228 + HMPREF1058_RS12805 0.24 -0.7
27,228 + HMPREF1058_RS12805 0.24 +0.6
27,228 + HMPREF1058_RS12805 0.24 +0.4
27,228 + HMPREF1058_RS12805 0.24 +1.0
27,229 - HMPREF1058_RS12805 0.24 -0.6
27,229 - HMPREF1058_RS12805 0.24 -0.0
27,229 - HMPREF1058_RS12805 0.24 +0.2
27,232 + HMPREF1058_RS12805 0.25 +0.9
27,232 + HMPREF1058_RS12805 0.25 -1.1
27,233 - HMPREF1058_RS12805 0.25 -0.6
27,282 - HMPREF1058_RS12805 0.35 -0.4
27,409 + HMPREF1058_RS12805 0.60 -0.9
27,410 - HMPREF1058_RS12805 0.60 +0.4
27,490 + HMPREF1058_RS12805 0.76 -1.3
27,574 + +0.2
27,578 + -2.0
27,579 - -0.2
27,582 - -1.1
27,592 + -0.2
27,613 + -0.4
27,614 - +0.7
27,614 - -0.1
27,714 + +0.6
27,715 - +1.0
27,727 - +0.1
27,901 + -0.1
27,987 + +0.2
28,022 - +0.6

Or see this region's nucleotide sequence