Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS16950

Experiment: Yacontrol (Yacon root syrup) 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_RS16960 and HMPREF1058_RS16955 are separated by 249 nucleotidesHMPREF1058_RS16955 and HMPREF1058_RS16950 are separated by 70 nucleotidesHMPREF1058_RS16950 and HMPREF1058_RS16945 are separated by 33 nucleotidesHMPREF1058_RS16945 and HMPREF1058_RS16940 are separated by 44 nucleotides HMPREF1058_RS16960: HMPREF1058_RS16960 - 30S ribosomal protein S1, at 550,909 to 552,705 _RS16960 HMPREF1058_RS16955: HMPREF1058_RS16955 - cold shock domain-containing protein, at 552,955 to 553,401 _RS16955 HMPREF1058_RS16950: HMPREF1058_RS16950 - ribonuclease Z, at 553,472 to 554,401 _RS16950 HMPREF1058_RS16945: HMPREF1058_RS16945 - RNA polymerase sigma factor, at 554,435 to 554,986 _RS16945 HMPREF1058_RS16940: HMPREF1058_RS16940 - hypothetical protein, at 555,031 to 555,408 _RS16940 Position (kb) 553 554 555Strain fitness (log2 ratio) -2 -1 0 1 2at 552.717 kb on + strandat 552.791 kb on - strandat 552.810 kb on + strandat 552.883 kb on + strandat 552.884 kb on - strandat 552.892 kb on - strandat 552.894 kb on + strandat 552.902 kb on + strandat 552.929 kb on + strandat 552.930 kb on - strandat 552.937 kb on + strandat 552.938 kb on - strandat 552.966 kb on + strandat 552.989 kb on + strandat 553.074 kb on + strand, within HMPREF1058_RS16955at 553.088 kb on + strand, within HMPREF1058_RS16955at 553.088 kb on + strand, within HMPREF1058_RS16955at 553.089 kb on - strand, within HMPREF1058_RS16955at 553.131 kb on + strand, within HMPREF1058_RS16955at 553.132 kb on - strand, within HMPREF1058_RS16955at 553.152 kb on + strand, within HMPREF1058_RS16955at 553.182 kb on + strand, within HMPREF1058_RS16955at 553.205 kb on + strand, within HMPREF1058_RS16955at 553.223 kb on + strand, within HMPREF1058_RS16955at 553.223 kb on + strand, within HMPREF1058_RS16955at 553.224 kb on - strand, within HMPREF1058_RS16955at 553.224 kb on - strand, within HMPREF1058_RS16955at 553.286 kb on - strand, within HMPREF1058_RS16955at 553.322 kb on + strand, within HMPREF1058_RS16955at 553.385 kb on + strandat 553.411 kb on - strandat 553.488 kb on + strandat 553.489 kb on - strandat 553.489 kb on - strandat 553.492 kb on + strandat 553.493 kb on - strandat 553.493 kb on - strandat 553.497 kb on + strandat 553.497 kb on + strandat 553.497 kb on + strandat 553.498 kb on - strandat 553.556 kb on - strandat 553.645 kb on + strand, within HMPREF1058_RS16950at 553.647 kb on + strand, within HMPREF1058_RS16950at 553.647 kb on + strand, within HMPREF1058_RS16950at 553.648 kb on - strand, within HMPREF1058_RS16950at 553.736 kb on + strand, within HMPREF1058_RS16950at 553.736 kb on + strand, within HMPREF1058_RS16950at 553.739 kb on - strand, within HMPREF1058_RS16950at 553.758 kb on + strand, within HMPREF1058_RS16950at 553.759 kb on - strand, within HMPREF1058_RS16950at 553.772 kb on - strand, within HMPREF1058_RS16950at 553.772 kb on - strand, within HMPREF1058_RS16950at 553.801 kb on + strand, within HMPREF1058_RS16950at 553.809 kb on - strand, within HMPREF1058_RS16950at 553.851 kb on + strand, within HMPREF1058_RS16950at 553.857 kb on - strand, within HMPREF1058_RS16950at 553.857 kb on - strand, within HMPREF1058_RS16950at 553.893 kb on + strand, within HMPREF1058_RS16950at 553.951 kb on + strand, within HMPREF1058_RS16950at 554.049 kb on + strand, within HMPREF1058_RS16950at 554.099 kb on + strand, within HMPREF1058_RS16950at 554.099 kb on + strand, within HMPREF1058_RS16950at 554.111 kb on - strand, within HMPREF1058_RS16950at 554.111 kb on - strand, within HMPREF1058_RS16950at 554.113 kb on + strand, within HMPREF1058_RS16950at 554.114 kb on - strand, within HMPREF1058_RS16950at 554.118 kb on - strand, within HMPREF1058_RS16950at 554.142 kb on + strand, within HMPREF1058_RS16950at 554.145 kb on - strand, within HMPREF1058_RS16950at 554.262 kb on + strand, within HMPREF1058_RS16950at 554.319 kb on + strandat 554.352 kb on + strandat 554.400 kb on - strandat 554.404 kb on + strandat 554.417 kb on + strandat 554.418 kb on - strandat 554.445 kb on - strandat 554.461 kb on - strandat 554.535 kb on + strand, within HMPREF1058_RS16945at 554.535 kb on + strand, within HMPREF1058_RS16945at 554.535 kb on + strand, within HMPREF1058_RS16945at 554.548 kb on - strand, within HMPREF1058_RS16945at 554.548 kb on - strand, within HMPREF1058_RS16945at 554.623 kb on - strand, within HMPREF1058_RS16945at 554.670 kb on + strand, within HMPREF1058_RS16945at 554.777 kb on + strand, within HMPREF1058_RS16945at 554.777 kb on + strand, within HMPREF1058_RS16945at 554.845 kb on + strand, within HMPREF1058_RS16945at 554.846 kb on - strand, within HMPREF1058_RS16945at 554.847 kb on + strand, within HMPREF1058_RS16945at 554.848 kb on - strand, within HMPREF1058_RS16945at 554.865 kb on - strand, within HMPREF1058_RS16945at 554.883 kb on - strand, within HMPREF1058_RS16945at 554.914 kb on + strand, within HMPREF1058_RS16945at 555.129 kb on + strand, within HMPREF1058_RS16940at 555.130 kb on - strand, within HMPREF1058_RS16940at 555.173 kb on + strand, within HMPREF1058_RS16940at 555.178 kb on - strand, within HMPREF1058_RS16940at 555.190 kb on - strand, within HMPREF1058_RS16940at 555.205 kb on + strand, within HMPREF1058_RS16940at 555.205 kb on + strand, within HMPREF1058_RS16940at 555.205 kb on + strand, within HMPREF1058_RS16940at 555.206 kb on - strand, within HMPREF1058_RS16940at 555.206 kb on - strand, within HMPREF1058_RS16940at 555.207 kb on + strand, within HMPREF1058_RS16940at 555.207 kb on + strand, within HMPREF1058_RS16940at 555.207 kb on + strand, within HMPREF1058_RS16940at 555.208 kb on - strand, within HMPREF1058_RS16940at 555.208 kb on - strand, within HMPREF1058_RS16940at 555.208 kb on - strand, within HMPREF1058_RS16940at 555.216 kb on + strand, within HMPREF1058_RS16940at 555.254 kb on + strand, within HMPREF1058_RS16940at 555.254 kb on + strand, within HMPREF1058_RS16940at 555.254 kb on + strand, within HMPREF1058_RS16940at 555.255 kb on - strand, within HMPREF1058_RS16940at 555.255 kb on - strand, within HMPREF1058_RS16940at 555.255 kb on - strandat 555.319 kb on + strand, within HMPREF1058_RS16940at 555.320 kb on - strand, within HMPREF1058_RS16940at 555.321 kb on + strand, within HMPREF1058_RS16940at 555.360 kb on + strand, within HMPREF1058_RS16940at 555.396 kb on + strandat 555.401 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Yacontrol (Yacon root syrup) 10 mg/mL (C)
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552,717 + -0.7
552,791 - -1.9
552,810 + -1.4
552,883 + +0.7
552,884 - +0.6
552,892 - -0.3
552,894 + -0.1
552,902 + -0.4
552,929 + -0.7
552,930 - +1.2
552,937 + -0.8
552,938 - -0.1
552,966 + +0.4
552,989 + -0.8
553,074 + HMPREF1058_RS16955 0.27 -2.4
553,088 + HMPREF1058_RS16955 0.30 -0.3
553,088 + HMPREF1058_RS16955 0.30 +2.4
553,089 - HMPREF1058_RS16955 0.30 -2.0
553,131 + HMPREF1058_RS16955 0.39 -0.0
553,132 - HMPREF1058_RS16955 0.40 +0.4
553,152 + HMPREF1058_RS16955 0.44 -0.8
553,182 + HMPREF1058_RS16955 0.51 +2.4
553,205 + HMPREF1058_RS16955 0.56 -1.1
553,223 + HMPREF1058_RS16955 0.60 -0.8
553,223 + HMPREF1058_RS16955 0.60 +0.0
553,224 - HMPREF1058_RS16955 0.60 -1.2
553,224 - HMPREF1058_RS16955 0.60 -0.6
553,286 - HMPREF1058_RS16955 0.74 -0.3
553,322 + HMPREF1058_RS16955 0.82 -0.5
553,385 + +0.6
553,411 - -0.4
553,488 + -1.4
553,489 - -0.1
553,489 - +0.6
553,492 + -2.1
553,493 - -1.9
553,493 - -0.6
553,497 + -1.1
553,497 + -0.8
553,497 + -1.0
553,498 - -2.1
553,556 - -0.9
553,645 + HMPREF1058_RS16950 0.19 -0.5
553,647 + HMPREF1058_RS16950 0.19 -0.1
553,647 + HMPREF1058_RS16950 0.19 -0.8
553,648 - HMPREF1058_RS16950 0.19 -0.8
553,736 + HMPREF1058_RS16950 0.28 -1.8
553,736 + HMPREF1058_RS16950 0.28 -0.5
553,739 - HMPREF1058_RS16950 0.29 -1.6
553,758 + HMPREF1058_RS16950 0.31 +0.4
553,759 - HMPREF1058_RS16950 0.31 -2.1
553,772 - HMPREF1058_RS16950 0.32 -0.6
553,772 - HMPREF1058_RS16950 0.32 -1.9
553,801 + HMPREF1058_RS16950 0.35 -1.8
553,809 - HMPREF1058_RS16950 0.36 -1.5
553,851 + HMPREF1058_RS16950 0.41 +1.0
553,857 - HMPREF1058_RS16950 0.41 -1.3
553,857 - HMPREF1058_RS16950 0.41 +1.3
553,893 + HMPREF1058_RS16950 0.45 +2.4
553,951 + HMPREF1058_RS16950 0.52 -0.5
554,049 + HMPREF1058_RS16950 0.62 -0.8
554,099 + HMPREF1058_RS16950 0.67 -0.9
554,099 + HMPREF1058_RS16950 0.67 -2.5
554,111 - HMPREF1058_RS16950 0.69 -1.4
554,111 - HMPREF1058_RS16950 0.69 -1.4
554,113 + HMPREF1058_RS16950 0.69 -0.6
554,114 - HMPREF1058_RS16950 0.69 -0.3
554,118 - HMPREF1058_RS16950 0.69 +1.5
554,142 + HMPREF1058_RS16950 0.72 -0.3
554,145 - HMPREF1058_RS16950 0.72 -0.4
554,262 + HMPREF1058_RS16950 0.85 -0.7
554,319 + -2.7
554,352 + -1.6
554,400 - +0.5
554,404 + +0.1
554,417 + -1.1
554,418 - +0.5
554,445 - -0.5
554,461 - +0.0
554,535 + HMPREF1058_RS16945 0.18 -1.2
554,535 + HMPREF1058_RS16945 0.18 -0.3
554,535 + HMPREF1058_RS16945 0.18 +0.5
554,548 - HMPREF1058_RS16945 0.20 -0.1
554,548 - HMPREF1058_RS16945 0.20 +0.6
554,623 - HMPREF1058_RS16945 0.34 -0.8
554,670 + HMPREF1058_RS16945 0.43 -1.0
554,777 + HMPREF1058_RS16945 0.62 -2.5
554,777 + HMPREF1058_RS16945 0.62 +0.1
554,845 + HMPREF1058_RS16945 0.74 -0.4
554,846 - HMPREF1058_RS16945 0.74 +1.4
554,847 + HMPREF1058_RS16945 0.75 -1.0
554,848 - HMPREF1058_RS16945 0.75 -0.8
554,865 - HMPREF1058_RS16945 0.78 +0.6
554,883 - HMPREF1058_RS16945 0.81 -1.0
554,914 + HMPREF1058_RS16945 0.87 -1.5
555,129 + HMPREF1058_RS16940 0.26 -0.6
555,130 - HMPREF1058_RS16940 0.26 -0.3
555,173 + HMPREF1058_RS16940 0.38 -1.3
555,178 - HMPREF1058_RS16940 0.39 -0.9
555,190 - HMPREF1058_RS16940 0.42 +0.4
555,205 + HMPREF1058_RS16940 0.46 -1.4
555,205 + HMPREF1058_RS16940 0.46 +0.0
555,205 + HMPREF1058_RS16940 0.46 -0.4
555,206 - HMPREF1058_RS16940 0.46 +0.3
555,206 - HMPREF1058_RS16940 0.46 +0.7
555,207 + HMPREF1058_RS16940 0.47 -0.1
555,207 + HMPREF1058_RS16940 0.47 -1.8
555,207 + HMPREF1058_RS16940 0.47 -0.7
555,208 - HMPREF1058_RS16940 0.47 -0.5
555,208 - HMPREF1058_RS16940 0.47 +0.5
555,208 - HMPREF1058_RS16940 0.47 +2.2
555,216 + HMPREF1058_RS16940 0.49 -0.8
555,254 + HMPREF1058_RS16940 0.59 -0.9
555,254 + HMPREF1058_RS16940 0.59 +0.2
555,254 + HMPREF1058_RS16940 0.59 -0.5
555,255 - HMPREF1058_RS16940 0.59 -1.3
555,255 - HMPREF1058_RS16940 0.59 -1.0
555,255 - -0.9
555,319 + HMPREF1058_RS16940 0.76 -1.8
555,320 - HMPREF1058_RS16940 0.76 -1.6
555,321 + HMPREF1058_RS16940 0.77 -1.0
555,360 + HMPREF1058_RS16940 0.87 -0.9
555,396 + -0.1
555,401 - -0.3

Or see this region's nucleotide sequence