Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS06140

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_RS06160 and HMPREF1058_RS06155 are separated by 264 nucleotidesHMPREF1058_RS06155 and HMPREF1058_RS06150 are separated by 30 nucleotidesHMPREF1058_RS06150 and HMPREF1058_RS06145 are separated by 29 nucleotidesHMPREF1058_RS06145 and HMPREF1058_RS06140 are separated by 257 nucleotidesHMPREF1058_RS06140 and HMPREF1058_RS06135 are separated by 267 nucleotides HMPREF1058_RS06160: HMPREF1058_RS06160 - formyltetrahydrofolate deformylase, at 543,943 to 544,800 _RS06160 HMPREF1058_RS06155: HMPREF1058_RS06155 - tRNA-Asp, at 545,065 to 545,138 _RS06155 HMPREF1058_RS06150: HMPREF1058_RS06150 - tRNA-Asp, at 545,169 to 545,242 _RS06150 HMPREF1058_RS06145: HMPREF1058_RS06145 - tRNA-Asp, at 545,272 to 545,345 _RS06145 HMPREF1058_RS06140: HMPREF1058_RS06140 - phage integrase SAM-like domain-containing protein, at 545,603 to 546,238 _RS06140 HMPREF1058_RS06135: HMPREF1058_RS06135 - PorT family protein, at 546,506 to 547,186 _RS06135 Position (kb) 545 546 547Strain fitness (log2 ratio) -2 -1 0 1 2at 544.639 kb on + strand, within HMPREF1058_RS06160at 544.689 kb on - strand, within HMPREF1058_RS06160at 544.726 kb on - strandat 544.795 kb on - strandat 545.091 kb on - strand, within HMPREF1058_RS06155at 545.280 kb on - strand, within HMPREF1058_RS06145at 545.393 kb on + strandat 545.445 kb on + strandat 545.446 kb on - strandat 545.484 kb on - strandat 545.485 kb on + strandat 545.554 kb on - strandat 545.574 kb on - strandat 545.588 kb on - strandat 545.623 kb on - strandat 545.623 kb on - strandat 545.792 kb on + strand, within HMPREF1058_RS06140at 545.792 kb on + strand, within HMPREF1058_RS06140at 545.794 kb on + strand, within HMPREF1058_RS06140at 545.795 kb on - strand, within HMPREF1058_RS06140at 545.818 kb on - strand, within HMPREF1058_RS06140at 545.934 kb on - strand, within HMPREF1058_RS06140at 545.955 kb on + strand, within HMPREF1058_RS06140at 545.956 kb on - strand, within HMPREF1058_RS06140at 546.146 kb on + strand, within HMPREF1058_RS06140at 546.147 kb on - strand, within HMPREF1058_RS06140at 546.147 kb on - strand, within HMPREF1058_RS06140at 546.173 kb on + strand, within HMPREF1058_RS06140at 546.174 kb on - strand, within HMPREF1058_RS06140at 546.231 kb on + strandat 546.274 kb on + strandat 546.318 kb on + strandat 546.319 kb on - strandat 546.330 kb on - strandat 546.330 kb on - strandat 546.438 kb on - strandat 546.455 kb on - strandat 546.468 kb on + strandat 546.469 kb on - strandat 546.470 kb on + strandat 546.471 kb on - strandat 546.471 kb on - strandat 546.572 kb on - strandat 546.655 kb on - strand, within HMPREF1058_RS06135at 546.668 kb on - strand, within HMPREF1058_RS06135at 546.676 kb on + strand, within HMPREF1058_RS06135at 546.680 kb on - strand, within HMPREF1058_RS06135at 546.702 kb on + strand, within HMPREF1058_RS06135at 546.704 kb on + strand, within HMPREF1058_RS06135at 546.708 kb on - strand, within HMPREF1058_RS06135at 546.709 kb on + strand, within HMPREF1058_RS06135at 546.716 kb on - strand, within HMPREF1058_RS06135at 546.723 kb on - strand, within HMPREF1058_RS06135at 546.733 kb on + strand, within HMPREF1058_RS06135at 546.746 kb on + strand, within HMPREF1058_RS06135at 546.746 kb on + strand, within HMPREF1058_RS06135at 546.749 kb on - strand, within HMPREF1058_RS06135at 546.752 kb on - strand, within HMPREF1058_RS06135at 546.752 kb on - strand, within HMPREF1058_RS06135at 546.763 kb on + strand, within HMPREF1058_RS06135at 546.764 kb on - strand, within HMPREF1058_RS06135at 546.868 kb on - strand, within HMPREF1058_RS06135at 546.875 kb on + strand, within HMPREF1058_RS06135at 546.875 kb on + strand, within HMPREF1058_RS06135at 546.875 kb on + strand, within HMPREF1058_RS06135at 546.876 kb on - strand, within HMPREF1058_RS06135at 546.876 kb on - strand, within HMPREF1058_RS06135at 546.876 kb on - strand, within HMPREF1058_RS06135at 546.876 kb on - strand, within HMPREF1058_RS06135at 546.879 kb on + strand, within HMPREF1058_RS06135at 546.879 kb on + strand, within HMPREF1058_RS06135at 546.917 kb on + strand, within HMPREF1058_RS06135at 546.917 kb on + strand, within HMPREF1058_RS06135at 546.918 kb on - strand, within HMPREF1058_RS06135at 546.924 kb on + strand, within HMPREF1058_RS06135at 546.928 kb on + strand, within HMPREF1058_RS06135at 547.047 kb on + strand, within HMPREF1058_RS06135at 547.125 kb on + strandat 547.125 kb on + strandat 547.125 kb on + strandat 547.126 kb on - strandat 547.137 kb on - strandat 547.137 kb on - strandat 547.165 kb on + strandat 547.215 kb on + strandat 547.220 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Lacto-N-tetraose 10 mg/mL (C)
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544,639 + HMPREF1058_RS06160 0.81 +0.4
544,689 - HMPREF1058_RS06160 0.87 -0.2
544,726 - -0.3
544,795 - -0.3
545,091 - HMPREF1058_RS06155 0.35 +1.8
545,280 - HMPREF1058_RS06145 0.11 -0.1
545,393 + +1.9
545,445 + +0.1
545,446 - +0.3
545,484 - -0.1
545,485 + -1.0
545,554 - +1.8
545,574 - -0.4
545,588 - -0.8
545,623 - -0.8
545,623 - +1.3
545,792 + HMPREF1058_RS06140 0.30 -0.9
545,792 + HMPREF1058_RS06140 0.30 -0.9
545,794 + HMPREF1058_RS06140 0.30 -1.2
545,795 - HMPREF1058_RS06140 0.30 -0.1
545,818 - HMPREF1058_RS06140 0.34 -0.7
545,934 - HMPREF1058_RS06140 0.52 -0.5
545,955 + HMPREF1058_RS06140 0.55 -1.4
545,956 - HMPREF1058_RS06140 0.56 -0.3
546,146 + HMPREF1058_RS06140 0.85 -0.1
546,147 - HMPREF1058_RS06140 0.86 +1.4
546,147 - HMPREF1058_RS06140 0.86 +0.5
546,173 + HMPREF1058_RS06140 0.90 -0.1
546,174 - HMPREF1058_RS06140 0.90 -0.6
546,231 + -0.5
546,274 + +0.5
546,318 + -1.9
546,319 - +1.0
546,330 - +0.6
546,330 - +0.8
546,438 - -0.9
546,455 - +1.8
546,468 + -1.6
546,469 - +0.1
546,470 + -0.5
546,471 - +0.7
546,471 - +0.9
546,572 - +0.6
546,655 - HMPREF1058_RS06135 0.22 +1.4
546,668 - HMPREF1058_RS06135 0.24 +1.6
546,676 + HMPREF1058_RS06135 0.25 -0.9
546,680 - HMPREF1058_RS06135 0.26 -1.7
546,702 + HMPREF1058_RS06135 0.29 +0.1
546,704 + HMPREF1058_RS06135 0.29 -1.5
546,708 - HMPREF1058_RS06135 0.30 -0.9
546,709 + HMPREF1058_RS06135 0.30 +0.0
546,716 - HMPREF1058_RS06135 0.31 +1.8
546,723 - HMPREF1058_RS06135 0.32 +1.4
546,733 + HMPREF1058_RS06135 0.33 -0.8
546,746 + HMPREF1058_RS06135 0.35 -0.6
546,746 + HMPREF1058_RS06135 0.35 -0.7
546,749 - HMPREF1058_RS06135 0.36 +0.8
546,752 - HMPREF1058_RS06135 0.36 -0.9
546,752 - HMPREF1058_RS06135 0.36 -1.1
546,763 + HMPREF1058_RS06135 0.38 -0.6
546,764 - HMPREF1058_RS06135 0.38 +2.4
546,868 - HMPREF1058_RS06135 0.53 +0.4
546,875 + HMPREF1058_RS06135 0.54 +0.6
546,875 + HMPREF1058_RS06135 0.54 -0.1
546,875 + HMPREF1058_RS06135 0.54 -1.2
546,876 - HMPREF1058_RS06135 0.54 -1.5
546,876 - HMPREF1058_RS06135 0.54 -1.0
546,876 - HMPREF1058_RS06135 0.54 -1.6
546,876 - HMPREF1058_RS06135 0.54 +1.0
546,879 + HMPREF1058_RS06135 0.55 -0.6
546,879 + HMPREF1058_RS06135 0.55 +0.5
546,917 + HMPREF1058_RS06135 0.60 +1.5
546,917 + HMPREF1058_RS06135 0.60 -1.4
546,918 - HMPREF1058_RS06135 0.60 +1.3
546,924 + HMPREF1058_RS06135 0.61 -0.2
546,928 + HMPREF1058_RS06135 0.62 -0.7
547,047 + HMPREF1058_RS06135 0.79 -0.1
547,125 + -2.3
547,125 + +0.0
547,125 + -0.4
547,126 - +0.5
547,137 - +0.8
547,137 - +0.2
547,165 + +0.6
547,215 + -2.6
547,220 - +2.4

Or see this region's nucleotide sequence