Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS12505

Experiment: 2-Deoxycitidine 5' monophosphate 1 mM phosphorus source

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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_RS12510 and HMPREF1058_RS0119590 are separated by 348 nucleotidesHMPREF1058_RS0119590 and HMPREF1058_RS12505 are separated by 128 nucleotidesHMPREF1058_RS12505 and HMPREF1058_RS12500 are separated by 10 nucleotidesHMPREF1058_RS12500 and HMPREF1058_RS12495 are separated by 36 nucleotides HMPREF1058_RS12510: HMPREF1058_RS12510 - glycyl-radical enzyme activating protein, at 90,952 to 91,860 _RS12510 HMPREF1058_RS0119590: HMPREF1058_RS0119590 - Xaa-Pro aminopeptidase, at 92,209 to 92,433 _RS0119590 HMPREF1058_RS12505: HMPREF1058_RS12505 - RNA polymerase factor sigma-54, at 92,562 to 94,031 _RS12505 HMPREF1058_RS12500: HMPREF1058_RS12500 - phosphatase PAP2 family protein, at 94,042 to 94,698 _RS12500 HMPREF1058_RS12495: HMPREF1058_RS12495 - glycine cleavage system protein GcvH, at 94,735 to 95,115 _RS12495 Position (kb) 92 93 94 95Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 91.597 kb on + strand, within HMPREF1058_RS12510at 91.597 kb on + strand, within HMPREF1058_RS12510at 91.597 kb on + strand, within HMPREF1058_RS12510at 91.598 kb on - strand, within HMPREF1058_RS12510at 91.598 kb on - strand, within HMPREF1058_RS12510at 91.605 kb on + strand, within HMPREF1058_RS12510at 91.647 kb on - strandat 91.704 kb on - strand, within HMPREF1058_RS12510at 91.719 kb on + strand, within HMPREF1058_RS12510at 91.721 kb on + strand, within HMPREF1058_RS12510at 91.721 kb on + strand, within HMPREF1058_RS12510at 91.752 kb on + strand, within HMPREF1058_RS12510at 91.756 kb on + strand, within HMPREF1058_RS12510at 91.756 kb on + strand, within HMPREF1058_RS12510at 91.757 kb on - strand, within HMPREF1058_RS12510at 91.757 kb on - strand, within HMPREF1058_RS12510at 91.773 kb on + strandat 91.774 kb on - strandat 91.800 kb on - strandat 91.814 kb on + strandat 91.815 kb on - strandat 91.862 kb on + strandat 91.862 kb on + strandat 91.862 kb on + strandat 91.863 kb on - strandat 91.863 kb on - strandat 91.863 kb on - strandat 91.863 kb on - strandat 91.864 kb on + strandat 91.865 kb on - strandat 91.865 kb on - strandat 91.865 kb on - strandat 91.883 kb on - strandat 91.967 kb on - strandat 92.029 kb on - strandat 92.029 kb on - strandat 92.035 kb on - strandat 92.036 kb on + strandat 92.036 kb on + strandat 92.037 kb on - strandat 92.040 kb on + strandat 92.051 kb on - strandat 92.052 kb on + strandat 92.053 kb on - strandat 92.053 kb on - strandat 92.055 kb on + strandat 92.101 kb on - strandat 92.247 kb on + strand, within HMPREF1058_RS0119590at 92.247 kb on + strand, within HMPREF1058_RS0119590at 92.248 kb on - strand, within HMPREF1058_RS0119590at 92.248 kb on - strand, within HMPREF1058_RS0119590at 92.248 kb on - strand, within HMPREF1058_RS0119590at 92.248 kb on - strand, within HMPREF1058_RS0119590at 92.252 kb on + strand, within HMPREF1058_RS0119590at 92.253 kb on - strand, within HMPREF1058_RS0119590at 92.253 kb on - strand, within HMPREF1058_RS0119590at 92.298 kb on - strandat 92.307 kb on + strand, within HMPREF1058_RS0119590at 92.331 kb on + strandat 92.331 kb on + strand, within HMPREF1058_RS0119590at 92.331 kb on + strand, within HMPREF1058_RS0119590at 92.331 kb on + strand, within HMPREF1058_RS0119590at 92.398 kb on - strand, within HMPREF1058_RS0119590at 92.398 kb on - strand, within HMPREF1058_RS0119590at 92.414 kb on + strandat 92.415 kb on - strandat 92.433 kb on + strandat 92.452 kb on + strandat 92.453 kb on - strandat 92.508 kb on + strandat 92.511 kb on + strandat 92.608 kb on + strandat 92.861 kb on + strand, within HMPREF1058_RS12505at 92.957 kb on + strand, within HMPREF1058_RS12505at 92.957 kb on + strand, within HMPREF1058_RS12505at 93.073 kb on - strand, within HMPREF1058_RS12505at 93.074 kb on + strand, within HMPREF1058_RS12505at 93.169 kb on + strand, within HMPREF1058_RS12505at 93.175 kb on + strand, within HMPREF1058_RS12505at 93.176 kb on - strandat 93.284 kb on + strand, within HMPREF1058_RS12505at 93.414 kb on + strand, within HMPREF1058_RS12505at 93.431 kb on + strand, within HMPREF1058_RS12505at 93.453 kb on - strand, within HMPREF1058_RS12505at 93.560 kb on - strand, within HMPREF1058_RS12505at 93.646 kb on + strand, within HMPREF1058_RS12505at 93.646 kb on + strand, within HMPREF1058_RS12505at 93.647 kb on - strand, within HMPREF1058_RS12505at 93.775 kb on + strand, within HMPREF1058_RS12505at 93.792 kb on - strand, within HMPREF1058_RS12505at 94.029 kb on + strandat 94.034 kb on + strandat 94.040 kb on - strandat 94.040 kb on - strandat 94.077 kb on - strandat 94.113 kb on + strand, within HMPREF1058_RS12500at 94.114 kb on - strand, within HMPREF1058_RS12500at 94.140 kb on + strand, within HMPREF1058_RS12500at 94.140 kb on + strand, within HMPREF1058_RS12500at 94.184 kb on - strand, within HMPREF1058_RS12500at 94.191 kb on + strand, within HMPREF1058_RS12500at 94.217 kb on + strand, within HMPREF1058_RS12500at 94.218 kb on - strand, within HMPREF1058_RS12500at 94.229 kb on + strand, within HMPREF1058_RS12500at 94.230 kb on - strand, within HMPREF1058_RS12500at 94.271 kb on - strand, within HMPREF1058_RS12500at 94.339 kb on + strand, within HMPREF1058_RS12500at 94.350 kb on + strand, within HMPREF1058_RS12500at 94.386 kb on + strand, within HMPREF1058_RS12500at 94.387 kb on - strand, within HMPREF1058_RS12500at 94.408 kb on - strand, within HMPREF1058_RS12500at 94.537 kb on - strand, within HMPREF1058_RS12500at 94.617 kb on - strand, within HMPREF1058_RS12500at 94.627 kb on - strand, within HMPREF1058_RS12500at 94.627 kb on - strand, within HMPREF1058_RS12500at 94.631 kb on + strand, within HMPREF1058_RS12500at 94.632 kb on - strand, within HMPREF1058_RS12500at 94.634 kb on + strandat 94.754 kb on + strandat 94.787 kb on + strand, within HMPREF1058_RS12495at 94.799 kb on + strandat 94.799 kb on + strand, within HMPREF1058_RS12495at 94.799 kb on + strand, within HMPREF1058_RS12495at 94.799 kb on + strand, within HMPREF1058_RS12495at 94.804 kb on + strand, within HMPREF1058_RS12495at 94.856 kb on + strand, within HMPREF1058_RS12495

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Per-strain Table

Position Strand Gene LocusTag Fraction 2-Deoxycitidine 5' monophosphate 1 mM phosphorus source
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91,597 + HMPREF1058_RS12510 0.71 +0.3
91,597 + HMPREF1058_RS12510 0.71 -0.7
91,597 + HMPREF1058_RS12510 0.71 +0.2
91,598 - HMPREF1058_RS12510 0.71 -0.1
91,598 - HMPREF1058_RS12510 0.71 +1.6
91,605 + HMPREF1058_RS12510 0.72 -0.7
91,647 - +1.0
91,704 - HMPREF1058_RS12510 0.83 -0.1
91,719 + HMPREF1058_RS12510 0.84 -0.1
91,721 + HMPREF1058_RS12510 0.85 +0.4
91,721 + HMPREF1058_RS12510 0.85 +0.6
91,752 + HMPREF1058_RS12510 0.88 +0.2
91,756 + HMPREF1058_RS12510 0.88 +0.4
91,756 + HMPREF1058_RS12510 0.88 +0.7
91,757 - HMPREF1058_RS12510 0.89 -0.1
91,757 - HMPREF1058_RS12510 0.89 +2.1
91,773 + +0.4
91,774 - -0.4
91,800 - -1.0
91,814 + -0.1
91,815 - +0.6
91,862 + +0.5
91,862 + -1.4
91,862 + -0.2
91,863 - +0.3
91,863 - +0.1
91,863 - -1.4
91,863 - -3.5
91,864 + +0.2
91,865 - -0.9
91,865 - -0.5
91,865 - +0.2
91,883 - -0.2
91,967 - -0.6
92,029 - -0.4
92,029 - -1.7
92,035 - -0.6
92,036 + -0.1
92,036 + +0.2
92,037 - +0.5
92,040 + +0.0
92,051 - -0.6
92,052 + +1.1
92,053 - +1.2
92,053 - -0.5
92,055 + +0.2
92,101 - +0.0
92,247 + HMPREF1058_RS0119590 0.17 +0.7
92,247 + HMPREF1058_RS0119590 0.17 -1.6
92,248 - HMPREF1058_RS0119590 0.17 -1.2
92,248 - HMPREF1058_RS0119590 0.17 +1.1
92,248 - HMPREF1058_RS0119590 0.17 +0.7
92,248 - HMPREF1058_RS0119590 0.17 +0.6
92,252 + HMPREF1058_RS0119590 0.19 +0.0
92,253 - HMPREF1058_RS0119590 0.20 -1.7
92,253 - HMPREF1058_RS0119590 0.20 +0.3
92,298 - +0.7
92,307 + HMPREF1058_RS0119590 0.44 +1.1
92,331 + +0.3
92,331 + HMPREF1058_RS0119590 0.54 +0.1
92,331 + HMPREF1058_RS0119590 0.54 +1.1
92,331 + HMPREF1058_RS0119590 0.54 -0.8
92,398 - HMPREF1058_RS0119590 0.84 -0.7
92,398 - HMPREF1058_RS0119590 0.84 -0.2
92,414 + -1.6
92,415 - +0.2
92,433 + -1.5
92,452 + -1.9
92,453 - +0.2
92,508 + -0.2
92,511 + +0.6
92,608 + -1.2
92,861 + HMPREF1058_RS12505 0.20 -1.0
92,957 + HMPREF1058_RS12505 0.27 -0.8
92,957 + HMPREF1058_RS12505 0.27 -2.5
93,073 - HMPREF1058_RS12505 0.35 -0.8
93,074 + HMPREF1058_RS12505 0.35 +1.0
93,169 + HMPREF1058_RS12505 0.41 -1.9
93,175 + HMPREF1058_RS12505 0.42 -0.2
93,176 - +1.0
93,284 + HMPREF1058_RS12505 0.49 -1.6
93,414 + HMPREF1058_RS12505 0.58 -0.6
93,431 + HMPREF1058_RS12505 0.59 -0.4
93,453 - HMPREF1058_RS12505 0.61 -0.4
93,560 - HMPREF1058_RS12505 0.68 +0.6
93,646 + HMPREF1058_RS12505 0.74 -0.8
93,646 + HMPREF1058_RS12505 0.74 -1.1
93,647 - HMPREF1058_RS12505 0.74 +1.0
93,775 + HMPREF1058_RS12505 0.83 -3.0
93,792 - HMPREF1058_RS12505 0.84 +0.6
94,029 + +0.5
94,034 + -0.4
94,040 - -0.2
94,040 - -0.6
94,077 - +0.7
94,113 + HMPREF1058_RS12500 0.11 -0.9
94,114 - HMPREF1058_RS12500 0.11 +0.5
94,140 + HMPREF1058_RS12500 0.15 +0.7
94,140 + HMPREF1058_RS12500 0.15 +0.4
94,184 - HMPREF1058_RS12500 0.22 -0.4
94,191 + HMPREF1058_RS12500 0.23 -0.9
94,217 + HMPREF1058_RS12500 0.27 -0.6
94,218 - HMPREF1058_RS12500 0.27 -0.0
94,229 + HMPREF1058_RS12500 0.28 -0.2
94,230 - HMPREF1058_RS12500 0.29 +1.3
94,271 - HMPREF1058_RS12500 0.35 -1.1
94,339 + HMPREF1058_RS12500 0.45 -0.1
94,350 + HMPREF1058_RS12500 0.47 +0.5
94,386 + HMPREF1058_RS12500 0.52 -0.8
94,387 - HMPREF1058_RS12500 0.53 +1.9
94,408 - HMPREF1058_RS12500 0.56 +0.1
94,537 - HMPREF1058_RS12500 0.75 -0.1
94,617 - HMPREF1058_RS12500 0.88 -2.2
94,627 - HMPREF1058_RS12500 0.89 -0.4
94,627 - HMPREF1058_RS12500 0.89 -0.2
94,631 + HMPREF1058_RS12500 0.90 -0.7
94,632 - HMPREF1058_RS12500 0.90 -0.5
94,634 + -1.3
94,754 + +1.2
94,787 + HMPREF1058_RS12495 0.14 +0.6
94,799 + -1.2
94,799 + HMPREF1058_RS12495 0.17 -1.0
94,799 + HMPREF1058_RS12495 0.17 +0.0
94,799 + HMPREF1058_RS12495 0.17 -0.3
94,804 + HMPREF1058_RS12495 0.18 -0.5
94,856 + HMPREF1058_RS12495 0.32 +0.2

Or see this region's nucleotide sequence