Strain Fitness in Bifidobacterium breve UCC2003 around BBR_RS16410

Experiment: cage1; mouse3; day4; diet=StandardDiet; sample=FecalPellet; coculture=Btheta_VPI5482

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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 ntBBR_RS16400 and BBR_RS16405 are separated by 115 nucleotidesBBR_RS16405 and BBR_RS16410 are separated by 100 nucleotidesBBR_RS16410 and BBR_RS16415 are separated by 93 nucleotidesBBR_RS16415 and BBR_RS16420 overlap by 1 nucleotides BBR_RS16400: BBR_RS16400 - hypothetical protein, at 1,436,773 to 1,437,177 _RS16400 BBR_RS16405: BBR_RS16405 - peptidylprolyl isomerase, at 1,437,293 to 1,437,832 _RS16405 BBR_RS16410: BBR_RS16410 - bifunctional (p)ppGpp synthetase/guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase, at 1,437,933 to 1,440,257 _RS16410 BBR_RS16415: BBR_RS16415 - dUTP diphosphatase, at 1,440,351 to 1,440,827 _RS16415 BBR_RS16420: BBR_RS16420 - DUF4193 domain-containing protein, at 1,440,827 to 1,441,120 _RS16420 Position (kb) 1437 1438 1439 1440 1441Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 1437.049 kb on + strand, within BBR_RS16400at 1437.076 kb on + strand, within BBR_RS16400at 1437.148 kb on + strandat 1437.205 kb on + strandat 1437.225 kb on - strandat 1437.238 kb on + strandat 1437.240 kb on + strandat 1437.246 kb on - strandat 1437.246 kb on - strandat 1437.272 kb on - strandat 1437.298 kb on - strandat 1437.323 kb on - strandat 1437.325 kb on - strandat 1437.356 kb on + strand, within BBR_RS16405at 1437.415 kb on + strand, within BBR_RS16405at 1437.415 kb on + strand, within BBR_RS16405at 1437.416 kb on - strand, within BBR_RS16405at 1437.423 kb on - strand, within BBR_RS16405at 1437.423 kb on - strand, within BBR_RS16405at 1437.431 kb on - strand, within BBR_RS16405at 1437.453 kb on - strand, within BBR_RS16405at 1437.522 kb on + strand, within BBR_RS16405at 1437.603 kb on + strand, within BBR_RS16405at 1437.608 kb on + strand, within BBR_RS16405at 1437.611 kb on - strand, within BBR_RS16405at 1437.616 kb on - strand, within BBR_RS16405at 1437.683 kb on + strand, within BBR_RS16405at 1437.688 kb on - strand, within BBR_RS16405at 1437.697 kb on + strand, within BBR_RS16405at 1437.707 kb on + strand, within BBR_RS16405at 1437.754 kb on + strand, within BBR_RS16405at 1437.754 kb on + strand, within BBR_RS16405at 1437.754 kb on + strand, within BBR_RS16405at 1437.762 kb on - strand, within BBR_RS16405at 1437.762 kb on - strand, within BBR_RS16405at 1437.800 kb on + strandat 1437.800 kb on + strandat 1437.827 kb on + strandat 1437.835 kb on - strandat 1437.900 kb on + strandat 1437.910 kb on - strandat 1437.911 kb on - strandat 1437.931 kb on + strandat 1437.964 kb on - strandat 1440.268 kb on + strandat 1440.274 kb on + strandat 1440.362 kb on - strandat 1440.365 kb on - strandat 1441.179 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction cage1; mouse3; day4; diet=StandardDiet; sample=FecalPellet; coculture=Btheta_VPI5482
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1,437,049 + BBR_RS16400 0.68 -2.8
1,437,076 + BBR_RS16400 0.75 -1.2
1,437,148 + +1.3
1,437,205 + +3.1
1,437,225 - +2.9
1,437,238 + +0.1
1,437,240 + -0.7
1,437,246 - -0.5
1,437,246 - -0.3
1,437,272 - +1.1
1,437,298 - -0.3
1,437,323 - -1.1
1,437,325 - +0.9
1,437,356 + BBR_RS16405 0.12 -0.3
1,437,415 + BBR_RS16405 0.23 +2.9
1,437,415 + BBR_RS16405 0.23 +0.3
1,437,416 - BBR_RS16405 0.23 +1.2
1,437,423 - BBR_RS16405 0.24 +0.0
1,437,423 - BBR_RS16405 0.24 +0.8
1,437,431 - BBR_RS16405 0.26 +1.0
1,437,453 - BBR_RS16405 0.30 +0.1
1,437,522 + BBR_RS16405 0.42 -0.5
1,437,603 + BBR_RS16405 0.57 +0.7
1,437,608 + BBR_RS16405 0.58 +0.3
1,437,611 - BBR_RS16405 0.59 -0.3
1,437,616 - BBR_RS16405 0.60 +0.6
1,437,683 + BBR_RS16405 0.72 +0.0
1,437,688 - BBR_RS16405 0.73 -2.3
1,437,697 + BBR_RS16405 0.75 -0.1
1,437,707 + BBR_RS16405 0.77 +2.9
1,437,754 + BBR_RS16405 0.85 +0.9
1,437,754 + BBR_RS16405 0.85 +0.1
1,437,754 + BBR_RS16405 0.85 -0.4
1,437,762 - BBR_RS16405 0.87 -0.0
1,437,762 - BBR_RS16405 0.87 +0.2
1,437,800 + +2.9
1,437,800 + -0.4
1,437,827 + +3.1
1,437,835 - +0.8
1,437,900 + +0.2
1,437,910 - +1.2
1,437,911 - -0.5
1,437,931 + -0.4
1,437,964 - -2.4
1,440,268 + -0.2
1,440,274 + +0.2
1,440,362 - -0.6
1,440,365 - -1.1
1,441,179 - -3.6

Or see this region's nucleotide sequence