Strain Fitness in Bifidobacterium breve UCC2003 around BBR_RS12310

Experiment: diet=StandardDiet; sample=FecalPellet; treatment=Methotrexate; mouse17; day6

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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_RS12305 and BBR_RS12310 are separated by 251 nucleotidesBBR_RS12310 and BBR_RS20690 are separated by 38 nucleotidesBBR_RS20690 and BBR_RS12315 are separated by 115 nucleotides BBR_RS12305: BBR_RS12305 - endonuclease/exonuclease/phosphatase family protein, at 510,658 to 511,989 _RS12305 BBR_RS12310: BBR_RS12310 - signal recognition particle protein, at 512,241 to 513,896 _RS12310 BBR_RS20690: BBR_RS20690 - hypothetical protein, at 513,935 to 514,135 _RS20690 BBR_RS12315: BBR_RS12315 - cation transporter, at 514,251 to 515,159 _RS12315 Position (kb) 512 513 514Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 511.242 kb on - strand, within BBR_RS12305at 511.254 kb on - strand, within BBR_RS12305at 511.300 kb on + strand, within BBR_RS12305at 511.410 kb on + strand, within BBR_RS12305at 511.436 kb on + strand, within BBR_RS12305at 511.507 kb on - strand, within BBR_RS12305at 511.547 kb on + strand, within BBR_RS12305at 511.571 kb on - strand, within BBR_RS12305at 511.573 kb on - strand, within BBR_RS12305at 511.622 kb on + strand, within BBR_RS12305at 511.622 kb on + strand, within BBR_RS12305at 511.635 kb on - strand, within BBR_RS12305at 511.644 kb on - strand, within BBR_RS12305at 511.701 kb on + strand, within BBR_RS12305at 511.701 kb on + strand, within BBR_RS12305at 511.718 kb on + strand, within BBR_RS12305at 511.744 kb on - strand, within BBR_RS12305at 511.751 kb on + strand, within BBR_RS12305at 511.758 kb on + strand, within BBR_RS12305at 511.775 kb on + strand, within BBR_RS12305at 511.777 kb on + strand, within BBR_RS12305at 511.793 kb on + strand, within BBR_RS12305at 511.852 kb on + strand, within BBR_RS12305at 511.860 kb on - strandat 511.865 kb on + strandat 511.875 kb on - strandat 511.886 kb on + strandat 511.925 kb on - strandat 511.941 kb on - strandat 511.943 kb on + strandat 511.943 kb on + strandat 511.943 kb on + strandat 511.943 kb on + strandat 511.943 kb on + strandat 511.943 kb on + strandat 511.943 kb on + strandat 511.943 kb on + strandat 511.951 kb on - strandat 511.951 kb on - strandat 511.965 kb on + strandat 511.970 kb on + strandat 511.970 kb on + strandat 511.978 kb on - strandat 512.039 kb on - strandat 512.051 kb on + strandat 512.057 kb on - strandat 512.062 kb on - strandat 512.062 kb on - strandat 512.063 kb on - strandat 512.087 kb on - strandat 512.112 kb on - strandat 512.159 kb on - strandat 512.188 kb on - strandat 512.235 kb on + strandat 512.258 kb on - strandat 512.285 kb on - strandat 512.288 kb on + strandat 512.296 kb on - strandat 512.321 kb on + strandat 512.329 kb on - strandat 512.329 kb on - strandat 512.329 kb on - strandat 512.341 kb on + strandat 512.422 kb on + strand, within BBR_RS12310at 512.435 kb on - strand, within BBR_RS12310at 512.559 kb on - strand, within BBR_RS12310at 513.898 kb on - strandat 513.979 kb on - strand, within BBR_RS20690at 513.979 kb on - strand, within BBR_RS20690at 514.043 kb on + strand, within BBR_RS20690at 514.090 kb on - strand, within BBR_RS20690at 514.152 kb on + strandat 514.166 kb on + strandat 514.166 kb on + strandat 514.200 kb on + strandat 514.281 kb on + strandat 514.289 kb on - strandat 514.319 kb on - strandat 514.359 kb on + strand, within BBR_RS12315at 514.437 kb on + strand, within BBR_RS12315at 514.439 kb on + strand, within BBR_RS12315at 514.439 kb on + strand, within BBR_RS12315at 514.441 kb on + strand, within BBR_RS12315at 514.445 kb on - strand, within BBR_RS12315at 514.445 kb on - strand, within BBR_RS12315at 514.445 kb on - strand, within BBR_RS12315at 514.445 kb on - strand, within BBR_RS12315at 514.445 kb on - strand, within BBR_RS12315at 514.452 kb on - strand, within BBR_RS12315at 514.469 kb on + strand, within BBR_RS12315at 514.482 kb on - strand, within BBR_RS12315at 514.482 kb on - strand, within BBR_RS12315at 514.496 kb on + strand, within BBR_RS12315at 514.511 kb on - strand, within BBR_RS12315at 514.534 kb on - strand, within BBR_RS12315at 514.550 kb on - strand, within BBR_RS12315at 514.557 kb on + strand, within BBR_RS12315at 514.572 kb on + strand, within BBR_RS12315at 514.592 kb on + strand, within BBR_RS12315at 514.592 kb on + strand, within BBR_RS12315at 514.600 kb on - strand, within BBR_RS12315at 514.631 kb on - strand, within BBR_RS12315at 514.642 kb on + strand, within BBR_RS12315at 514.648 kb on + strand, within BBR_RS12315at 514.650 kb on - strand, within BBR_RS12315at 514.650 kb on - strand, within BBR_RS12315at 514.650 kb on - strand, within BBR_RS12315at 514.656 kb on - strand, within BBR_RS12315at 514.691 kb on + strand, within BBR_RS12315at 514.691 kb on + strand, within BBR_RS12315at 514.691 kb on + strand, within BBR_RS12315at 514.691 kb on + strand, within BBR_RS12315at 514.691 kb on + strand, within BBR_RS12315at 514.691 kb on + strand, within BBR_RS12315at 514.699 kb on - strand, within BBR_RS12315at 514.711 kb on - strand, within BBR_RS12315at 514.758 kb on + strand, within BBR_RS12315at 514.761 kb on - strand, within BBR_RS12315at 514.768 kb on + strand, within BBR_RS12315at 514.800 kb on + strand, within BBR_RS12315at 514.822 kb on - strand, within BBR_RS12315at 514.822 kb on - strand, within BBR_RS12315at 514.827 kb on - strand, within BBR_RS12315at 514.827 kb on - strand, within BBR_RS12315at 514.847 kb on - strand, within BBR_RS12315at 514.852 kb on - strand, within BBR_RS12315at 514.864 kb on + strand, within BBR_RS12315at 514.864 kb on + strand, within BBR_RS12315at 514.872 kb on - strand, within BBR_RS12315

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; treatment=Methotrexate; mouse17; day6
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511,242 - BBR_RS12305 0.44 -0.5
511,254 - BBR_RS12305 0.45 +0.9
511,300 + BBR_RS12305 0.48 +0.4
511,410 + BBR_RS12305 0.56 -0.1
511,436 + BBR_RS12305 0.58 -3.2
511,507 - BBR_RS12305 0.64 +3.3
511,547 + BBR_RS12305 0.67 -1.9
511,571 - BBR_RS12305 0.69 +0.4
511,573 - BBR_RS12305 0.69 -2.3
511,622 + BBR_RS12305 0.72 -3.1
511,622 + BBR_RS12305 0.72 -0.0
511,635 - BBR_RS12305 0.73 -0.4
511,644 - BBR_RS12305 0.74 +0.7
511,701 + BBR_RS12305 0.78 -0.3
511,701 + BBR_RS12305 0.78 -1.0
511,718 + BBR_RS12305 0.80 -0.1
511,744 - BBR_RS12305 0.82 -1.5
511,751 + BBR_RS12305 0.82 -1.5
511,758 + BBR_RS12305 0.83 -0.7
511,775 + BBR_RS12305 0.84 +1.9
511,777 + BBR_RS12305 0.84 -0.7
511,793 + BBR_RS12305 0.85 +0.7
511,852 + BBR_RS12305 0.90 -0.8
511,860 - -2.1
511,865 + -1.6
511,875 - -1.7
511,886 + -0.5
511,925 - -0.5
511,941 - +0.0
511,943 + -0.8
511,943 + -0.2
511,943 + -1.1
511,943 + -0.6
511,943 + -1.0
511,943 + -0.8
511,943 + +0.3
511,943 + -1.6
511,951 - -0.9
511,951 - +1.6
511,965 + +0.4
511,970 + +1.3
511,970 + -0.8
511,978 - -1.1
512,039 - +0.9
512,051 + -2.1
512,057 - +0.7
512,062 - +1.2
512,062 - +0.9
512,063 - -1.7
512,087 - -1.6
512,112 - +1.1
512,159 - +1.2
512,188 - +1.6
512,235 + +0.7
512,258 - -0.4
512,285 - -1.8
512,288 + +2.3
512,296 - -1.7
512,321 + -0.2
512,329 - +1.4
512,329 - +1.8
512,329 - -1.4
512,341 + +1.4
512,422 + BBR_RS12310 0.11 +1.2
512,435 - BBR_RS12310 0.12 -0.8
512,559 - BBR_RS12310 0.19 +0.2
513,898 - -2.3
513,979 - BBR_RS20690 0.22 -0.4
513,979 - BBR_RS20690 0.22 -0.5
514,043 + BBR_RS20690 0.54 -1.2
514,090 - BBR_RS20690 0.77 -0.8
514,152 + +1.4
514,166 + -0.3
514,166 + -0.8
514,200 + -1.1
514,281 + -0.7
514,289 - -1.1
514,319 - -0.5
514,359 + BBR_RS12315 0.12 -0.0
514,437 + BBR_RS12315 0.20 -2.4
514,439 + BBR_RS12315 0.21 -0.4
514,439 + BBR_RS12315 0.21 -1.0
514,441 + BBR_RS12315 0.21 +0.1
514,445 - BBR_RS12315 0.21 -1.1
514,445 - BBR_RS12315 0.21 -0.8
514,445 - BBR_RS12315 0.21 -2.1
514,445 - BBR_RS12315 0.21 -0.7
514,445 - BBR_RS12315 0.21 -1.4
514,452 - BBR_RS12315 0.22 -1.5
514,469 + BBR_RS12315 0.24 -1.3
514,482 - BBR_RS12315 0.25 -1.0
514,482 - BBR_RS12315 0.25 -1.4
514,496 + BBR_RS12315 0.27 -1.7
514,511 - BBR_RS12315 0.29 -2.1
514,534 - BBR_RS12315 0.31 +1.1
514,550 - BBR_RS12315 0.33 -0.5
514,557 + BBR_RS12315 0.34 -1.2
514,572 + BBR_RS12315 0.35 -3.7
514,592 + BBR_RS12315 0.38 -2.3
514,592 + BBR_RS12315 0.38 +1.0
514,600 - BBR_RS12315 0.38 +0.5
514,631 - BBR_RS12315 0.42 -1.8
514,642 + BBR_RS12315 0.43 -1.6
514,648 + BBR_RS12315 0.44 -0.1
514,650 - BBR_RS12315 0.44 -1.2
514,650 - BBR_RS12315 0.44 -2.8
514,650 - BBR_RS12315 0.44 -1.5
514,656 - BBR_RS12315 0.45 -1.4
514,691 + BBR_RS12315 0.48 -1.9
514,691 + BBR_RS12315 0.48 +0.3
514,691 + BBR_RS12315 0.48 -1.6
514,691 + BBR_RS12315 0.48 -2.0
514,691 + BBR_RS12315 0.48 -0.6
514,691 + BBR_RS12315 0.48 -0.5
514,699 - BBR_RS12315 0.49 -0.8
514,711 - BBR_RS12315 0.51 -0.1
514,758 + BBR_RS12315 0.56 +1.3
514,761 - BBR_RS12315 0.56 +0.1
514,768 + BBR_RS12315 0.57 -2.1
514,800 + BBR_RS12315 0.60 -2.0
514,822 - BBR_RS12315 0.63 +2.4
514,822 - BBR_RS12315 0.63 -1.0
514,827 - BBR_RS12315 0.63 -0.7
514,827 - BBR_RS12315 0.63 -1.1
514,847 - BBR_RS12315 0.66 -0.7
514,852 - BBR_RS12315 0.66 -0.1
514,864 + BBR_RS12315 0.67 -1.8
514,864 + BBR_RS12315 0.67 -1.7
514,872 - BBR_RS12315 0.68 +2.6

Or see this region's nucleotide sequence