Strain Fitness in Bifidobacterium breve UCC2003 around BBR_RS11975

Experiment: diet=StandardDiet2; sample=FecalPellet; mouse17; day4

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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_RS11960 and BBR_RS20665 are separated by 153 nucleotidesBBR_RS20665 and BBR_RS11965 are separated by 11 nucleotidesBBR_RS11965 and BBR_RS11970 are separated by 86 nucleotidesBBR_RS11970 and BBR_RS11975 overlap by 4 nucleotidesBBR_RS11975 and BBR_RS11980 are separated by 63 nucleotidesBBR_RS11980 and BBR_RS11985 are separated by 104 nucleotides BBR_RS11960: BBR_RS11960 - phage head protein, at 438,235 to 439,134 _RS11960 BBR_RS20665: BBR_RS20665 - hypothetical protein, at 439,288 to 439,428 _RS20665 BBR_RS11965: BBR_RS11965 - hypothetical protein, at 439,440 to 439,673 _RS11965 BBR_RS11970: BBR_RS11970 - Phage transcriptional regulator, at 439,760 to 440,137 _RS11970 BBR_RS11975: BBR_RS11975 - hypothetical protein, at 440,134 to 440,328 _RS11975 BBR_RS11980: BBR_RS11980 - phage integrase, at 440,392 to 441,216 _RS11980 BBR_RS11985: BBR_RS11985 - tRNA-Met, at 441,321 to 441,397 _RS11985 Position (kb) 440 441Strain fitness (log2 ratio) -2 -1 0 1 2 3 4 5 6at 439.160 kb on + strandat 439.162 kb on + strandat 439.168 kb on + strandat 439.176 kb on - strandat 439.176 kb on - strandat 439.186 kb on - strandat 439.199 kb on - strandat 439.200 kb on + strandat 439.210 kb on + strandat 439.219 kb on - strandat 439.219 kb on - strandat 439.226 kb on - strandat 439.249 kb on - strandat 439.271 kb on - strandat 439.271 kb on - strandat 439.296 kb on + strandat 439.298 kb on + strandat 439.329 kb on + strand, within BBR_RS20665at 439.344 kb on + strand, within BBR_RS20665at 439.344 kb on + strand, within BBR_RS20665at 439.358 kb on + strand, within BBR_RS20665at 439.361 kb on - strand, within BBR_RS20665at 439.361 kb on - strand, within BBR_RS20665at 439.365 kb on + strand, within BBR_RS20665at 439.365 kb on + strand, within BBR_RS20665at 439.373 kb on - strand, within BBR_RS20665at 439.373 kb on - strand, within BBR_RS20665at 439.373 kb on - strand, within BBR_RS20665at 439.377 kb on - strand, within BBR_RS20665at 439.397 kb on - strand, within BBR_RS20665at 439.414 kb on + strand, within BBR_RS20665at 439.414 kb on + strand, within BBR_RS20665at 439.458 kb on + strandat 439.466 kb on - strand, within BBR_RS11965at 439.466 kb on - strand, within BBR_RS11965at 439.481 kb on + strand, within BBR_RS11965at 439.481 kb on + strand, within BBR_RS11965at 439.481 kb on + strand, within BBR_RS11965at 439.481 kb on + strand, within BBR_RS11965at 439.482 kb on + strand, within BBR_RS11965at 439.482 kb on + strand, within BBR_RS11965at 439.482 kb on + strand, within BBR_RS11965at 439.482 kb on + strand, within BBR_RS11965at 439.482 kb on + strand, within BBR_RS11965at 439.489 kb on - strand, within BBR_RS11965at 439.489 kb on - strand, within BBR_RS11965at 439.489 kb on - strand, within BBR_RS11965at 439.489 kb on - strand, within BBR_RS11965at 439.490 kb on - strand, within BBR_RS11965at 439.501 kb on - strand, within BBR_RS11965at 439.527 kb on - strand, within BBR_RS11965at 439.546 kb on + strand, within BBR_RS11965at 439.546 kb on + strand, within BBR_RS11965at 439.549 kb on - strand, within BBR_RS11965at 439.555 kb on - strand, within BBR_RS11965at 439.564 kb on - strand, within BBR_RS11965at 439.568 kb on + strand, within BBR_RS11965at 439.570 kb on - strand, within BBR_RS11965at 439.584 kb on + strand, within BBR_RS11965at 439.584 kb on + strand, within BBR_RS11965at 439.594 kb on + strand, within BBR_RS11965at 439.636 kb on - strand, within BBR_RS11965at 439.644 kb on + strand, within BBR_RS11965at 439.644 kb on + strand, within BBR_RS11965at 439.648 kb on + strand, within BBR_RS11965at 439.673 kb on + strandat 439.673 kb on + strandat 439.695 kb on - strandat 439.695 kb on - strandat 439.696 kb on - strandat 439.729 kb on + strandat 439.729 kb on + strandat 439.737 kb on - strandat 439.777 kb on - strandat 439.785 kb on - strandat 439.790 kb on - strandat 439.792 kb on - strandat 439.943 kb on - strand, within BBR_RS11970at 439.968 kb on - strand, within BBR_RS11970at 439.968 kb on - strand, within BBR_RS11970at 439.982 kb on - strand, within BBR_RS11970at 440.140 kb on - strandat 440.140 kb on - strandat 440.145 kb on - strandat 440.174 kb on - strand, within BBR_RS11975at 440.192 kb on - strand, within BBR_RS11975at 440.205 kb on + strand, within BBR_RS11975at 440.208 kb on + strand, within BBR_RS11975at 440.213 kb on - strand, within BBR_RS11975at 440.215 kb on + strand, within BBR_RS11975at 440.236 kb on - strand, within BBR_RS11975at 440.246 kb on - strand, within BBR_RS11975at 440.266 kb on - strand, within BBR_RS11975at 440.280 kb on - strand, within BBR_RS11975at 440.280 kb on - strand, within BBR_RS11975at 440.282 kb on + strand, within BBR_RS11975at 440.290 kb on - strand, within BBR_RS11975at 440.323 kb on - strandat 440.376 kb on + strandat 440.384 kb on + strandat 440.384 kb on + strandat 440.384 kb on + strandat 440.392 kb on - strandat 440.392 kb on - strandat 440.397 kb on + strandat 440.397 kb on + strandat 440.401 kb on + strandat 440.407 kb on + strandat 440.411 kb on - strandat 440.411 kb on - strandat 440.420 kb on + strandat 440.422 kb on + strandat 440.430 kb on - strandat 440.430 kb on - strandat 440.430 kb on - strandat 440.435 kb on - strandat 440.437 kb on + strandat 440.452 kb on + strandat 440.452 kb on + strandat 440.460 kb on - strandat 440.466 kb on + strandat 440.466 kb on + strandat 440.466 kb on + strandat 440.466 kb on + strandat 440.469 kb on - strandat 440.472 kb on - strandat 440.474 kb on + strandat 440.474 kb on - strandat 440.474 kb on - strandat 440.492 kb on - strand, within BBR_RS11980at 440.525 kb on - strand, within BBR_RS11980at 440.525 kb on - strand, within BBR_RS11980at 440.525 kb on - strand, within BBR_RS11980at 440.548 kb on + strand, within BBR_RS11980at 440.554 kb on + strand, within BBR_RS11980at 440.568 kb on - strand, within BBR_RS11980at 440.579 kb on + strand, within BBR_RS11980at 440.579 kb on + strand, within BBR_RS11980at 440.579 kb on + strand, within BBR_RS11980at 440.579 kb on + strand, within BBR_RS11980at 440.580 kb on - strand, within BBR_RS11980at 440.581 kb on + strand, within BBR_RS11980at 440.581 kb on + strand, within BBR_RS11980at 440.581 kb on + strand, within BBR_RS11980at 440.587 kb on - strand, within BBR_RS11980at 440.605 kb on + strand, within BBR_RS11980at 440.618 kb on + strand, within BBR_RS11980at 440.618 kb on + strand, within BBR_RS11980at 440.636 kb on - strand, within BBR_RS11980at 440.638 kb on + strand, within BBR_RS11980at 440.638 kb on - strand, within BBR_RS11980at 440.651 kb on - strand, within BBR_RS11980at 440.651 kb on - strand, within BBR_RS11980at 440.686 kb on + strand, within BBR_RS11980at 440.686 kb on + strand, within BBR_RS11980at 440.693 kb on + strand, within BBR_RS11980at 440.694 kb on - strand, within BBR_RS11980at 440.700 kb on + strand, within BBR_RS11980at 440.706 kb on - strand, within BBR_RS11980at 440.724 kb on + strand, within BBR_RS11980at 440.730 kb on + strand, within BBR_RS11980at 440.730 kb on - strand, within BBR_RS11980at 440.732 kb on - strand, within BBR_RS11980at 440.732 kb on - strand, within BBR_RS11980at 440.732 kb on - strand, within BBR_RS11980at 440.738 kb on + strand, within BBR_RS11980at 440.745 kb on - strand, within BBR_RS11980at 440.748 kb on - strand, within BBR_RS11980at 440.781 kb on + strand, within BBR_RS11980at 440.790 kb on + strand, within BBR_RS11980at 440.799 kb on - strand, within BBR_RS11980at 440.799 kb on - strand, within BBR_RS11980at 440.799 kb on - strand, within BBR_RS11980at 440.808 kb on - strand, within BBR_RS11980at 440.818 kb on + strand, within BBR_RS11980at 440.836 kb on + strand, within BBR_RS11980at 440.855 kb on + strand, within BBR_RS11980at 440.857 kb on - strand, within BBR_RS11980at 440.857 kb on - strand, within BBR_RS11980at 440.870 kb on + strand, within BBR_RS11980at 440.877 kb on + strand, within BBR_RS11980at 440.883 kb on + strand, within BBR_RS11980at 440.890 kb on - strand, within BBR_RS11980at 440.892 kb on - strand, within BBR_RS11980at 440.896 kb on - strand, within BBR_RS11980at 440.898 kb on - strand, within BBR_RS11980at 440.903 kb on - strand, within BBR_RS11980at 440.912 kb on - strand, within BBR_RS11980at 440.926 kb on + strand, within BBR_RS11980at 440.926 kb on + strand, within BBR_RS11980at 440.934 kb on - strand, within BBR_RS11980at 440.934 kb on - strand, within BBR_RS11980at 440.934 kb on - strand, within BBR_RS11980at 440.936 kb on + strand, within BBR_RS11980at 440.936 kb on + strand, within BBR_RS11980at 440.936 kb on + strand, within BBR_RS11980at 440.944 kb on - strand, within BBR_RS11980at 440.944 kb on - strand, within BBR_RS11980at 440.973 kb on + strand, within BBR_RS11980at 440.973 kb on + strand, within BBR_RS11980at 441.072 kb on - strand, within BBR_RS11980at 441.077 kb on - strand, within BBR_RS11980at 441.084 kb on - strand, within BBR_RS11980at 441.085 kb on - strand, within BBR_RS11980at 441.105 kb on + strand, within BBR_RS11980at 441.154 kb on - strandat 441.154 kb on - strandat 441.178 kb on - strandat 441.197 kb on + strandat 441.212 kb on - strandat 441.223 kb on + strandat 441.224 kb on + strandat 441.320 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet2; sample=FecalPellet; mouse17; day4
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439,160 + +0.5
439,162 + -1.3
439,168 + +1.2
439,176 - -0.9
439,176 - -0.8
439,186 - +2.1
439,199 - +1.0
439,200 + +0.3
439,210 + +0.2
439,219 - +1.6
439,219 - -0.8
439,226 - +0.2
439,249 - -0.5
439,271 - -1.4
439,271 - -1.5
439,296 + +0.6
439,298 + -0.1
439,329 + BBR_RS20665 0.29 +0.9
439,344 + BBR_RS20665 0.40 -1.0
439,344 + BBR_RS20665 0.40 -0.1
439,358 + BBR_RS20665 0.50 +2.1
439,361 - BBR_RS20665 0.52 +1.7
439,361 - BBR_RS20665 0.52 +2.1
439,365 + BBR_RS20665 0.55 +2.2
439,365 + BBR_RS20665 0.55 +0.7
439,373 - BBR_RS20665 0.60 -0.3
439,373 - BBR_RS20665 0.60 -0.2
439,373 - BBR_RS20665 0.60 +0.5
439,377 - BBR_RS20665 0.63 -1.0
439,397 - BBR_RS20665 0.77 -0.1
439,414 + BBR_RS20665 0.89 +1.9
439,414 + BBR_RS20665 0.89 +1.0
439,458 + -1.2
439,466 - BBR_RS11965 0.11 -1.1
439,466 - BBR_RS11965 0.11 +0.7
439,481 + BBR_RS11965 0.18 +0.0
439,481 + BBR_RS11965 0.18 +1.0
439,481 + BBR_RS11965 0.18 +2.0
439,481 + BBR_RS11965 0.18 -0.7
439,482 + BBR_RS11965 0.18 +1.0
439,482 + BBR_RS11965 0.18 -0.4
439,482 + BBR_RS11965 0.18 +0.3
439,482 + BBR_RS11965 0.18 +1.2
439,482 + BBR_RS11965 0.18 +2.2
439,489 - BBR_RS11965 0.21 +0.9
439,489 - BBR_RS11965 0.21 +2.2
439,489 - BBR_RS11965 0.21 -1.2
439,489 - BBR_RS11965 0.21 -0.1
439,490 - BBR_RS11965 0.21 -0.7
439,501 - BBR_RS11965 0.26 +1.6
439,527 - BBR_RS11965 0.37 +0.4
439,546 + BBR_RS11965 0.45 +0.9
439,546 + BBR_RS11965 0.45 -1.2
439,549 - BBR_RS11965 0.47 -0.2
439,555 - BBR_RS11965 0.49 +0.4
439,564 - BBR_RS11965 0.53 -0.2
439,568 + BBR_RS11965 0.55 +1.1
439,570 - BBR_RS11965 0.56 +1.4
439,584 + BBR_RS11965 0.62 +0.4
439,584 + BBR_RS11965 0.62 +0.2
439,594 + BBR_RS11965 0.66 -2.4
439,636 - BBR_RS11965 0.84 +0.7
439,644 + BBR_RS11965 0.87 -0.6
439,644 + BBR_RS11965 0.87 -1.4
439,648 + BBR_RS11965 0.89 -1.5
439,673 + +1.3
439,673 + +0.3
439,695 - +3.0
439,695 - +2.6
439,696 - -0.4
439,729 + -0.7
439,729 + +1.2
439,737 - -0.3
439,777 - +0.4
439,785 - +1.5
439,790 - +0.8
439,792 - -1.8
439,943 - BBR_RS11970 0.48 -0.3
439,968 - BBR_RS11970 0.55 -0.6
439,968 - BBR_RS11970 0.55 +0.0
439,982 - BBR_RS11970 0.59 +2.7
440,140 - +6.0
440,140 - +4.4
440,145 - +4.0
440,174 - BBR_RS11975 0.21 +1.5
440,192 - BBR_RS11975 0.30 +0.7
440,205 + BBR_RS11975 0.36 -0.2
440,208 + BBR_RS11975 0.38 -1.4
440,213 - BBR_RS11975 0.41 -0.1
440,215 + BBR_RS11975 0.42 +0.5
440,236 - BBR_RS11975 0.52 -2.2
440,246 - BBR_RS11975 0.57 -0.9
440,266 - BBR_RS11975 0.68 +0.8
440,280 - BBR_RS11975 0.75 -0.6
440,280 - BBR_RS11975 0.75 -0.2
440,282 + BBR_RS11975 0.76 +1.2
440,290 - BBR_RS11975 0.80 -0.6
440,323 - -1.0
440,376 + -0.8
440,384 + -0.1
440,384 + -0.2
440,384 + +0.5
440,392 - +0.6
440,392 - -2.4
440,397 + +2.2
440,397 + -1.1
440,401 + +0.3
440,407 + -0.2
440,411 - -1.8
440,411 - -1.1
440,420 + -0.1
440,422 + +0.6
440,430 - -0.1
440,430 - -1.7
440,430 - +0.2
440,435 - -2.7
440,437 + +0.6
440,452 + -0.6
440,452 + -0.7
440,460 - +0.2
440,466 + -0.4
440,466 + -0.4
440,466 + -0.8
440,466 + -0.0
440,469 - -1.6
440,472 - +1.1
440,474 + -0.3
440,474 - +1.9
440,474 - -2.5
440,492 - BBR_RS11980 0.12 +0.7
440,525 - BBR_RS11980 0.16 +0.7
440,525 - BBR_RS11980 0.16 +0.5
440,525 - BBR_RS11980 0.16 +0.5
440,548 + BBR_RS11980 0.19 +0.5
440,554 + BBR_RS11980 0.20 +0.2
440,568 - BBR_RS11980 0.21 +2.4
440,579 + BBR_RS11980 0.23 -1.0
440,579 + BBR_RS11980 0.23 -0.3
440,579 + BBR_RS11980 0.23 -0.2
440,579 + BBR_RS11980 0.23 +0.3
440,580 - BBR_RS11980 0.23 -1.0
440,581 + BBR_RS11980 0.23 -0.5
440,581 + BBR_RS11980 0.23 -0.8
440,581 + BBR_RS11980 0.23 +0.1
440,587 - BBR_RS11980 0.24 +0.4
440,605 + BBR_RS11980 0.26 -0.6
440,618 + BBR_RS11980 0.27 +1.4
440,618 + BBR_RS11980 0.27 -0.5
440,636 - BBR_RS11980 0.30 +2.7
440,638 + BBR_RS11980 0.30 +0.3
440,638 - BBR_RS11980 0.30 +1.9
440,651 - BBR_RS11980 0.31 +0.8
440,651 - BBR_RS11980 0.31 +0.1
440,686 + BBR_RS11980 0.36 +0.2
440,686 + BBR_RS11980 0.36 -0.2
440,693 + BBR_RS11980 0.36 -1.0
440,694 - BBR_RS11980 0.37 +0.4
440,700 + BBR_RS11980 0.37 -0.8
440,706 - BBR_RS11980 0.38 -0.2
440,724 + BBR_RS11980 0.40 +0.8
440,730 + BBR_RS11980 0.41 -1.0
440,730 - BBR_RS11980 0.41 +0.9
440,732 - BBR_RS11980 0.41 +0.7
440,732 - BBR_RS11980 0.41 +0.5
440,732 - BBR_RS11980 0.41 +0.9
440,738 + BBR_RS11980 0.42 +0.8
440,745 - BBR_RS11980 0.43 +0.6
440,748 - BBR_RS11980 0.43 +0.6
440,781 + BBR_RS11980 0.47 -0.3
440,790 + BBR_RS11980 0.48 -0.2
440,799 - BBR_RS11980 0.49 +0.3
440,799 - BBR_RS11980 0.49 -0.8
440,799 - BBR_RS11980 0.49 -0.2
440,808 - BBR_RS11980 0.50 -1.5
440,818 + BBR_RS11980 0.52 -1.3
440,836 + BBR_RS11980 0.54 -0.0
440,855 + BBR_RS11980 0.56 +0.5
440,857 - BBR_RS11980 0.56 +1.4
440,857 - BBR_RS11980 0.56 +0.1
440,870 + BBR_RS11980 0.58 +2.8
440,877 + BBR_RS11980 0.59 +0.4
440,883 + BBR_RS11980 0.60 -0.3
440,890 - BBR_RS11980 0.60 -1.4
440,892 - BBR_RS11980 0.61 -0.7
440,896 - BBR_RS11980 0.61 -1.5
440,898 - BBR_RS11980 0.61 +1.0
440,903 - BBR_RS11980 0.62 +0.5
440,912 - BBR_RS11980 0.63 -0.3
440,926 + BBR_RS11980 0.65 -1.3
440,926 + BBR_RS11980 0.65 +0.7
440,934 - BBR_RS11980 0.66 +1.3
440,934 - BBR_RS11980 0.66 +2.9
440,934 - BBR_RS11980 0.66 +2.0
440,936 + BBR_RS11980 0.66 +1.4
440,936 + BBR_RS11980 0.66 +1.5
440,936 + BBR_RS11980 0.66 +0.3
440,944 - BBR_RS11980 0.67 +0.4
440,944 - BBR_RS11980 0.67 +1.1
440,973 + BBR_RS11980 0.70 -0.1
440,973 + BBR_RS11980 0.70 -0.3
441,072 - BBR_RS11980 0.82 -1.3
441,077 - BBR_RS11980 0.83 -1.3
441,084 - BBR_RS11980 0.84 -1.5
441,085 - BBR_RS11980 0.84 -1.2
441,105 + BBR_RS11980 0.86 +0.7
441,154 - -1.0
441,154 - +1.4
441,178 - -0.1
441,197 + +0.4
441,212 - -1.4
441,223 + -0.3
441,224 + +1.3
441,320 - -1.6

Or see this region's nucleotide sequence