Strain Fitness in Dickeya dianthicola 67-19 around HGI48_RS16560

Experiment: Upstate

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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 ntHGI48_RS16555 and HGI48_RS16560 are separated by 13 nucleotidesHGI48_RS16560 and HGI48_RS16565 overlap by 8 nucleotidesHGI48_RS16565 and HGI48_RS16570 are separated by 31 nucleotides HGI48_RS16555: HGI48_RS16555 - type I-E CRISPR-associated protein Cse1/CasA, at 3,711,950 to 3,713,473 _RS16555 HGI48_RS16560: HGI48_RS16560 - type I-E CRISPR-associated protein Cse2/CasB, at 3,713,487 to 3,714,053 _RS16560 HGI48_RS16565: HGI48_RS16565 - type I-E CRISPR-associated protein Cas6/Cse3/CasE, at 3,714,046 to 3,714,693 _RS16565 HGI48_RS16570: HGI48_RS16570 - type I-E CRISPR-associated protein Cas7/Cse4/CasC, at 3,714,725 to 3,715,759 _RS16570 Position (kb) 3713 3714 3715Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 3712.519 kb on - strand, within HGI48_RS16555at 3712.519 kb on - strand, within HGI48_RS16555at 3712.546 kb on + strand, within HGI48_RS16555at 3712.547 kb on - strand, within HGI48_RS16555at 3712.547 kb on - strand, within HGI48_RS16555at 3712.555 kb on + strand, within HGI48_RS16555at 3712.556 kb on - strand, within HGI48_RS16555at 3712.556 kb on - strand, within HGI48_RS16555at 3712.556 kb on - strand, within HGI48_RS16555at 3712.607 kb on + strand, within HGI48_RS16555at 3712.607 kb on + strand, within HGI48_RS16555at 3712.607 kb on + strand, within HGI48_RS16555at 3712.607 kb on + strand, within HGI48_RS16555at 3712.607 kb on + strandat 3712.607 kb on + strandat 3712.608 kb on - strand, within HGI48_RS16555at 3712.608 kb on - strand, within HGI48_RS16555at 3712.608 kb on - strand, within HGI48_RS16555at 3712.678 kb on - strand, within HGI48_RS16555at 3712.855 kb on + strand, within HGI48_RS16555at 3712.855 kb on + strand, within HGI48_RS16555at 3712.855 kb on + strand, within HGI48_RS16555at 3712.856 kb on - strand, within HGI48_RS16555at 3712.856 kb on - strand, within HGI48_RS16555at 3712.875 kb on + strand, within HGI48_RS16555at 3712.884 kb on + strand, within HGI48_RS16555at 3712.885 kb on - strand, within HGI48_RS16555at 3712.911 kb on + strand, within HGI48_RS16555at 3712.911 kb on + strand, within HGI48_RS16555at 3712.912 kb on - strand, within HGI48_RS16555at 3712.912 kb on - strand, within HGI48_RS16555at 3713.011 kb on + strand, within HGI48_RS16555at 3713.011 kb on + strandat 3713.027 kb on + strand, within HGI48_RS16555at 3713.028 kb on - strand, within HGI48_RS16555at 3713.028 kb on - strand, within HGI48_RS16555at 3713.028 kb on - strand, within HGI48_RS16555at 3713.028 kb on - strandat 3713.049 kb on - strand, within HGI48_RS16555at 3713.064 kb on + strand, within HGI48_RS16555at 3713.064 kb on + strand, within HGI48_RS16555at 3713.064 kb on + strand, within HGI48_RS16555at 3713.064 kb on + strand, within HGI48_RS16555at 3713.064 kb on + strand, within HGI48_RS16555at 3713.064 kb on + strand, within HGI48_RS16555at 3713.065 kb on - strand, within HGI48_RS16555at 3713.065 kb on - strandat 3713.065 kb on - strand, within HGI48_RS16555at 3713.065 kb on - strand, within HGI48_RS16555at 3713.109 kb on + strand, within HGI48_RS16555at 3713.109 kb on + strand, within HGI48_RS16555at 3713.109 kb on + strandat 3713.110 kb on - strand, within HGI48_RS16555at 3713.110 kb on - strand, within HGI48_RS16555at 3713.137 kb on + strand, within HGI48_RS16555at 3713.138 kb on - strand, within HGI48_RS16555at 3713.171 kb on + strandat 3713.172 kb on - strand, within HGI48_RS16555at 3713.184 kb on + strand, within HGI48_RS16555at 3713.184 kb on + strand, within HGI48_RS16555at 3713.185 kb on - strand, within HGI48_RS16555at 3713.185 kb on - strand, within HGI48_RS16555at 3713.185 kb on - strand, within HGI48_RS16555at 3713.331 kb on + strandat 3713.331 kb on + strandat 3713.332 kb on - strandat 3713.379 kb on + strandat 3713.380 kb on - strandat 3713.380 kb on - strandat 3713.380 kb on - strandat 3713.456 kb on + strandat 3713.456 kb on + strandat 3713.457 kb on - strandat 3713.471 kb on + strandat 3713.472 kb on - strandat 3713.486 kb on + strandat 3713.487 kb on - strandat 3713.487 kb on - strandat 3713.487 kb on - strandat 3713.501 kb on + strandat 3713.502 kb on - strandat 3713.534 kb on - strandat 3713.573 kb on + strand, within HGI48_RS16560at 3713.574 kb on - strand, within HGI48_RS16560at 3713.634 kb on + strand, within HGI48_RS16560at 3713.843 kb on + strand, within HGI48_RS16560at 3713.843 kb on + strand, within HGI48_RS16560at 3713.844 kb on - strand, within HGI48_RS16560at 3713.942 kb on - strand, within HGI48_RS16560at 3713.957 kb on + strand, within HGI48_RS16560at 3713.958 kb on - strand, within HGI48_RS16560at 3714.000 kb on + strandat 3714.000 kb on + strandat 3714.000 kb on + strandat 3714.057 kb on - strandat 3714.057 kb on - strandat 3714.071 kb on + strandat 3714.072 kb on - strandat 3714.118 kb on + strand, within HGI48_RS16565at 3714.118 kb on + strand, within HGI48_RS16565at 3714.119 kb on - strand, within HGI48_RS16565at 3714.139 kb on + strand, within HGI48_RS16565at 3714.205 kb on + strand, within HGI48_RS16565at 3714.205 kb on + strand, within HGI48_RS16565at 3714.205 kb on + strand, within HGI48_RS16565at 3714.206 kb on - strand, within HGI48_RS16565at 3714.206 kb on - strand, within HGI48_RS16565at 3714.246 kb on + strand, within HGI48_RS16565at 3714.247 kb on - strand, within HGI48_RS16565at 3714.357 kb on - strand, within HGI48_RS16565at 3714.357 kb on - strand, within HGI48_RS16565at 3714.357 kb on - strand, within HGI48_RS16565at 3714.381 kb on + strand, within HGI48_RS16565at 3714.473 kb on + strand, within HGI48_RS16565at 3714.474 kb on - strand, within HGI48_RS16565at 3714.474 kb on - strand, within HGI48_RS16565at 3714.488 kb on + strand, within HGI48_RS16565at 3714.561 kb on + strand, within HGI48_RS16565at 3714.561 kb on + strand, within HGI48_RS16565at 3714.562 kb on - strand, within HGI48_RS16565at 3714.562 kb on - strand, within HGI48_RS16565at 3714.699 kb on - strandat 3714.724 kb on + strandat 3714.725 kb on - strandat 3714.730 kb on + strandat 3714.730 kb on + strandat 3714.793 kb on + strandat 3714.826 kb on + strandat 3714.827 kb on - strandat 3714.827 kb on - strandat 3714.882 kb on + strand, within HGI48_RS16570at 3714.892 kb on + strand, within HGI48_RS16570at 3714.892 kb on + strand, within HGI48_RS16570at 3715.033 kb on + strand, within HGI48_RS16570at 3715.033 kb on + strand, within HGI48_RS16570at 3715.033 kb on + strand, within HGI48_RS16570at 3715.034 kb on - strand, within HGI48_RS16570at 3715.034 kb on - strand, within HGI48_RS16570at 3715.034 kb on - strandat 3715.034 kb on - strand, within HGI48_RS16570at 3715.034 kb on - strand, within HGI48_RS16570at 3715.041 kb on + strand, within HGI48_RS16570at 3715.041 kb on + strand, within HGI48_RS16570at 3715.042 kb on - strand, within HGI48_RS16570

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Per-strain Table

Position Strand Gene LocusTag Fraction Upstate
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3,712,519 - HGI48_RS16555 0.37 -0.2
3,712,519 - HGI48_RS16555 0.37 -2.0
3,712,546 + HGI48_RS16555 0.39 +0.4
3,712,547 - HGI48_RS16555 0.39 -0.0
3,712,547 - HGI48_RS16555 0.39 +1.1
3,712,555 + HGI48_RS16555 0.40 -0.2
3,712,556 - HGI48_RS16555 0.40 -0.7
3,712,556 - HGI48_RS16555 0.40 -2.0
3,712,556 - HGI48_RS16555 0.40 -1.2
3,712,607 + HGI48_RS16555 0.43 -1.0
3,712,607 + HGI48_RS16555 0.43 -1.9
3,712,607 + HGI48_RS16555 0.43 -0.6
3,712,607 + HGI48_RS16555 0.43 +1.5
3,712,607 + -0.4
3,712,607 + -0.0
3,712,608 - HGI48_RS16555 0.43 +0.6
3,712,608 - HGI48_RS16555 0.43 +0.4
3,712,608 - HGI48_RS16555 0.43 -0.4
3,712,678 - HGI48_RS16555 0.48 +0.6
3,712,855 + HGI48_RS16555 0.59 +1.4
3,712,855 + HGI48_RS16555 0.59 +0.9
3,712,855 + HGI48_RS16555 0.59 -0.4
3,712,856 - HGI48_RS16555 0.59 -0.0
3,712,856 - HGI48_RS16555 0.59 +0.1
3,712,875 + HGI48_RS16555 0.61 -0.6
3,712,884 + HGI48_RS16555 0.61 +0.2
3,712,885 - HGI48_RS16555 0.61 -0.2
3,712,911 + HGI48_RS16555 0.63 -1.0
3,712,911 + HGI48_RS16555 0.63 +0.0
3,712,912 - HGI48_RS16555 0.63 -0.4
3,712,912 - HGI48_RS16555 0.63 -0.5
3,713,011 + HGI48_RS16555 0.70 +0.2
3,713,011 + +1.0
3,713,027 + HGI48_RS16555 0.71 +0.3
3,713,028 - HGI48_RS16555 0.71 +0.3
3,713,028 - HGI48_RS16555 0.71 -2.4
3,713,028 - HGI48_RS16555 0.71 +0.4
3,713,028 - +1.6
3,713,049 - HGI48_RS16555 0.72 +1.2
3,713,064 + HGI48_RS16555 0.73 -0.5
3,713,064 + HGI48_RS16555 0.73 -1.6
3,713,064 + HGI48_RS16555 0.73 -1.0
3,713,064 + HGI48_RS16555 0.73 -1.7
3,713,064 + HGI48_RS16555 0.73 -0.4
3,713,064 + HGI48_RS16555 0.73 -0.7
3,713,065 - HGI48_RS16555 0.73 -0.4
3,713,065 - +1.8
3,713,065 - HGI48_RS16555 0.73 -2.9
3,713,065 - HGI48_RS16555 0.73 +0.6
3,713,109 + HGI48_RS16555 0.76 -0.5
3,713,109 + HGI48_RS16555 0.76 +0.9
3,713,109 + -1.0
3,713,110 - HGI48_RS16555 0.76 +0.7
3,713,110 - HGI48_RS16555 0.76 -0.8
3,713,137 + HGI48_RS16555 0.78 +0.3
3,713,138 - HGI48_RS16555 0.78 -1.4
3,713,171 + +1.6
3,713,172 - HGI48_RS16555 0.80 -0.7
3,713,184 + HGI48_RS16555 0.81 +0.8
3,713,184 + HGI48_RS16555 0.81 -0.6
3,713,185 - HGI48_RS16555 0.81 +1.6
3,713,185 - HGI48_RS16555 0.81 -0.3
3,713,185 - HGI48_RS16555 0.81 -0.7
3,713,331 + -2.1
3,713,331 + +0.7
3,713,332 - -0.1
3,713,379 + -0.0
3,713,380 - +0.9
3,713,380 - -0.2
3,713,380 - -2.9
3,713,456 + +0.1
3,713,456 + -2.0
3,713,457 - -0.2
3,713,471 + +1.0
3,713,472 - +0.6
3,713,486 + +0.4
3,713,487 - +1.2
3,713,487 - -0.6
3,713,487 - -1.4
3,713,501 + +0.2
3,713,502 - -2.0
3,713,534 - +0.4
3,713,573 + HGI48_RS16560 0.15 +0.2
3,713,574 - HGI48_RS16560 0.15 -0.2
3,713,634 + HGI48_RS16560 0.26 +2.0
3,713,843 + HGI48_RS16560 0.63 -2.0
3,713,843 + HGI48_RS16560 0.63 -0.5
3,713,844 - HGI48_RS16560 0.63 +1.4
3,713,942 - HGI48_RS16560 0.80 +1.2
3,713,957 + HGI48_RS16560 0.83 +0.3
3,713,958 - HGI48_RS16560 0.83 -0.4
3,714,000 + -0.4
3,714,000 + -0.4
3,714,000 + -2.6
3,714,057 - +0.1
3,714,057 - +2.2
3,714,071 + -0.2
3,714,072 - +0.8
3,714,118 + HGI48_RS16565 0.11 +0.1
3,714,118 + HGI48_RS16565 0.11 -1.7
3,714,119 - HGI48_RS16565 0.11 -0.0
3,714,139 + HGI48_RS16565 0.14 +1.2
3,714,205 + HGI48_RS16565 0.25 +0.4
3,714,205 + HGI48_RS16565 0.25 -1.4
3,714,205 + HGI48_RS16565 0.25 -0.1
3,714,206 - HGI48_RS16565 0.25 -0.3
3,714,206 - HGI48_RS16565 0.25 +0.1
3,714,246 + HGI48_RS16565 0.31 +0.1
3,714,247 - HGI48_RS16565 0.31 -0.0
3,714,357 - HGI48_RS16565 0.48 -0.2
3,714,357 - HGI48_RS16565 0.48 -0.1
3,714,357 - HGI48_RS16565 0.48 -0.7
3,714,381 + HGI48_RS16565 0.52 +0.8
3,714,473 + HGI48_RS16565 0.66 +0.4
3,714,474 - HGI48_RS16565 0.66 -0.4
3,714,474 - HGI48_RS16565 0.66 +0.6
3,714,488 + HGI48_RS16565 0.68 -0.1
3,714,561 + HGI48_RS16565 0.79 +0.2
3,714,561 + HGI48_RS16565 0.79 -0.6
3,714,562 - HGI48_RS16565 0.80 +0.5
3,714,562 - HGI48_RS16565 0.80 +0.3
3,714,699 - -0.3
3,714,724 + -1.0
3,714,725 - -0.6
3,714,730 + +0.6
3,714,730 + +0.9
3,714,793 + -2.2
3,714,826 + +0.1
3,714,827 - +0.3
3,714,827 - -0.2
3,714,882 + HGI48_RS16570 0.15 -0.1
3,714,892 + HGI48_RS16570 0.16 -1.4
3,714,892 + HGI48_RS16570 0.16 +0.2
3,715,033 + HGI48_RS16570 0.30 +0.0
3,715,033 + HGI48_RS16570 0.30 +0.1
3,715,033 + HGI48_RS16570 0.30 +0.9
3,715,034 - HGI48_RS16570 0.30 -0.2
3,715,034 - HGI48_RS16570 0.30 -1.2
3,715,034 - +1.9
3,715,034 - HGI48_RS16570 0.30 -1.4
3,715,034 - HGI48_RS16570 0.30 -0.1
3,715,041 + HGI48_RS16570 0.31 -0.7
3,715,041 + HGI48_RS16570 0.31 +1.3
3,715,042 - HGI48_RS16570 0.31 -0.8

Or see this region's nucleotide sequence