Experiment: Upstate
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.
500 nt HGI48_RS16555 and HGI48_RS16560 are separated by 13 nucleotides HGI48_RS16560 and HGI48_RS16565 overlap by 8 nucleotides HGI48_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
3715 Strain fitness (log2 ratio)
-3
-2
-1
0
1
2 at 3712.519 kb on - strand, within HGI48_RS16555 at 3712.519 kb on - strand, within HGI48_RS16555 at 3712.546 kb on + strand, within HGI48_RS16555 at 3712.547 kb on - strand, within HGI48_RS16555 at 3712.547 kb on - strand, within HGI48_RS16555 at 3712.555 kb on + strand, within HGI48_RS16555 at 3712.556 kb on - strand, within HGI48_RS16555 at 3712.556 kb on - strand, within HGI48_RS16555 at 3712.556 kb on - strand, within HGI48_RS16555 at 3712.607 kb on + strand, within HGI48_RS16555 at 3712.607 kb on + strand, within HGI48_RS16555 at 3712.607 kb on + strand, within HGI48_RS16555 at 3712.607 kb on + strand, within HGI48_RS16555 at 3712.607 kb on + strand at 3712.607 kb on + strand at 3712.608 kb on - strand, within HGI48_RS16555 at 3712.608 kb on - strand, within HGI48_RS16555 at 3712.608 kb on - strand, within HGI48_RS16555 at 3712.678 kb on - strand, within HGI48_RS16555 at 3712.855 kb on + strand, within HGI48_RS16555 at 3712.855 kb on + strand, within HGI48_RS16555 at 3712.855 kb on + strand, within HGI48_RS16555 at 3712.856 kb on - strand, within HGI48_RS16555 at 3712.856 kb on - strand, within HGI48_RS16555 at 3712.875 kb on + strand, within HGI48_RS16555 at 3712.884 kb on + strand, within HGI48_RS16555 at 3712.885 kb on - strand, within HGI48_RS16555 at 3712.911 kb on + strand, within HGI48_RS16555 at 3712.911 kb on + strand, within HGI48_RS16555 at 3712.912 kb on - strand, within HGI48_RS16555 at 3712.912 kb on - strand, within HGI48_RS16555 at 3713.011 kb on + strand, within HGI48_RS16555 at 3713.011 kb on + strand at 3713.027 kb on + strand, within HGI48_RS16555 at 3713.028 kb on - strand, within HGI48_RS16555 at 3713.028 kb on - strand, within HGI48_RS16555 at 3713.028 kb on - strand, within HGI48_RS16555 at 3713.028 kb on - strand at 3713.049 kb on - strand, within HGI48_RS16555 at 3713.064 kb on + strand, within HGI48_RS16555 at 3713.064 kb on + strand, within HGI48_RS16555 at 3713.064 kb on + strand, within HGI48_RS16555 at 3713.064 kb on + strand, within HGI48_RS16555 at 3713.064 kb on + strand, within HGI48_RS16555 at 3713.064 kb on + strand, within HGI48_RS16555 at 3713.065 kb on - strand, within HGI48_RS16555 at 3713.065 kb on - strand at 3713.065 kb on - strand, within HGI48_RS16555 at 3713.065 kb on - strand, within HGI48_RS16555 at 3713.109 kb on + strand, within HGI48_RS16555 at 3713.109 kb on + strand, within HGI48_RS16555 at 3713.109 kb on + strand at 3713.110 kb on - strand, within HGI48_RS16555 at 3713.110 kb on - strand, within HGI48_RS16555 at 3713.137 kb on + strand, within HGI48_RS16555 at 3713.138 kb on - strand, within HGI48_RS16555 at 3713.171 kb on + strand at 3713.172 kb on - strand, within HGI48_RS16555 at 3713.184 kb on + strand, within HGI48_RS16555 at 3713.184 kb on + strand, within HGI48_RS16555 at 3713.185 kb on - strand, within HGI48_RS16555 at 3713.185 kb on - strand, within HGI48_RS16555 at 3713.185 kb on - strand, within HGI48_RS16555 at 3713.331 kb on + strand at 3713.331 kb on + strand at 3713.332 kb on - strand at 3713.379 kb on + strand at 3713.380 kb on - strand at 3713.380 kb on - strand at 3713.380 kb on - strand at 3713.456 kb on + strand at 3713.456 kb on + strand at 3713.457 kb on - strand at 3713.471 kb on + strand at 3713.472 kb on - strand at 3713.486 kb on + strand at 3713.487 kb on - strand at 3713.487 kb on - strand at 3713.487 kb on - strand at 3713.501 kb on + strand at 3713.502 kb on - strand at 3713.534 kb on - strand at 3713.573 kb on + strand, within HGI48_RS16560 at 3713.574 kb on - strand, within HGI48_RS16560 at 3713.634 kb on + strand, within HGI48_RS16560 at 3713.843 kb on + strand, within HGI48_RS16560 at 3713.843 kb on + strand, within HGI48_RS16560 at 3713.844 kb on - strand, within HGI48_RS16560 at 3713.942 kb on - strand, within HGI48_RS16560 at 3713.957 kb on + strand, within HGI48_RS16560 at 3713.958 kb on - strand, within HGI48_RS16560 at 3714.000 kb on + strand at 3714.000 kb on + strand at 3714.000 kb on + strand at 3714.057 kb on - strand at 3714.057 kb on - strand at 3714.071 kb on + strand at 3714.072 kb on - strand at 3714.118 kb on + strand, within HGI48_RS16565 at 3714.118 kb on + strand, within HGI48_RS16565 at 3714.119 kb on - strand, within HGI48_RS16565 at 3714.139 kb on + strand, within HGI48_RS16565 at 3714.205 kb on + strand, within HGI48_RS16565 at 3714.205 kb on + strand, within HGI48_RS16565 at 3714.205 kb on + strand, within HGI48_RS16565 at 3714.206 kb on - strand, within HGI48_RS16565 at 3714.206 kb on - strand, within HGI48_RS16565 at 3714.246 kb on + strand, within HGI48_RS16565 at 3714.247 kb on - strand, within HGI48_RS16565 at 3714.357 kb on - strand, within HGI48_RS16565 at 3714.357 kb on - strand, within HGI48_RS16565 at 3714.357 kb on - strand, within HGI48_RS16565 at 3714.381 kb on + strand, within HGI48_RS16565 at 3714.473 kb on + strand, within HGI48_RS16565 at 3714.474 kb on - strand, within HGI48_RS16565 at 3714.474 kb on - strand, within HGI48_RS16565 at 3714.488 kb on + strand, within HGI48_RS16565 at 3714.561 kb on + strand, within HGI48_RS16565 at 3714.561 kb on + strand, within HGI48_RS16565 at 3714.562 kb on - strand, within HGI48_RS16565 at 3714.562 kb on - strand, within HGI48_RS16565 at 3714.699 kb on - strand at 3714.724 kb on + strand at 3714.725 kb on - strand at 3714.730 kb on + strand at 3714.730 kb on + strand at 3714.793 kb on + strand at 3714.826 kb on + strand at 3714.827 kb on - strand at 3714.827 kb on - strand at 3714.882 kb on + strand, within HGI48_RS16570 at 3714.892 kb on + strand, within HGI48_RS16570 at 3714.892 kb on + strand, within HGI48_RS16570 at 3715.033 kb on + strand, within HGI48_RS16570 at 3715.033 kb on + strand, within HGI48_RS16570 at 3715.033 kb on + strand, within HGI48_RS16570 at 3715.034 kb on - strand, within HGI48_RS16570 at 3715.034 kb on - strand, within HGI48_RS16570 at 3715.034 kb on - strand at 3715.034 kb on - strand, within HGI48_RS16570 at 3715.034 kb on - strand, within HGI48_RS16570 at 3715.041 kb on + strand, within HGI48_RS16570 at 3715.041 kb on + strand, within HGI48_RS16570 at 3715.042 kb on - strand, within HGI48_RS16570
Per-strain Table
Position Strand Gene LocusTag Fraction Upstate remove 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