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Top-ranked similarities (based on backbone shifts), as measured by a combination of score and contiguity.
Some relevant parameters:  
        HELIX min length: 5     STRAND min length: 3
        shift-tolerance = -10    permissible-violations = 4   max-breaks = NIL   retain-m = 100   best-n = 100
        anglethresh = 0.5    septhresh = 5   min_length = 4   rmsd-tol = 9.9999999999999E12

Legend:
( ix1 chain1 )  ( ix2 chain2 )   rho___12 rho___21 L2_ERROR (Xbad Xsig Xtot) BRK   maxrho12 maxrho21  SS1 SS2

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( 5204 1q48_A)  ( 4083 1mzg_A)     0.7376   0.6242   3.5869 (   1    9   15)   0     0.7376   0.6242    7   9
( 5204 1q48_A)  ( 4268 1ni7_A)     0.9981   0.6997   4.7127 (   0   11   21)   0     0.9981   0.6997    7  10
( 5204 1q48_A)  ( 5204 1q48_A)     1.0000   1.0000   0.0000 (   0   14   21)   0     1.0000   1.0000    7   7

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