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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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(   36 1a41  )  (   13 1a0p  )     0.5328   0.7962   5.2669 (   1   23   28)   0     0.5328   0.7962   15  10
(   36 1a41  )  (   36 1a41  )     1.0000   1.0000   0.0000 (   0   89  105)   0     1.0000   1.0000   15  15
(   36 1a41  )  (  112 1ae9_A)     0.5951   0.8653   6.8369 (   2   29   36)   0     0.5951   0.8653   15  10
(   36 1a41  )  (  131 1aih_A)     0.6091   0.7226   7.3415 (   4   33   45)   0     0.6091   0.7933   15  11
(   36 1a41  )  ( 1394 1f44_A)     0.5734   0.6322   6.2468 (   5   35   45)   0     0.5734   0.6322   15  12
(   36 1a41  )  ( 1553 1flo_A)     0.6365   0.5714   6.6614 (   3   30   45)   0     0.6365   0.5714   15  17
(   36 1a41  )  ( 3176 1k4t_A)     0.6496   0.6907   5.3241 (   3   35   45)   0     0.6496   0.6907   15  14

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