Выравнивание 1
(change=0.6|replace=0.6)		 Выравнивание 2
(change=0.6|replace=0.8)		 Выравнивание 3
(change=0.4|replace=0.8)
JalView(вручную)
needle 
65 VDIALFSTIHRVQLPSG-SFS 85
   .|.|.|||..|.:||:. ||  
1 -RDPAAFSTKRRHKLPNKISF- 20
 
172 GIAVMSGIFSSAEPLEAARRYS 192
     .:.:|.||:..|.:.....|
1   -NSHLSKIFTRIEVMAGKATY-20
 
105 EEAVQAEKEDADYVLFGHVFETDCK 125
     .||...||.|  .|.|.| .|.|
   1-YAVGRIKECA--YLAGKV-ATPC- 20
water 
66 DIALFSTIHRVQLPS     80
   |.|.|||..|.:||:
2  DPAAFSTKRRHKLPN     16
 
176 MSGIFSSAEPLEAARRY    192
    :|.||:..|.:.....|
  4 LSKIFTRIEVMAGKATY     20
 
195 KLKEMRY    201
    ::||..|
  5 RIKECAY     11