User:Eric Martz/Sandbox 13
Sequence Alignment Tools
What I want:
- % identity vs. length of each chain and number of identical residues/chain length for each chain
- colors that indicate identity/similarity/difference
- ability to block a region of the alignment and get identity and length for that region (could cut and paste a new job ...)
JalviewJalview
Seems to be mostly an alignment editing tool.
ClustalW2 at EBIClustalW2 at EBI
- has colors but no color key
- no % id (?!)
- give a score but doesn't explain it.
RCSB Compare StructuresRCSB Compare Structures
- Smith-Waterman or Needleman-Wunsch does #1,#2 but only for sequences of 3D structures.
- Smith-Waterman shows only the aligned segments, while Needleman-Wunsch shows full length with gaps.
Swiss-Model
Why doesn't it make a model of FlgE CamJe using 1wlg?