Hello: I am trying to use my own mutiple alignment to generate model, but it faild, it is said :

---------------log---------------------------------------- Protein specified in ALIGN_CODES(i) was not found in the alignment file; ALIGN_CODES( 4) = protein

Here is parameter in my model-changeopt.py: ---------------model-changeopt.py---------------------- a = automodel(env, alnfile='man.ali', knowns=('1A','2A','3A'), sequence='protein', assess_methods=(assess.DOPE, assess.GA341)) a.starting_model =1 a.ending_model = 4 .......

Here is my alignment file, man.ali: ------------------------man.ali------------------------------- >P1; protein sequence:ttl: : : : ::: 0.00: 0.00 aaaaaaaaaaaaaabbbbbbbbbbbbbbcccccccccccccccccccc* >P1;1A structureX:1: 1 :A:+14 :A:::-1.00:-1.00 aaaaaaaaaaaaaa--------------------------------------------* >P1;2A structureX:2: 1 :A:+16 :A:::-1.00:-1.00 -----------------aabbbbbbbbbbbbbb--------------------------* >P1;3A structureX:3: 1 :A:+20 :A:::-1.00:-1.00 --------------------------------------cccccccccccccccccccc*

I have 1.pdb 2.pdb 3.pdb and 1_fit.pdb 2_fit.pdb 3_fit.pdb in the same directory.

could you please give me some advices please? Thank you very much