Hello everybody,

I want to build a pipeline for automatically composing MSAs and afterwards creating HMMER Profiles. Now I encounter an error I can't find a solution for:

Alignment input parse error:
   sequence Actinidia_chinensis_00002.t1 has alen 151; expected 251
   while reading aligned FASTA file Actinidia_chinensis.fa
   at or near line 5
# hmmbuild :: profile HMM construction from multiple sequence alignments
# HMMER 3.2.1 (June 2018); http://hmmer.org/
# Copyright (C) 2018 Howard Hughes Medical Institute.
# Freely distributed under the BSD open source license.
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
# input alignment file:             Actinidia_chinensis.fa
# output HMM file:                  Actinidia_chinensis.hmm
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -

# idx name                  nseq  alen  mlen eff_nseq re/pos description
#---- -------------------- ----- ----- ----- -------- ------ -----------

Has anybody encountered this problem and found a solution?