Antibody assignment errors in CDR1 and CDR2 nucleotide sequences and amino acid translations

[lhuang3s]

Hello,

I used abstar 0.6.4 for identifying humanized mouse antibody sequences. I have encountered assignment errors in the CDR1 and CDR2 regions. The sequences were identified as productive, however, the CDR1 and CDR2 regions were wrongly assigned and contains stop condons. I have listed some sequences below for your reference:

Sequence-1
GATGGGGCTGTTGTTTCAGCTGAGGAGACGGTGACCAGGGTTCCCAGGCCCCAGTAGTCAAAGTACCCCCCGTAGCCACTCCAATTCCCTCTCGCACAGTAATACACGGCCGTGTCGTCAGATCTCAGCCTGCTCAGTTCCATGTAGGCTGTGTTGATGGACGTGTCCCTGGTCATGGTGACCCTGCCCTGAAACTTCTGTGCATAGTTTGTGCCACCACTGTTAGGGTTGATCCATCCCATCCACTCAAGCCCTTGTCCAGGGGCCTGTCGCACCCAGTGCATATAGTAGCCGGTGAAGGTGTATCCAGAAGCCTTGCAGGAGACCTTAACTGAGGCCCCAGGCTTCTTCACCTCAGCCCCAGACTGCACCAGCTGCACCTGGGAGTGGGCTCCTGTGGCTGCTGCCACCAAGAAGAGGATCCTCCAGGTCCAGTCCATGGTGAGGAACGGAGCTCTCAGGGGATTCTCTAGAGGACAGATGTGGTTGCTGGGTGATGCTCCCCC
Sequence-2
GATGGGGCTGTTGTTTCAGCTGAGGAGACGGTGACCAGGGTTCCCAGGCCCCAGTAGTCAAAGTACCCCCCGTAGCCACTCCAATTCCCTCTCGCACAGTAATACACGGCCGTGTCGTCAGATCTCAGCCTGCTCAGTTCCATGTAGGCTGTGTTGATGGACGTGTCCCTGGTCATGGTGACCCTGCCCTGAAACTTCTGTGCATAGTTTGTGCCACCACTGTTAGGGTTGATCCATCCCATCCACTCAAGCCCTTGTCCAGGGGCCTGTCGCACCCAGTGCATATAGTAGCCGGTGAAGCCC
Sequence-3
GATGGGGCTGTTGTTTGGGCTGAGGAGACGGTGACCAGGGTTCCCTGGCCCCAGTAGTCAAGAATAACCACTCCAAAAATCCCTCTCACACAGTAATACACGGCCGTGTCGTCAGATCTCAGGCTCCCCACCTCCATGTAGGCTGTGCTCGTGGATGTGTCTGTGGTCATGGTGCCTCTGCCCTGGACCTTCTGTGCATAGATTGTGTTACCATTGTAAGCGCTGATCCATCCCATCCACTCATGCCCTTGTCCAGGGGCCTGTCGCACCCAGCTGATACCATAGCTGGTAAAGGTGTAATCAGAAGCCTGGCAGGAGACCTTCACTGAGGCCCCAGGCTTCTTCACCTCAGCTCCAGACTGCACCAGCTGAACCTGGGAGTGGGCACCTGTTGCTGCTGCCACCAAGAAAAGGATGCTCCAGGTCCAGTCCATGGTGAGGAGCTGTGATCTAGGGGATTCTCCCAAGGAGGGGTGTGGTTTTTGGGTCCCC

Sequence-1 has the same clonotype as Sequence-2, however, when using the humouse database as the reference, Sequence-1 is correctly assigned while Sequence-2 and Sequence-3 have mistakes in CDR1 and CDR2 assignment. When I switched to human as the reference database, both Sequence-1 and Sequence-3 were correctly assigned while Sequence-2 still contain the same error. When I use the IgBlast to test Sequence-2 with the human reference, the sequence was correctly assigned.

I hope these information would be helpful for identifying the cause if the issue. Thank you!