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    MAAGAAAAFAAAATTTTTTTTFTTTTTTTTTTTTAAAAEAAAARAAAAAA # 1. sequence
             TTTTTTTTFTTTTTTTTTTTT                 # 2. sequence
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    SUBSTITUTION
AAAAEAAAARGAAATTTTFTTTTTTTTTTTTTTTTAAAAAAAAILVAAAAAAAA # 1. sequence
...
PERFECT MATCHING ONLY AT BEGIN AND END OF 2. SEQUENCE
AAAAAAAAAAATTTTTTTTGGGGGGGGGGGGGGGGGGGGGTTTTTTTTTAAAAAAA # 1.sequence
           TTTTTTTTGGGNNGGGEEGGGEGGGGGGTTTTTTTTT    # 2. Sequence