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For the maximum homonucleotide sequence within a probe, we recorded the longest stretch of homonucleotides >2 for all four possible nucleotides (A,G,C,T; four different variables for each probe: polyA, polyC, polyG, polyT).
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Although this insertion caused an inframe mutation here, the principle for introduction of long homonucleotide sequence leading to frameshift could be the same mechanism, implying that the HPN can be formed at a specific site in one-step by both single-strand slipped repair or by recombination.
BLAST analysis for each ARG protein was performed using blastp command of NCBI BLAST version 2.2.31+, with the following parameters: the maximum target sequence of 55 million sequences and E value below 1E−50.
Max transduced, maximum unique sequence transduced in cloned insert.
The score for a particular term was calculated as the maximum sequence identity between the target protein and any protein experimentally annotated with that term.
Maximum- likelihood sequence estimation.
The maximum sequence length was 54.
(D.6) is the maximum sequence among sequences in and having the first symbol one at position.
Maximum sequence length (length); Chromosome (chr).
Sequences were analyzed for maximum sequence diversity and visually inspected with highlighter tools http://www.hiv.lanl.gov.hiv.lanl.gov
Total 4,988 sequences (7.82%) were longer than 1,000 bp with maximum sequence length of 5,210 bp.
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