Table 3.
Intrahost amino acid diversity of SLEV isolates for aa 439–1109.
| Strain | State | Year | Clones | aa changes | aa div.a (%) | nc varb | seq div.c (%) |
|---|---|---|---|---|---|---|---|
| U0476 | TX | 2003 | 23 | 0 | 0.000 | 0 | 0.00 |
| V3916 | TX | 1998 | 24 | 1 | 0.006 | 1 | 4.17 |
| V4179 | TX | 1998 | 24 | 0 | 0.000 | 0 | 0.00 |
| V2679 | TX | 1996 | 24 | 1 | 0.006 | 1 | 4.17 |
| V1042 | TX | 1994 | 24 | 3 | 0.019 | 3 | 12.50 |
| V3248 | TX | 1992 | 24 | 13 | 0.081 | 11 | 45.83 |
| V3222 | TX | 1991 | 24 | 16 | 0.099 | 13 | 54.17 |
| V4209 | TX | 1990 | 24 | 10 | 0.062 | 8 | 33.33 |
| COAV888 | CA | 2003 | 19 | 1 | 0.008 | 1 | 5.26 |
| COAV1257 | CA | 2003 | 20 | 1 | 0.007 | 1 | 5.00 |
| IMPR115 | CA | 2003 | 19 | 1 | 0.007 | 1 | 5.00 |
| COAV382 | CA | 2001 | 19 | 0 | 0.000 | 0 | 0.00 |
| COAV383 | CA | 2001 | 19 | 3 | 0.024 | 2 | 10.53 |
| COAV332 | CA | 2000 | 18 | 1 | 0.008 | 1 | 5.55 |
| COAV333 | CA | 2000 | 19 | 1 | 0.007 | 1 | 5.00 |
| SAND29 | CA | 1993 | 19 | 6 | 0.052 | 5 | 26.32 |
| SAND39 | CA | 1993 | 17 | 2 | 0.015 | 1 | 5.88 |
| SOUE20 | CA | 1984 | 20 | 1 | 0.007 | 1 | 5.00 |
| BFS2874 | CA | 1960 | 19 | 5 | 0.039 | 3 | 15.79 |
| BFS508 | CA | 1950 | 21 | 1 | 0.007 | 1 | 4.76 |
a
Amino acid diversity = total aa changes (differences from consensus)/total sequenced (~15,000).
b
Nonconsensus variants = aa haplotypes with at least one aa change relative to consensus.
c
Sequence diversity = % of clones with at least one aa change.