Table 1.
Consensus substitutions in the genome of different UGA/MR-766/1947 sequences, with numbers representing the nucleotide position in the genome for each sequence.
| Alignment position | NC_012532.1_NR-50065 | KU720415.1 | KX830960.1 | KX377335.1 | LC002520.1 | JCVI_KU963573.2_NR-50065* | KX601169.1 |
|---|---|---|---|---|---|---|---|
| 118 | 1 base insertion of C at 118; after 117 | ||||||
| 139 | 1 base deletion of T after 138 | ||||||
| 721 | A at 720 | A at 713 | A at 720 | G at 720 | A at 720 | A at 712 | A at 684 |
| 1100 | C at 1099 | T at 1092 | T at 1099 | T at 1099 | T at 1099 | C at 1091 | T at 1063 |
| 1388 | T at 1387 | T at 1380 | T at 1387 | T at 1387 | T at 1387 | C at 1379 | T at 1351 |
| 1432 | T at 1431 | T at 1424 | T at 1431 | T at 1431 | C at 1431 | T at 1423 | T at 1395 |
| 1435.0.1446 | 12 base deletion after 1433 | 12 base insertion at 1427.0.1438 compared to NC_012532.1 | 12 base insertion at 1434.0.1445 compared to NC_012532.1 | 12 base insertion at 1434.0.1445 compared to NC_012532.1 | 12 base insertion at 1434.0.1445 compared to NC_012532.1 and T at 1443 in insertion instead of C | 12 base deletion after 1425 | 12 base deletion after 1397 in consensus; also has reads with no deletion |
| 1464 | G at 1451 | A at 1456 | A at 1463 | A at 1463 | A at 1463 | A at 1443 | A at 1415 |
| 1562 | C at 1549 | C at 1554 | C at 1561 | T at 1562 | C at 1561 | C at 1541 | C at 1513 |
| 1670 | C at 1657 | C at 1662 | C at 1669 | C at 1669 | T at 1669 | C at 1649 | C at 1621 |
| 1825 | G at 1812 | A at 1817 | A at 1824 | A at 1824 | A at 1824 | A at 1804 | A at 1776 |
| 3065 | G at 3052 | G at 3057 | G at 3064 | A at 3064 | G at 3064 | G at 3044 | G at 3016 |
| 4472 | C at 4459 | T at 4464 | T at 4471 | T at 4471 | T at 4471 | T at 4451 | T at 4423 |
| 4520 | C at 4507 | C at 4512 | C at 4519 | C at 4519 | T at 4519 | C at 4499 | C at 4471 |
| 5178 | C at 5165 | C at 5170 | C at 5177 | T at 5177 | C at 5177 | C at 5157 | C at 5129 |
| 5457 | A at 5444 | T at 5449 | T at 5456 | T at 5456 | T at 5456 | T at 5436 | T at 5408 |
| 5513 | C at 5500 | C at 5505 | C at 5512 | C at 5512 | T at 5512 | C at 5492 | C at 5464 |
| 6338 | T at 6325 | C at 6330 | C at 6337 | C at 6337 | C at 6337 | C at 6317 | C at 6289 |
| 6353 | T at 6340 | G at 6345 | G at 6352 | G at 6352 | G at 6352 | G at 6332 | G at 6304 |
| 7173 | 1 bp gap of T after 7159 | T at 7165 | T at 7172 | T at 7172 | T at 7172 | T at 7152 | T at 7124 |
| 7183 | 1 bp insertion of G after 7168 | 1 base gap after 7174 | 1 base gap after 7181 | 1 base gap after 7181 | 1 base gap after 7181 | 1 base gap after 7161 | 1 base gap after 7133 |
| 7852 | A at 7838 | C at 7843 | C at 7850 | C at 7850 | C at 7850 | C at 7830 | C at 7802 |
| 7865 | A at 7851 | T at 7856 | T at 7863 | T at 7863 | T at 7863 | T at 7843 | T at 7815 |
| 8303 | G at 8289 | C at 8294 | C at 8301 | C at 8301 | C at 8301 | C at 8281 | C at 8253 |
| 8394 | A at 8380 | A at 8385 | A at 8392 | G at 8392 | A at 8392 | A at 8372 | A at 8344 |
| 10140 | C at 10126 | C at 10131 | C at 10138 | C at 10138 | C at 10138 | T at 10118 | C at 10090 |
| 10345 | T at 10331 | T at 10336 | T at 10343 | T at 10343 | T at 10343 | C at 10323 | T at 10295 |
| 10696 | A at 10682 | C at 10687 | A at 10694 | A at 10694 | A at 10694 | A at 10674 | A at 10646 |
| Missing 34 bases at 3′ end compared to NC_012532.1 | Missing 110 bases at 3′ end compared to NC_012532.1 |
*Sequenced at JCVI as part of the current work.