Added 66 sequences from San Diego

andersen-lab · Apr 30, 2024 · f105377 · f105377
1 parent c1136eb
commit f105377
Show file tree

Hide file tree

Showing 70 changed files with 202,194 additions and 100,636 deletions.
diff --git a/README.md b/README.md
@@ -121,10 +121,10 @@ All consensus sequences will be deposited on GISAID and on NCBI under BioProject
 | USA/California/Orange County                    |                     9 |
 | USA/California/Placer                           |                    11 |
 | USA/California/RIverside                        |                     1 |
-| USA/California/Riverside                        |                   638 |
+| USA/California/Riverside                        |                   639 |
 | USA/California/Sacramento                       |                     6 |
 | USA/California/San Bernardino                   |                    84 |
-| USA/California/San Diego                        |                 96207 |
+| USA/California/San Diego                        |                 96284 |
 | USA/California/San Francisco                    |                    20 |
 | USA/California/San Mateo                        |                    59 |
 | USA/California/Santa Barbara                    |                     5 |

diff --git a/consensus_sequences/CA-SEARCH-139798.fasta b/consensus_sequences/CA-SEARCH-139798.fasta
diff --git a/consensus_sequences/CA-SEARCH-140005.fasta b/consensus_sequences/CA-SEARCH-140005.fasta
diff --git a/consensus_sequences/CA-SEARCH-140006.fasta b/consensus_sequences/CA-SEARCH-140006.fasta
diff --git a/consensus_sequences/CA-SEARCH-140007.fasta b/consensus_sequences/CA-SEARCH-140007.fasta
diff --git a/consensus_sequences/CA-SEARCH-140010.fasta b/consensus_sequences/CA-SEARCH-140010.fasta
diff --git a/consensus_sequences/CA-SEARCH-140011.fasta b/consensus_sequences/CA-SEARCH-140011.fasta
diff --git a/consensus_sequences/CA-SEARCH-140013.fasta b/consensus_sequences/CA-SEARCH-140013.fasta
diff --git a/consensus_sequences/CA-SEARCH-140014.fasta b/consensus_sequences/CA-SEARCH-140014.fasta
diff --git a/consensus_sequences/CA-SEARCH-140016.fasta b/consensus_sequences/CA-SEARCH-140016.fasta
diff --git a/consensus_sequences/CA-SEARCH-140017.fasta b/consensus_sequences/CA-SEARCH-140017.fasta
diff --git a/consensus_sequences/CA-SEARCH-140021.fasta b/consensus_sequences/CA-SEARCH-140021.fasta
diff --git a/consensus_sequences/CA-SEARCH-140022.fasta b/consensus_sequences/CA-SEARCH-140022.fasta
diff --git a/consensus_sequences/CA-SEARCH-140023.fasta b/consensus_sequences/CA-SEARCH-140023.fasta
diff --git a/consensus_sequences/CA-SEARCH-140024.fasta b/consensus_sequences/CA-SEARCH-140024.fasta
diff --git a/consensus_sequences/CA-SEARCH-140025.fasta b/consensus_sequences/CA-SEARCH-140025.fasta
diff --git a/consensus_sequences/CA-SEARCH-140026.fasta b/consensus_sequences/CA-SEARCH-140026.fasta
diff --git a/consensus_sequences/CA-SEARCH-140027.fasta b/consensus_sequences/CA-SEARCH-140027.fasta
diff --git a/consensus_sequences/CA-SEARCH-140030.fasta b/consensus_sequences/CA-SEARCH-140030.fasta
diff --git a/consensus_sequences/CA-SEARCH-140032.fasta b/consensus_sequences/CA-SEARCH-140032.fasta
diff --git a/consensus_sequences/CA-SEARCH-140034.fasta b/consensus_sequences/CA-SEARCH-140034.fasta
diff --git a/consensus_sequences/CA-SEARCH-140035.fasta b/consensus_sequences/CA-SEARCH-140035.fasta
diff --git a/consensus_sequences/CA-SEARCH-140036.fasta b/consensus_sequences/CA-SEARCH-140036.fasta
diff --git a/consensus_sequences/CA-SEARCH-140037.fasta b/consensus_sequences/CA-SEARCH-140037.fasta
diff --git a/consensus_sequences/CA-SEARCH-140039.fasta b/consensus_sequences/CA-SEARCH-140039.fasta
diff --git a/consensus_sequences/CA-SEARCH-140040.fasta b/consensus_sequences/CA-SEARCH-140040.fasta
diff --git a/consensus_sequences/CA-SEARCH-140041.fasta b/consensus_sequences/CA-SEARCH-140041.fasta
diff --git a/consensus_sequences/CA-SEARCH-140045.fasta b/consensus_sequences/CA-SEARCH-140045.fasta
diff --git a/consensus_sequences/CA-SEARCH-140048.fasta b/consensus_sequences/CA-SEARCH-140048.fasta
diff --git a/consensus_sequences/CA-SEARCH-140049.fasta b/consensus_sequences/CA-SEARCH-140049.fasta
diff --git a/consensus_sequences/CA-SEARCH-140050.fasta b/consensus_sequences/CA-SEARCH-140050.fasta
diff --git a/consensus_sequences/CA-SEARCH-140053.fasta b/consensus_sequences/CA-SEARCH-140053.fasta
diff --git a/consensus_sequences/CA-SEARCH-140055.fasta b/consensus_sequences/CA-SEARCH-140055.fasta
diff --git a/consensus_sequences/CA-SEARCH-140056.fasta b/consensus_sequences/CA-SEARCH-140056.fasta
diff --git a/consensus_sequences/CA-SEARCH-140059.fasta b/consensus_sequences/CA-SEARCH-140059.fasta
diff --git a/consensus_sequences/CA-SEARCH-140062.fasta b/consensus_sequences/CA-SEARCH-140062.fasta
diff --git a/consensus_sequences/CA-SEARCH-140063.fasta b/consensus_sequences/CA-SEARCH-140063.fasta
diff --git a/consensus_sequences/CA-SEARCH-140064.fasta b/consensus_sequences/CA-SEARCH-140064.fasta
diff --git a/consensus_sequences/CA-SEARCH-140067.fasta b/consensus_sequences/CA-SEARCH-140067.fasta
diff --git a/consensus_sequences/CA-SEARCH-140069.fasta b/consensus_sequences/CA-SEARCH-140069.fasta
diff --git a/consensus_sequences/CA-SEARCH-140070.fasta b/consensus_sequences/CA-SEARCH-140070.fasta
diff --git a/consensus_sequences/CA-SEARCH-140071.fasta b/consensus_sequences/CA-SEARCH-140071.fasta
diff --git a/consensus_sequences/CA-SEARCH-140073.fasta b/consensus_sequences/CA-SEARCH-140073.fasta
diff --git a/consensus_sequences/CA-SEARCH-140077.fasta b/consensus_sequences/CA-SEARCH-140077.fasta
diff --git a/consensus_sequences/CA-SEARCH-140079.fasta b/consensus_sequences/CA-SEARCH-140079.fasta
diff --git a/consensus_sequences/CA-SEARCH-140081.fasta b/consensus_sequences/CA-SEARCH-140081.fasta
diff --git a/consensus_sequences/CA-SEARCH-140082.fasta b/consensus_sequences/CA-SEARCH-140082.fasta
diff --git a/consensus_sequences/CA-SEARCH-140083.fasta b/consensus_sequences/CA-SEARCH-140083.fasta
diff --git a/consensus_sequences/CA-SEARCH-140088.fasta b/consensus_sequences/CA-SEARCH-140088.fasta
diff --git a/consensus_sequences/CA-SEARCH-140089.fasta b/consensus_sequences/CA-SEARCH-140089.fasta
diff --git a/consensus_sequences/CA-SEARCH-140090.fasta b/consensus_sequences/CA-SEARCH-140090.fasta
diff --git a/consensus_sequences/CA-SEARCH-140091.fasta b/consensus_sequences/CA-SEARCH-140091.fasta
diff --git a/consensus_sequences/CA-SEARCH-140092.fasta b/consensus_sequences/CA-SEARCH-140092.fasta
diff --git a/consensus_sequences/CA-SEARCH-140093.fasta b/consensus_sequences/CA-SEARCH-140093.fasta
diff --git a/consensus_sequences/CA-SEARCH-140095.fasta b/consensus_sequences/CA-SEARCH-140095.fasta
diff --git a/consensus_sequences/CA-SEARCH-140096.fasta b/consensus_sequences/CA-SEARCH-140096.fasta
diff --git a/consensus_sequences/CA-SEARCH-140097.fasta b/consensus_sequences/CA-SEARCH-140097.fasta
diff --git a/consensus_sequences/CA-SEARCH-140098.fasta b/consensus_sequences/CA-SEARCH-140098.fasta
diff --git a/consensus_sequences/CA-SEARCH-140100.fasta b/consensus_sequences/CA-SEARCH-140100.fasta
diff --git a/consensus_sequences/CA-SEARCH-140102.fasta b/consensus_sequences/CA-SEARCH-140102.fasta
diff --git a/consensus_sequences/CA-SEARCH-140103.fasta b/consensus_sequences/CA-SEARCH-140103.fasta
diff --git a/consensus_sequences/CA-SEARCH-140104.fasta b/consensus_sequences/CA-SEARCH-140104.fasta
diff --git a/consensus_sequences/CA-SEARCH-140105.fasta b/consensus_sequences/CA-SEARCH-140105.fasta
diff --git a/consensus_sequences/CA-SEARCH-140107.fasta b/consensus_sequences/CA-SEARCH-140107.fasta
diff --git a/consensus_sequences/CA-SEARCH-140108.fasta b/consensus_sequences/CA-SEARCH-140108.fasta
diff --git a/consensus_sequences/CA-SEARCH-140109.fasta b/consensus_sequences/CA-SEARCH-140109.fasta
diff --git a/consensus_sequences/CA-SEARCH-140110.fasta b/consensus_sequences/CA-SEARCH-140110.fasta
diff --git a/lineage_report.csv b/lineage_report.csv
diff --git a/metadata.csv b/metadata.csv
diff --git a/old_lineage_reports/2024-04-16_lineage_report.csv b/old_lineage_reports/2024-04-16_lineage_report.csv