SARS-CoV-2 oligos in other human coronaviruses


False positives could be a problem when using PCR primers and probes due to binding in DNA non target species. SARS-CoV-2 oligos with a high divergence to other strains should be preferred.


Procedure used in Cov2ID to assess inter-strain diversity

CoV2ID_Other_CoV_procedure

Ranking of SARS-CoV-2 primer pairs according to their difference to other human coronaviruses. The lower the CoV2ID score, the lower the similarity of the oligo with other coronavirus genomes (i.e., less likely to bind).

Click on the oligonucleotide reference number to open a separate page with additional information.

Database reference Target Original name Sequence (5-3) Position in reference genome Genomic region Sequence in referencegenome POS PIS 3'PIS PPI CoV2ID score Detection protocols
Database reference Target Original name Sequence (5-3) Position in reference genome Genomic region Sequence in referencegenome POS PIS 3'PIS PPI CoV2ID score Detection protocols
CoV2ID001 PCR primer forward China_CDC_Meta1_F CCCTGTGGGTTTTACACTTAA 13342-13362 ORF1ab CCCTGTGGGTTTTACACTTAA 6626-6635 0 0 28.57 9.52 1
CoV2ID002 PCR primer reverse China_CDC_Meta1_R ACGATTGTGCATCAGCTGA 13442-13460 ORF1ab TCAGCTGATGCACAATCGT 16679-16697 10.53 0 51.63 20.72 1
CoV2ID003 Probe China_CDC_Meta1_P CCGTCTGCGGTATGTGGAAAGGTTATGG 13377-13404 ORF1ab CCGTCTGCGGTATGTGGAAAGGTTATGG 16604-16631 28.57 20 60.54 36.37 1
CoV2ID004 PCR primer forward China_CDC_Meta2_F GGGGAACTTCTCCTGCTAGAAT 28881-28902 N GGGGAACTTCTCCTGCTAGAAT 36660-36681 0 0 45.24 15.08 1
CoV2ID005 PCR primer reverse China_CDC_Meta2_R CAGACATTTTGCTCTCAAGCTG 28958-28979 N CAGCTTGAGAGCAAAATGTCTG 36746-36767 4.55 20 38.31 20.95 1
CoV2ID006 Probe China_CDC_Meta2_P TTGCTGCTGCTTGACAGATT 28934-28953 N TTGCTGCTGCTTGACAGATT 36714-36731 0 0 36.77 12.26 1
CoV2ID007 PCR primer forward Charite_RdRP_SARSr-F2 GTGARATGGTCATGTGTGGCGG 15431-15452 ORF1ab GTGAAATGGTCATGTGTGGCGG 18688-18709 31.82 40 65.37 45.73 2
CoV2ID008 PCR primer reverse Charite_RdRP_SARSr-R1 CARATGTTAAASACACTATTAGCATA 15505-15530 ORF1ab TATGCTAATAGTGTTTTTAACATTTG 18762-18787 57.69 60 80.22 65.97 2
CoV2ID009 Probe Charite_RdRP_SARSr-P2 CAGGTGGAACCTCATCAGGAGATGC 15470-15494 ORF1ab CAGGTGGAACCTCATCAGGAGATGC 18727-18751 52 80 73.14 68.38 2
CoV2ID010 Probe Charite_RdRP_SARSr-P1 CCAGGTGGWACRTCATCMGGTGATGC 15469-15494 ORF1ab CCAGGTGGAACCTCATCAGGAGATGC 18726-18751 53.85 80 74.18 69.34 2
CoV2ID011 PCR primer forward Charite_E_Sarbeco_F1 ACAGGTACGTTAATAGTTAATAGCGT 26269-26294 E ACAGGTACGTTAATAGTTAATAGCGT 33931-33956 3.85 20 33.15 19 2
CoV2ID012 PCR primer reverse Charite_E_Sarbeco_R2 ATATTGCAGCAGTACGCACACA 26360-26381 E TGTGTGCGTACTGCTGCAATAT 34022-34043 18.18 80 49.35 49.18 2
CoV2ID013 Probe Charite_E_Sarbeco_P1 ACACTAGCCATCCTTACTGCGCTTCG 26332-26357 E ACACTAGCCATCCTTACTGCGCTTCG 33994-34019 19.23 20 49.63 29.62 2
CoV2ID014 PCR primer forward HKU-ORF1b-nsp14F TGGGGYTTTACRGGTAACCT 18778-18797 ORF1ab TGGGGTTTTACAGGTAACCT 22057-22076 50 20 74.05 48.02 3
CoV2ID015 PCR primer reverse HKU- ORF1b-nsp14R AACRCGCTTAACAAAGCACTC 18889-18909 ORF1b-nsp15 GAGTGCTTTGTTAAGCGTGTT 22168-22188 38.1 40 68.48 48.86 3
CoV2ID016 Probe HKU-ORF1b-nsp141P TAGTTGTGATGCWATCATGACTAG 18849-18872 ORF1b-nsp16 TAGTTGTGATGCAATCATGACTAG 22128-22151 54.17 60 74.8 62.99 3
CoV2ID017 PCR primer forward HKU-NF TAATCAGACAAGGAACTGATTA 29145-29166 N TAATCAGACAAGGAACTGATTA 37013-37034 18.18 0 53.46 23.88 3
CoV2ID018 PCR primer reverse HKU-NR CGAAGGTGTGACTTCCATG 29236-29254 N CATGGAAGTCACACCTTCG 37104-37122 0 0 30.33 10.11 3
CoV2ID019 Probe HKU-NP GCAAATTGTGCAATTTGCGG 29177-29196 N CCGCAAATTGCACAATTTGC 37045-37064 40 20 66.19 42.06 3
CoV2ID020 PCR primer forward WH-NIC N-F CGTTTGGTGGACCCTCAGAT 28320-28339 N CGTTTGGTGGACCCTCAGAT 36078-36097 10 20 48.57 26.19 4
CoV2ID021 PCR primer reverse WH-NIC N-R CCCCACTGCGTTCTCCATT 28358-28376 N AATGGAGAACGCAGTGGGG 36116-36134 10.53 20 51.88 27.47 4
CoV2ID022 Probe WH-NIC N-P CAACTGGCAGTAACCA 28341-28356 N CAACTGGCAGTAACCA 36099-36114 6.25 0 41.07 15.77 4
CoV2ID023 PCR primer forward NIID_WH-1_F501 TTCGGATGCTCGAACTGCACC 484-504 ORF1ab TTCGGATGCTCGAACTGCACC 924-942 0 0 35.59 11.86 5
CoV2ID024 PCR primer reverse NIID_WH-1_R913 CTTTACCAGCACGTGCTAGAAGG 874-896 ORF1ab CCTTCTAGCACGTGCTGGTAAAG 1472-1494 13.04 0 50.93 21.32 5
CoV2ID025 PCR primer forward NIID_WH-1_F509 CTCGAACTGCACCTCATGG 492-510 ORF1ab CTCGAACTGCACCTCATGG 930-948 5.26 0 41.85 15.7 5
CoV2ID026 PCR primer reverse NIID_WH-1_R854 CAGAAGTTGTTATCGACATAGC 816-837 ORF1ab GCTATGTCGATAACAACTTCTG 1421-1435 0 0 40.95 13.65 5
CoV2ID027 PCR primer forward NIID_WH-1_Seq_F519 ACCTCATGGTCATGTTATGG 502-521 ORF1ab ACCTCATGGTCATGTTATGG 940-957 16.67 20 51.06 29.24 5
CoV2ID028 PCR primer reverse NIID_WH-1_Seq_R840 GACATAGCGAGTGTATGCC 805-823 ORF1ab GGCATACACTCGCTATGTC 1385-1402 5.56 0 48.68 18.08 5
CoV2ID029 PCR primer forward WuhanCoV-spk1-f TTGGCAAAATTCAAGACTCACTTT 24354-24377 S TTGGCAAAATTCAAGACTCACTTT 30628-30650 17.39 20 48.86 28.75 5
CoV2ID030 PCR primer reverse WuhanCoV-spk2-r TGTGGTTCATAAAAATTCCTTTGTG 24876-24900 S CACAAAGGAATTTTTATGAACCACA 31216-31240 16 20 51.24 29.08 5
CoV2ID031 PCR primer forward NIID_WH-1_F24381 TCAAGACTCACTTTCTTCCAC 24364-24384 S TCAAGACTCACTTTCTTCCAC 30638-30650 7.69 20 46.15 24.61 5
CoV2ID032 PCR primer reverse NIID_WH-1_R24873 ATTTGAAACAAAGACACCTTCAC 24834-24856 S GTGAAGGTGTCTTTGTTTCAAAT 31159-31177 10.53 0 52.63 21.05 5
CoV2ID033 PCR primer forward NIID_WH-1_Seq_F24383 AAGACTCACTTTCTTCCACAG 24366-24386 S AAGACTCACTTTCTTCCACAG 30640-30650 9.09 20 45.45 24.85 5
CoV2ID034 PCR primer reverse NIID_WH-1_Seq_R24865 CAAAGACACCTTCACGAGG 24830-24848 S CCTCGTGAAGGTGTCTTTG 31155-31173 5.26 0 51.88 19.05 5
CoV2ID035 PCR primer forward NIID_2019-nCOV_N_F2 AAATTTTGGGGACCAGGAAC 29125-29144 N AAATTTTGGGGACCAGGAAC 36993-37012 25 0 59.52 28.17 5
CoV2ID036 PCR primer reverse NIID_2019-nCOV_N_R2 TGGCAGCTGTGTAGGTCAAC 29263-29282 N GTTGACCTACACAGGTGCCA 37159-37178 10 0 45.48 18.49 5
CoV2ID037 Probe NIID_2019-nCOV_N_P2 ATGTCGCGCATTGGCATGGA 29222-29241 N ATGTCGCGCATTGGCATGGA 37090-37109 5 0 41.19 15.4 5
CoV2ID038 PCR primer forward CDC_2019-nCoV_N1-F GACCCCAAAATCAGCGAAAT 28287-28306 N GACCCCAAAATCAGCGAAAT 36045-36064 0 0 52.38 17.46 6
CoV2ID039 PCR primer reverse CDC_2019-nCoV_N1-R TCTGGTTACTGCCAGTTGAATCTG 28335-28358 N CAGATTCAACTGGCAGTAACCAGA 36093-36116 12.5 20 46.03 26.18 6
CoV2ID040 Probe CDC_2019-nCoV_N1-P ACCCCGCATTACGTTTGGTGGACC 28309-28332 N ACCCCGCATTACGTTTGGTGGACC 36067-36090 4.17 0 49.8 17.99 6
CoV2ID041 PCR primer forward CDC_2019-nCoV_N2-F TTACAAACATTGGCCGCAAA 29164-29183 N TTACAAACATTGGCCGCAAA 37032-37051 15 0 51.43 22.14 6
CoV2ID042 PCR primer reverse CDC_2019-nCoV_N2-R GCGCGACATTCCGAAGAA 29213-29230 N TTCTTCGGAATGTCGCGC 37081-37098 11.11 40 48.15 33.09 6
CoV2ID043 Probe CDC_2019-nCoV_N2-P ACAATTTGCCCCCAGCGCTTCAG 29188-29210 N ACAATTTGCCCCCAGCGCTTCAG 37056-37078 21.74 20 55.28 32.34 6
CoV2ID044 PCR primer forward CDC_2019-nCoV_N3-F GGGAGCCTTGAATACACCAAAA 28681-28702 N GGGAGCCTTGAATACACCAAAA 36439-36460 0 0 45.45 15.15 6
CoV2ID045 PCR primer reverse CDC_2019-nCoV_N3-R TGTAGCACGATTGCAGCATTG 28732-28752 N CAATGCTGCAATCGTGCTACA 36490-36510 0 0 44.67 14.89 6
CoV2ID046 Probe CDC_2019-nCoV_N3-P AYCACATTGGCACCCGCAATCCTG 28704-28727 N ATCACATTGGCACCCGCAATCCTG 36464-36485 0 0 41.13 13.71 6
CoV2ID047 PCR primer forward Pasteur_nCoV_IP2-12669Fw ATGAGCTTAGTCCTGTTG 12690-12707 ORF1ab ATGAGCTTAGTCCTGTTG 15917-15934 44.44 0 65.34 36.59 7
CoV2ID048 PCR primer reverse Pasteur_nCoV_IP2-12759Rv CTCCCTTTGTTGTGTTGT 12780-12797 ORF1ab ACAACACAACAAAGGGAG 16007-16024 11.11 40 49.74 33.62 7
CoV2ID049 Probe Pasteur_nCoV_IP2-12696bProbe AGATGTCTTGTGCTGCCGGTA 12717-12737 ORF1ab AGATGTCTTGTGCTGCCGGTA 15944-15964 4.76 20 42.86 22.54 7
CoV2ID050 PCR primer forward Pasteur_nCoV_IP4-14059Fw GGTAACTGGTATGATTTCG 14080-14098 ORF1ab GGTAACTGGTATGATTTCG 17334-17352 63.16 60 81.7 68.29 7
CoV2ID051 PCR primer reverse Pasteur_nCoV_IP4-14146Rv CTGGTCAAGGTTAATATAGG 14167-14186 ORF1ab CCTATATTAACCTTGACCAG 17421-17440 30 80 59.76 56.59 7
CoV2ID052 Probe Pasteur_nCoV_IP4-14084Probe TCATACAAACCACGCCAGG 14105-14123 ORF1ab TCATACAAACCACGCCAGG 17359-17377 15.79 40 51.38 35.72 7
CoV2ID053 PCR primer forward RBD-qF1 CAATGGTTTAACAGGCACAGG 23191 - 23211 S CAATGGTTTAACAGGCACAGG 29268-29288 38.1 40 63.49 47.2 8
CoV2ID054 PCR primer reverse RBD-qR1 CTCAAGTGTCTGTGGATCACG 23291 - 23311 S CGTGATCCACAGACACTTGAG 29383-29403 4.76 0 49.21 17.99 8
CoV2ID055 PCR primer forward ND-CoVs-951F TGTKAGRTTYCCTAAYATTAC 22540 - 22560 S TGTTAGATTTCCTAATATTAC 28195-28215 19.05 0 48.98 22.68 8
CoV2ID056 PCR primer reverse D-CoVs-1805R ACATCYTGATANARAACAGC 23387 - 23406 S GCTGTTCTTTATCAGGATGT 29479-29498 5 20 54.76 26.59 8
CoV2ID057 PCR primer forward nCoV_2019 Forward CAAATTCTATGGTGGTTGGCACA 15216 - 15238 ORF1ab CAAATTCTATGGTGGTTGGCACA 18473-18495 65.22 40 80.95 62.06 9
CoV2ID058 PCR primer reverse nCoV_2019 Reverse GGCATGGCTCTATCACATTTAGG 15298 - 15320 ORF1ab CCTAAATGTGATAGAGCCATGCC 18555-18577 69.57 80 87.58 79.05 9
CoV2ID059 Probe CoV_Probe ATAATCCCAACCCATRAG 15280 - 15297 ORF1ab CTTATGGGTTGGGATTAT 18537-18554 72.22 60 90.74 74.32 9
CoV2ID060 Target Generation N-gene-FWD IVT AATTCTAATACGACTCACTATAGGGCCAAATTGGCTACTACCGAAGAGCTAC 28519 - 28545 N CCAAATTGGCTACTACCGAAGAGCTAC 36277-36303 7.41 20 44.09 23.83 10
CoV2ID061 Target Generation N-gene-REV IVT CACAGTTTGCTGTTTCTTCTGTCTCTGCGG 29420 - 29449 N CCGCAGAGACAGAAGAAACAGCAAACTGTG 37350-37379 6.67 0 42.7 16.46 10
CoV2ID062 Target Generation E-gene-FWD IVT AATTCTAATACGACTCACTATAGGGCTGGTGTTGAACATGTTACCTTCTTCATC 26060 - 26088 E CTGGTGTTGAACATGTTACCTTCTTCATC 33630-33658 17.24 0 49.75 22.33 10
CoV2ID063 Target Generation E-gene-REV IVT CCTATTACTAGGTTCCATTGTTC 26574 - 26596 E GAACAATGGAACCTAGTAATAGG 34280-34303 29.17 0 60.91 30.03 10
CoV2ID064 LAMP outer forward primer F3 2019-nCoV N-gene AACACAAGCTTTCGGCAG 29083 - 29100 N AACACAAGCTTTCGGCAG 36951-36968 33.33 40 58.99 44.11 10
CoV2ID065 LAMP outer backward primer B3 2019-nCoV N-gene GAAATTTGGATCTTTGTCATCC 29290 - 29311 N GGATGACAAAGATCCAAATTTC 37215-37232 22.22 40 49.74 37.32 10
CoV2ID066 LAMP backward inner primer BIP 2019-nCoV N-gene TGCGGCCAATGTTTGTAATCAGCCAAGGAAATTTTGGGGAC 29119 - 29137 N CCAAGGAAATTTTGGGGAC 37028-37049 18.18 20 56.06 31.41 10
CoV2ID067 LAMP forward inner primer FIP 2019-nCoV N-gene CGCATTGGCATGGAAGTCACTTTGATGGCACCTGTGTAG 29269 - 29287 N CTACACAGGTGCCATCAAA 37096-37115 5 0 38.1 14.37 10
CoV2ID068 LAMP loop forward primer LF 2019-nCoV N-gene TTCCTTGTCTGATTAGTTC 29141 - 29159 N GAACTAATCAGACAAGGAA 37009-37027 15.79 40 51.13 35.64 10
CoV2ID069 LAMP loop backward primer LB 2019-nCoV N-gene ACCTTCGGGAACGTGGTT 29248 - 29265 N ACCTTCGGGAACGTGGTT 37151-37161 0 0 42.42 14.14 10
CoV2ID070 LAMP outer forward primer F3 2019-nCoV E-gene CCGACGACGACTACTAGC 26191 - 26208 E CCGACGACGACTACTAGC 33799-33816 0 0 40.21 13.4 10
CoV2ID071 LAMP outer backward primer B3 2019-nCoV E-gene AGAGTAAACGTAAAAAGAAGGTT 26402 - 26424 E AACCTTCTTTTTACGTTTACTCT 34064-34086 21.74 40 54.45 38.73 10
CoV2ID072 LAMP backward inner primer BIP 2019-nCoV E-gene ACCTGTCTCTTCCGAAACGAATTTGTAAGCACAAGCTGATG 26214 - 26233 E TTTGTAAGCACAAGCTGATG 33915-33936 0 0 29.22 9.74 10
CoV2ID073 LAMP forward inner primer FIP 2019-nCoV E-gene CTAGCCATCCTTACTGCGCTACTCACGTTAACAATATTGCA 26374 - 26394 E TGCAATATTGTTAACGTGAGT 34036-34056 4.76 0 43.08 15.95 10
CoV2ID074 LAMP loop forward primer LF 2019-nCoV E-gene TCGATTGTGTGCGTACTGC 26355 - 26373 E TCGATTGTGTGCGTACTGC 34017-34035 26.32 0 56.89 27.74 10
CoV2ID075 LAMP loop backward primer LB 2019-nCoV E-gene TGAGTACATAAGTTCGTAC 26235 - 26253 E GTACGAACTTATGTACTCA 33900-33915 0 0 29.46 9.82 10
CoV2ID076 PCR primer forward N_Sarbeco_F CACATTGGCACCCGCAATC 28706 - 28724 N CACATTGGCACCCGCAATC 36464-36482 0 0 39.85 13.28 11
CoV2ID077 PCR primer reverse N_Sarbeco_R GAGGAACGAGAAGAGGCTTG 28814 - 28833 N CAAGCCTCTTCTCGTTCCTC 36572-36591 20 0 56.9 25.63 11
CoV2ID078 Probe N_Sarbeco_P ACTTCCTCAAGGAACAACATTGCCA 28753 - 28777 N ACTTCCTCAAGGAACAACATTGCCA 36511-36535 0 0 50.48 16.83 11
CoV2ID079 PCR primer forward nsp2f ATGCATTTGCATCAGAGGCT 1866 - 1885 ORF1ab ATGCATTTGCATCAGAGGCT 2946-2965 0 0 37.62 12.54 12
CoV2ID080 PCR primer reverse nsp2r TTGTTATAGCGGCCTTCTGT 1951 - 1970 ORF1ab ACAGAAGGCCGCTATAACAA 3228-3247 0 0 41.19 13.73 12
CoV2ID081 PCR primer forward N_gene_Taq1 TCTGGTAAAGGCCAACAACAA 28976 - 28996 N TCTGGTAAAGGCCAACAACAA 36764-36784 0 0 32.65 10.88 13
CoV2ID082 PCR primer reverse N_gene_Taq2 TGTATGCTTTAGTGGCAGTACG 29057 - 29078 N CGTACTGCCACTAAAGCATACA 36919-36934 18.75 20 56.55 31.77 13
CoV2ID083 Probe N_gene_Probe CTGTCACTAAGAAATCTGCTGCTGAGGC 29007 - 29034 N CTGTCACTAAGAAATCTGCTGCTGAGGC 36839-36869 12.9 0 53.15 22.02 13
CoV2ID084 PCR primer forward orf1ab-F CAGACCTCGTCTATGCTTTAAGGC 13814 - 13837 ORF1ab CAGACCTCGTCTATGCTTTAAGGC 17068-17091 33.33 20 64.88 39.4 14
CoV2ID085 PCR primer reverse orf1ab-R CCCTGGTCAAGGTTAATATAGGCA 14165 - 14188 ORF1ab TGCCTATATTAACCTTGACCAGGG 17419-17442 33.33 100 62.1 65.14 14
CoV2ID086 PCR primer forward S-F CTTCCCTCAGTCAGCACCTC 24715 - 24734 S CTTCCCTCAGTCAGCACCTC 31031-31050 25 40 55.24 40.08 14
CoV2ID087 PCR primer reverse S-R AACCAGTGTGTGCCATTTGA 24815 - 24870 S TCAAATGGCACACACTGGTT 31193-31210 5.56 0 41.53 15.7 14
CoV2ID088 LAMP outer forward primer orf1ab-4F3 GGTATGATTTTGTAGAAAACCCA 13925 - 13947 ORF1ab GGTATGATTTTGTAGAAAACCCA 17179-17201 52.17 20 75.98 49.38 14
CoV2ID089 LAMP outer backward primer orf1ab-4B3 CAACAGGAACTCCACTACC 14122 - 14140 ORF1ab GGTAGTGGAGTTCCTGTTG 17376-17394 21.05 0 55.89 25.65 14
CoV2ID090 LAMP forward inner primer orf1ab-4FIP GGCATCACAGAATTGTACTGTTTTTGCGTATACGCCAACTTAGG 13958 - 13976 ORF1ab GCGTATACGCCAACTTAGG 17255-17279 16 20 52.19 29.4 14
CoV2ID091 LAMP backward inner primer orf1ab-4BIP AATGCTGGTATTGTTGGTGTACTGAGGTTTGTATGAAATCACCGAA 14095 - 14115 ORF1ab TTCGGTGATTTCATACAAACC 17286-17310 44 0 66.1 36.7 14
CoV2ID092 LAMP loop forward primer orf1ab-4LF AACAAAGCTTGGCGTACACGTTCA 13977 - 14000 ORF1ab TGAACGTGTACGCCAAGCTTTGTT 17231-17254 20.83 40 51.79 37.54 14
CoV2ID093 LAMP outer forward primer S-123F3 TCTATTGCCATACCCACAA 23693 - 23711 S TCTATTGCCATACCCACAA 29922-29937 37.5 20 60.71 39.4 14
CoV2ID094 LAMP outer backward primer S-123B3 GGTGTTTTGTAAATTTGTTTGAC 23915 - 23937 S GTCAAACAAATTTACAAAACACC 30159-30181 4.35 20 40.99 21.78 14
CoV2ID095 LAMP forward inner primer S-123FIP CATTCAGTTGAATCACCACAAATGTGTGTTACCACAGAAATTCTACC 23724 - 23745 S GTGTTACCACAGAAATTCTACC 30010-30034 28 40 55.43 41.14 14
CoV2ID096 LAMP backward inner primer S-123BIP GTTGCAATATGGCAGTTTTTGTACATTGGGTGTTTTTGTCTTGTT 23880 - 23899 S AACAAGACAAAAACACCCAA 30047-30071 28 0 58.86 28.95 14
CoV2ID097 LAMP loop forward primer S-123LF ACTGATGTCTTGGTCATAGACACT 23746 - 23769 S AGTGTCTATGACCAAGACATCAGT 29972-29995 4.17 20 46.63 23.6 14
CoV2ID098 LAMP loop backward primer S-123LB TAAACCGTGCTTTAACTGGAATAGC 23850 - 23874 S TAAACCGTGCTTTAACTGGAATAGC 30098-30118 9.52 20 48.98 26.17 14
CoV2ID099 PCR primer forward Chan_S_gene_F CCTACTAAATTAAATGATCTCTGCTTTACT 22712 - 22741 S CCTACTAAATTAAATGATCTCTGCTTTACT 28400-28429 10 0 50.63 20.21 15
CoV2ID100 PCR primer reverse Chan_S_gene_R CAAGCTATAACGCAGCCTGTA 22849 - 22869 S TACAGGCTGCGTTATAGCTTG 28538-28558 9.52 0 45.8 18.44 15
CoV2ID101 PCR primer forward Chan_RdRp_gene_F CAAGTGGGGTAAGGCTAGACTTT 14965 - 14983 ORF1ab TGGGGTAAGGCTAGACTTT 18222-18240 52.63 40 72.93 55.19 15
CoV2ID102 PCR primer reverse Chan_RdRp_gene_R ACTTAGGATAATCCCAACCCAT 15283 - 15302 ORF1ab ATGGGTTGGGATTATCCTAA 18540-18559 80 100 94.29 91.43 15
CoV2ID103 PCR primer forward Caly_BetaCoV_RdRp_F AAATTCTATGGTGGTTGGCACAACATGTT 15217 - 15245 ORF1ab AAATTCTATGGTGGTTGGCACAACATGTT 18474-18502 65.52 80 83.25 76.26 16
CoV2ID104 PCR primer reverse Caly_BetaCoV_RdRp_R TAGGCATAGCTCTRTCACAYTT 15301 - 15322 ORF1ab AAATGTGATAGAGCCATGCCTA 18558-18579 63.64 80 83.98 75.87 16
CoV2ID105 Probe Caly_BetaCoV_RdRp_P TGGGTTGGGATTATC 15284 - 15298 ORF1ab TGGGTTGGGATTATC 18541-18555 80 60 94.29 78.1 16
CoV2ID106 PCR primer forward Huang_E_gene_F ACTTCTTTTTCTTGCTTTCGTGGT 26295 - 26318 E ACTTCTTTTTCTTGCTTTCGTGGT 33957-33980 8.33 20 44.05 24.13 17
CoV2ID107 PCR primer reverse Huang_E_gene_R GCAGCAGTACGCACACAATC 26357 - 26376 E GATTGTGTGCGTACTGCTGC 34019-34038 20 20 51.67 30.56 17
CoV2ID108 Probe Huang_E_gene_P CTAGTTACACTAGCCATCCTTACTGC 26326 - 26351 E CTAGTTACACTAGCCATCCTTACTGC 33988-34013 23.08 0 50.73 24.6 17
CoV2ID109 PCR primer forward Lu_orf1ab_F AGAAGATTGGTTAGATGATGATAGT 3193 - 3217 ORF1ab AGAAGATTGGTTAGATGATGATAGT 4979-4993 0 0 32.38 10.79 18
CoV2ID110 PCR primer reverse Lu_orf1ab_R TTCCATCTCTAATTGAGGTTGAACC 3286 - 3310 ORF1ab GGTTCAACCTCAATTAGAGATGGAA 5087-5101 6.67 0 42.86 16.51 18
CoV2ID111 Probe Lu_orf1ab_P TCCTCACTGCCGTCTTGTTGACCA 3229 - 3252 ORF1ab TGGTCAACAAGACGGCAGTGAGGA 5005-5028 0 0 41.07 13.69 18
CoV2ID112 LAMP outer forward primer F3 2019-nCoV N1-gene TGGACCCCAAAATCAGCG 28285 - 28302 N TGGACCCCAAAATCAGCG 36043-36060 0 0 52.38 17.46 19
CoV2ID113 LAMP outer backward primer B3 2019-nCoV N1-gene GCCTTGTCCTCGAGGGAAT 28468 - 28486 N ATTCCCTCGAGGACAAGGC 36226-36244 0 0 52.38 17.46 19
CoV2ID114 LAMP forward inner primer FIP 2019-nCoV N1-gene CCACTGCGTTCTCCATTCTGGTAAATGCACCCCGCATTACG 28303 - 28321 N AATGCACCCCGCATTACG 36111-36132 9.09 0 51.3 20.13 19
CoV2ID115 LAMP backward inner primer BIP 2019-nCoV N1-gene CGCGATCAAAACAACGTCGGCCCTTGCCATGTTGAGTGAGA 28438 - 28457 N TCTCACTCAACATGGCAAGG 36135-36157 4.35 0 45.13 16.49 19
CoV2ID116 LAMP loop forward primer LF 2019-nCoV N1-gene TGAATCTGAGGGTCCACCAAA 28322 - 28342 N TTTGGTGGACCCTCAGATTCA 36080-36100 9.52 0 45.8 18.44 19
CoV2ID117 LAMP loop backward primer LB 2019-nCoV N1-gene GGTTTACCCAATAATACTGCGTCTT 28403 - 28427 N GGTTTACCCAATAATACTGCGTCTT 36161-36185 4 20 50.48 24.83 19
CoV2ID118 LAMP outer forward primer F3 2019-nCoV N15-gene AGATCACATTGGCACCCG 28702 - 28719 N AGATCACATTGGCACCCG 36460-36477 0 0 39.15 13.05 19
CoV2ID119 LAMP outer backward primer B3 2019-nCoV N15-gene CCATTGCCAGCCATTCTAGC 28895 - 28914 N GCTAGAATGGCTGGCAATGG 36674-36693 0 0 33.1 11.03 19
CoV2ID120 LAMP forward inner primer FIP 2019-nCoV N15-gene TGCTCCCTTCTGCGTAGAAGCCAATGCTGCAATCGTGCTAC 28732 - 28751 N CAATGCTGCAATCGTGCTAC 36539-36560 0 0 52.38 17.46 19
CoV2ID121 LAMP backward inner primer BIP 2019-nCoV N15-gene GGCGGCAGTCAAGCCTCTTCCCTACTGCTGCCTGGAGTT 28864 - 28883 N AACTCCAGGCAGCAGTAGGG 36563-36582 15 0 50.95 21.98 19
CoV2ID122 LAMP loop forward primer LF 2019-nCoV N15-gene GCAATGTTGTTCCTTGAGGAAGTT 28752 - 28775 N AACTTCCTCAAGGAACAACATTGC 36510-36533 0 0 50 16.67 19
CoV2ID123 LAMP loop backward primer LB 2019-nCoV N15-gene GTTCCTCATCACGTAGTCGCAACA 28827 - 28850 N GTTCCTCATCACGTAGTCGCAACA 36617-36629 15.38 20 52.38 29.25 19
CoV2ID124 LAMP outer forward primer F3 2019-nCoV S17-gene TCTTTCACACGTGGTGTT 21653 - 21670 S TCTTTCACACGTGGTGTT 25936-25948 0 0 28.57 9.52 19
CoV2ID125 LAMP outer backward primer B3 2019-nCoV S17-gene GTACCAAAAATCCAGCCTC 21867 - 21885 S GAGGCTGGATTTTTGGTAC 5862-5876 60 40 81.59 60.53 19
CoV2ID126 LAMP forward inner primer FIP 2019-nCoV S17-gene CATGGAACCAAGTAACATTGGAAAACCTGACAAAGTTTTCAGATCC 21677 - 21697 S CCTGACAAAGTTTTCAGATCC 26082-26104 0 0 39.75 13.25 19
CoV2ID127 LAMP backward inner primer BIP 2019-nCoV S17-gene CTCTGGGACCAATGGTACTAAGAGGACTTCTCAGTGGAAGCA 21838 - 21855 S TGCTTCCACTGAGAAGTC 26382-26399 0 0 29.37 9.79 19
CoV2ID128 LAMP loop forward primer LF 2019-nCoV S17-gene GAAAGGTAAGAACAAGTCCTGAGT 21713 - 21736 S ACTCAGGACTTGTTCTTACCTTTC 26031-26056 0 0 29.85 9.95 19
CoV2ID129 LAMP loop backward primer LB 2019-nCoV S17-gene CTGTCCTACCATTTAATGATGGTGT 21807 - 21831 S CTGTCCTACCATTTAATGATGGTGT 26351-26375 0 0 34.1 11.37 19
CoV2ID130 LAMP outer forward primer F3 2019-nCoV O117-gene CCCCAAAATGCTGTTGTT 1346 - 1363 ORF1ab CCCCAAAATGCTGTTGTT 2241-2258 0 0 32.28 10.76 19
CoV2ID131 LAMP outer backward primer B3 2019-nCoV O117-gene TAGCACGTGGAACCCAAT 1530 - 1547 ORF1ab ATTGGGTTCCACGTGCTA 2521-2533 0 0 37 12.33 19
CoV2ID132 LAMP forward inner primer FIP 2019-nCoV O117-gene GGTTTTCAAGCCAGATTCATTATGGATGTCACAATTCAGAAGTAGGA 1381 - 1402 ORF1ab TGTCACAATTCAGAAGTAGGA 2276-2295 0 0 30.24 10.08 19
CoV2ID133 LAMP backward inner primer BIP 2019-nCoV O117-gene TCTTCGTAAGGGTGGTCGCAGCACACTTGTTATGGCAAC 1509 - 1527 ORF1ab GTTGCCATAACAAGTGTGC 2409-2428 10 20 47.62 25.87 19
CoV2ID134 LAMP loop forward primer LF 2019-nCoV O117-gene TCGGCAAGACTATGCTCAGG 1403 - 1422 ORF1ab CCTGAGCATAGTCTTGCCGA 2352-2367 6.25 0 51.49 19.25 19
CoV2ID135 LAMP loop backward primer LB 2019-nCoV O117-gene TTGCCTTTGGAGGCTGTGT 1476 - 1494 ORF1ab TTGCCTTTGGAGGCTGTGT 2432-2450 10.53 20 43.86 24.8 19
CoV2ID136 LAMP outer forward primer F3 2019-nCoV orf1ab-gene AAACGTAATGTCATCCCTACT 15034 - 15054 ORF1ab AAACGTAATGTCATCCCTACT 18291-18311 61.9 60 80.73 67.54 20
CoV2ID137 LAMP outer backward primer B3 2019-nCoV orf1ab-gene ACTGTTTATAGTGATGTAGAAAACC 15250 - 15274 ORF1ab ACTGTTTATAGTGATGTAGAAAACC 18507-18531 36 20 61.71 39.24 20
CoV2ID138 LAMP forward inner primer FIP 2019-nCoV orf1ab-gene ACAGATAGAGACACCAGCTACGGCTCAAATGAATCTTAAGTATGCCA 15059 - 15082 ORF1ab CTCAAATGAATCTTAAGTATGCCA 18316-18339 66.67 80 83.93 76.87 20
CoV2ID139 LAMP backward inner primer BIP 2019-nCoV orf1ab-gene ATAGCCGCCACTAAGAGGAGCCCAACCACCATAGAATTTGC 15215 - 15234 ORF1ab CAAATTCTATGGTGGTTGG 18472-18491 70 40 85.24 65.08 20
CoV2ID140 LAMP loop backward primer LF 2019-nCoV orf1ab-gene TTAGTGCAAAGAATAGAGCTCGCA 15083 - 15106 N TTAGTGCAAAGAATAGAGCTCGCA 18340-18363 45.83 40 76.79 54.21 21
CoV2ID141 LAMP outer forward primer F3 2019-nCoV N-gene GCCAAAAGGCTTCTACGCA 28774 - 28792 N GCCAAAAGGCTTCTACGCA 36532-36550 0 0 52.38 17.46 21
CoV2ID142 LAMP outer backward primer B3 2019-nCoV N-gene TTGCTCTCAAGCTGGTTCAA 28952 - 28971 N TTGAACCAGCTTGAGAGCAA 36740-36759 10 20 45 25 21
CoV2ID143 LAMP forward inner primer FIP 2019-nCoV N-gene TCCCCTACTGCTGCCTGGAGCAGTCAAGCCTCTTCTCGTT 28809 - 28829 N GCAGTCAAGCCTCTTCTCGTT 36567-36587 19.05 20 55.33 31.46 21
CoV2ID144 LAMP backward inner primer BIP 2019-nCoV N-gene TCTCCTGCTAGAATGGCTGGCATCTGTCAAGCAGCAGCAAAG 28932 - 28952 N CTTTGCTGCTGCTTGACAGAT 36668-36689 0 0 39.39 13.13 21
CoV2ID145 LAMP loop backward primer LB 2019-nCoV N-gene TGGCGGTGATGCTGCTCTT 28912 - 28930 N TGGCGGTGATGCTGCTCTT 36691-36709 5.26 0 43.36 16.21 21
CoV2ID146 LAMP outer forward primer GeneN-A-F3 TGGCTACTACCGAAGAGCT 28525 - 28543 N TGGCTACTACCGAAGAGCT 36283-36301 10.53 20 47.87 26.13 22
CoV2ID147 LAMP outer backward primer GeneN-A-B3 TGCAGCATTGTTAGCAGGAT 28722 - 28741 N ATCCTGCTAACAATGCTGCA 36480-36499 0 0 47.38 15.79 22
CoV2ID148 LAMP loop forward primer GeneN-A-LF GGACTGAGATCTTTCATTTTACCGT 28566 - 28590 N ACGGTAAAATGAAAGATCTCAGTCC 36324-36348 0 0 52.38 17.46 22
CoV2ID149 LAMP loop backward primer GeneN-A-LB ACTGAGGGAGCCTTGAATACA 28676 - 28696 N ACTGAGGGAGCCTTGAATACA 36434-36454 0 0 51.02 17.01 22
CoV2ID150 LAMP forward inner primer GeneN-A-FIP TCTGGCCCAGTTCCTAGGTAGTCCAGACGAATTCGTGGTGG 28545 - 28563 N CCAGACGAATTCGTGGTGG 36363-36384 4.55 0 49.78 18.11 22
CoV2ID151 LAMP backward inner primer GeneN-A-BIP AGACGGCATCATATGGGTTGCACGGGTGCCAATGTGATCT 28702 - 28719 N AGATCACATTGGCACCCG 36412-36433 0 0 52.38 17.46 22
CoV2ID152 LAMP loop forward primer 2019-nCoV N-gene_LF CGACTACGTGATGAGGAACGA 28825 - 28845 N TCGTTCCTCATCACGTAGTCG 36583-36595 7.69 0 52.38 20.02 23
CoV2ID153 LAMP loop backward primer 2019-nCoV N-gene_LB AATGGCGGTGATGCTGCTCTT 28910 - 28930 N AATGGCGGTGATGCTGCTCTT 36689-36709 4.76 0 42.4 15.72 23
CoV2ID154 LAMP outer forward primer F3 2019-nCoV orf-gene TGCTTCAGTCAGCTGATG 13434 - 13451 ORF1ab TGCTTCAGTCAGCTGATG 16671-16688 0 0 45.24 15.08 23
CoV2ID155 LAMP outer backward primer B3 2019-nCoV orf-gene TTAAATTGTCATCTTCGTCCTT 13615 - 13636 ORF1ab AAGGACGAAGATGACAATTTAA 16865-16886 22.73 0 47.19 23.31 23
CoV2ID156 LAMP forward inner primer FIP 2019-nCoV orf-gene TCAGTACTAGTGCCTGTGCCCACAATCGTTTTTAAACGGGT 13452 - 13472 ORF1ab CACAATCGTTTTTAAACGGGT 16751-16770 10 0 51.19 20.4 23
CoV2ID157 LAMP backward inner primer BIP 2019-nCoV orf-gene TCGTATACAGGGCTTTTGACATCTATCTTGGAAGCGACAACAA 13596 - 13613 ORF1ab TTGTTGTCGCTTCCAAGA 16773-16797 44 20 66.67 43.56 23
CoV2ID158 LAMP loop forward primer LF 2019-nCoV orf-gene CTGCACTTACACCGCAA 13473 - 13489 ORF1ab TTGCGGTGTAAGTGCAG 16711-16726 37.5 40 66.07 47.86 23
CoV2ID159 LAMP loop backward primer LB 2019-nCoV orf-gene GTAGCTGGTTTTGCTAAATTCC 13564 - 13585 ORF1ab GTAGCTGGTTTTGCTAAATTCC 16814-16835 13.64 20 56.71 30.12 23
CoV2ID160 LAMP outer forward primer As1_ORF1ab_F3 GGTGGACAAATTGTCAC 2246 - 2262 ORF1ab GGTGGACAAATTGTCAC 3577-3593 5.88 0 48.74 18.21 24
CoV2ID161 LAMP outer backward primer As1_ORF1ab_B3 CTTCTCTGGATTTAACACACTT 2420 - 2441 ORF1ab AAGTGTGTTAAATCCAGAGAAG 3751-3772 0 0 29.44 9.81 24
CoV2ID162 LAMP loop forward primer As1_ORF1ab_LF TTACAAGCTTAAAGAATGTCTGAACACT 2285 - 2312 ORF1ab AGTGTTCAGACATTCTTTAAGCTTGTAA 3616-3643 0 0 38.44 12.81 24
CoV2ID163 LAMP loop backward primer As1_ORF1ab_LB TTGAATTTAGGTGAAACATTTGTCACG 2372 - 2398 ORF1ab TTGAATTTAGGTGAAACATTTGTCACG 3703-3729 0 0 43.74 14.58 24
CoV2ID164 LAMP forward inner primer As1_ORF1ab_FIP TCAGCACACAAAGCCAAAAATTTATCTGTGCAAAGGAAATTAAGGAG 2263 - 2284 ORF1ab CTGTGCAAAGGAAATTAAGGAG 3644-3668 0 0 28.19 9.4 24
CoV2ID165 LAMP backward inner primer As1_ORF1ab_BIP TATTGGTGGAGCTAAACTTAAAGCCCTGTACAATCCCTTTGAGTG 2399 - 2418 ORF1ab CACTCAAAGGGATTGTACAG 3678-3702 12 0 43.81 18.6 24
CoV2ID166 LAMP forward inner primer As1e_ORF1ab_FIP TCAGCACACAAAGCCAAAAATTTATTTTTCTGTGCAAAGGAAATTAAGGAG 2263 - 2284 ORF1ab CTGTGCAAAGGAAATTAAGGAG 3642-3668 0 0 28.22 9.41 24
CoV2ID167 LAMP backward inner primer As1e_ORF1ab_BIP TATTGGTGGAGCTAAACTTAAAGCCTTTTCTGTACAATCCCTTTGAGTG 2399 - 2421 ORF1ab CACTCAAAGGGATTGTACAGAAA 3678-3704 11.11 0 44.27 18.46 24
CoV2ID168 RPA forward primer Metsky_orf1ab_F gaaatTAATACGACTCACTATAgggCCAAGGTAAACCTTTGGAATTTGGTGCCAC 3130 - 3159 ORF1ab CCAAGGTAAACCTTTGGAATTTGGTGCCAC 4783-4804 0 0 32.68 10.89 25
CoV2ID169 RPA reverse primer Metsky_orf1ab_R ACTATCATCATCTAACCAATCTTCTTCTTG 3188 - 3217 ORF1ab CAAGAAGAAGATTGGTTAGATGATGATAGT 4979-4993 0 0 32.38 10.79 25
CoV2ID170 RPA forward primer orf1ab_F TAATACGACTCACTATAGGGACATAAACAAGCTTTGTGAAGAAATGCTGGAC 12041 - 12073 ORF1ab GACATAAACAAGCTTTGTGAAGAAATGCTGGAC 15256-15287 9.38 20 50.89 26.76 26
CoV2ID171 RPA reverse primer orf1ab_R TTGAGCAGTAGCAAAAGCTGCATATGATGGAAGG 12115 - 12148 ORF1ab CCTTCCATCATATGCAGCTTTTGCTACTGCTCAA 15329-15362 23.53 20 58.26 33.93 26
CoV2ID172 gRNA gRNA_ORF1ab GGGGAUUUAGACUACCCCAAAAACGAAGGGGACUAAAACAAACUCUGAGGCUAUAGCUUGUAAGGUU 12082 - 12109 ORF1ab AACCTTACAAGCTATAGCCTCAGAGTTT 15296-15323 25 60 56.12 47.04 26
CoV2ID173 LAMP outer forward primer nCoV-N-F3 CCAGAATGGAGAACGCAGTG 28354 - 28373 N CCAGAATGGAGAACGCAGTG 36112-36131 10 0 50.24 20.08 27
CoV2ID174 LAMP outer backward primer nCoV-N-B3 CCGTCACCACCACGAATT 28552 - 28569 N AATTCGTGGTGGTGACGG 36310-36327 0 0 52.38 17.46 27
CoV2ID175 LAMP forward inner primer nCoV-N-FIP AGCGGTGAACCAAGACGCAGGGCGCGATCAAAACAACG 28374 - 28392 N GGGCGCGATCAAAACAACG 36177-36196 0 0 52.38 17.46 27
CoV2ID176 LAMP backward inner primer nCoV-N-BIP AATTCCCTCGAGGACAAGGCGAGCTCTTCGGTAGTAGCCAA 28524 - 28543 N TTGGCTACTACCGAAGAGCT 36225-36245 0 0 52.38 17.46 27
CoV2ID177 LAMP loop forward primer nCoV-N-LF TTATTGGGTAAACCTTGGGGC 28396 - 28416 N GCCCCAAGGTTTACCCAATAA 36154-36174 9.52 0 48.3 19.27 27
CoV2ID178 LAMP loop backward primer nCoV-N-LB TTCCAATTAACACCAATAGCAGTCC 28488 - 28512 N TTCCAATTAACACCAATAGCAGTCC 36246-36270 0 0 52.38 17.46 27
CoV2ID179 LAMP outer backward primer Baek_nCoV N-B3 AGCCAATTTGGTCATCTGGA 28510 - 28529 N TCCAGATGACCAAATTGGCT 36268-36287 0 0 41.43 13.81 28
CoV2ID180 LAMP forward inner primer Baek_nCoV N-FIP CGTTGTTTTGATCGCGCCCCATTACGTTTGGTGGACCCTC 28315 - 28335 N CATTACGTTTGGTGGACCCTC 36073-36093 9.52 20 49.66 26.39 28
CoV2ID181 LAMP backward inner primer Baek_nCoV N-BIP ATACTGCGTCTTGGTTCACCGCATTGGAACGCCTTGTCCTC 28476 - 28494 N GAGGACAAGGCGTTCCAAT 36174-36195 0 0 52.38 17.46 28
CoV2ID182 LAMP loop forward primer Baek_nCoV N-LF TGCGTTCTCCATTCTGGTTACT 28349 - 28370 N AGTAACCAGAATGGAGAACGCA 36107-36128 13.64 0 51.3 21.65 28
CoV2ID183 LAMP loop backward primer Baek_nCoV N-LB TCTCACTCAACATGGCAAGGAA 28438 - 28459 N TCTCACTCAACATGGCAAGGAA 36196-36217 0 0 52.38 17.46 28
CoV2ID184 LAMP outer forward primer Nsp3_1-61_F3 GGAATTTGGTGCCACTTC 3145 - 3162 ORF1ab GGAATTTGGTGCCACTTC 4790-4807 0 0 34.66 11.55 29
CoV2ID185 LAMP outer backward primer Nsp3_1-61_B3 CTATTCACTTCAATAGTCTGAACA 3322 - 3345 ORF1ab TGTTCAGACTATTGAAGTGAATAG 5153-5167 20 20 55.24 31.75 29
CoV2ID186 LAMP forward inner primer Nsp3_1-61_FIP CTTGTTGACCAACAGTTTGTTGACTTCAACCTGAAGAAGAGCAA 3170 - 3190 ORF1ab CTTCAACCTGAAGAAGAGCAA 4991-5015 0 0 40.19 13.4 29
CoV2ID187 LAMP backward inner primer Nsp3_1-61_BIP CGGCAGTGAGGACAATCAGACACTGGTGTAAGTTCCATCTC 3302 - 3321 ORF1ab GAGATGGAACTTACACCAGT 5017-5038 0 0 32.9 10.97 29
CoV2ID188 LAMP loop forward primer Nsp3_1-61_LF ATCATCATCTAACCAATCTTCTTC 3191 - 3214 ORF1ab GAAGAAGATTGGTTAGATGATGAT 4945-4956 8.33 20 50.4 26.24 29
CoV2ID189 LAMP loop backward primer Nsp3_1-61_LB TCAAACAATTGTTGAGGTTCAACC 3271 - 3294 ORF1ab TCAAACAATTGTTGAGGTTCAACC 5047-5070 4.17 0 42.86 15.68 29
CoV2ID190 LAMP outer forward primer Nsp3_2-24_F3 TGCAACTAATAAAGCCACG 6253 - 6271 ORF1ab TGCAACTAATAAAGCCACG 8750-8764 13.33 40 51.43 34.92 29
CoV2ID191 LAMP outer backward primer Nsp3_2-24_B3 CGTCTTTCTGTATGGTAGGATT 6425 - 6446 ORF1ab AATCCTACCATACAGAAAGACG 8973-8984 0 0 27.38 9.13 29
CoV2ID192 LAMP forward inner primer Nsp3_2-24_FIP TCTGACTTCAGTACATCAAACGAATAAATACCTGGTGTATACGTTGTC 6280 - 6302 ORF1ab AAATACCTGGTGTATACGTTGTC 8881-8905 0 0 38.86 12.95 29
CoV2ID193 LAMP backward inner primer Nsp3_2-24_BIP GACGCGCAGGGAATGGATAATTCCACTACTTCTTCAGAGACT 6403 - 6424 ORF1ab AGTCTCTGAAGAAGTAGTGGAA 8951-8972 0 0 27.06 9.02 29
CoV2ID194 LAMP loop forward primer Nsp3_2-24_LF TGTTTCAACTGGTTTTGTGCTCCA 6305 - 6328 ORF1ab TGGAGCACAAAACCAGTTGAAACA 8860-8876 0 0 36.41 12.14 29
CoV2ID195 LAMP loop backward primer Nsp3_2-24_LB TCTTGCCTGCGAAGATCTAAAAC 6379 - 6401 ORF1ab TCTTGCCTGCGAAGATCTAAAAC 8927-8949 0 0 25.47 8.49 29
CoV2ID196 LAMP outer forward primer S_1-2-2_F3 CTGACAAAGTTTTCAGATCCTCAG 21678 - 21701 S CTGACAAAGTTTTCAGATCCTCAG 25967-25978 0 0 33.33 11.11 29
CoV2ID197 LAMP outer backward primer S_1-2-2_B3 AGTACCAAAAATCCAGCCTCTT 21865 - 21886 S AAGAGGCTGGATTTTTGGTACT 26418-26429 0 0 32.54 10.85 29
CoV2ID198 LAMP forward inner primer S_1-2-2_FIP TCCCAGAGACATGTATAGCATGGAATCAACTCAGGACTTGTTCTTACC 21710 - 21732 S TCAACTCAGGACTTGTTCTTACC 26028-26046 0 0 31.58 10.53 29
CoV2ID199 LAMP backward inner primer S_1-2-2_BIP TGGTACTAAGAGGTTTGATAACCCTGTTAGACTTCTCAGTGGAAGCA 21838 - 21860 S TGCTTCCACTGAGAAGTCTAACA 26382-26404 0 0 27.74 9.25 29
CoV2ID200 LAMP loop forward primer S_1-2-2_LF CCAAGTAACATTGGAAAAGAAA 21733 - 21754 S TTTCTTTTCCAATGTTACTTGG 26082-26097 0 0 38.39 12.8 29
CoV2ID201 LAMP loop backward primer S_1-2-2_LB GTCCTACCATTTAATGATGGTGTTT 21809 - 21833 S GTCCTACCATTTAATGATGGTGTTT 26353-26377 0 0 34.29 11.43 29
CoV2ID202 LAMP forward inner primer N_21_FIP TCCCCTACTGCTGCCTGGAGGCAGTCAAGCCTCTTCTCG 28808 - 28827 N GGCAGTCAAGCCTCTTCTCG 36566-36585 20 60 55.24 45.08 29
CoV2ID203 LAMP loop forward primer N_21_LF TGTTGCGACTACGTGATGAGGA 28829 - 28850 N TCCTCATCACGTAGTCGCAACA 36617-36629 15.38 0 52.38 22.59 29
CoV2ID204 LAMP loop backward primer N_21_LB ATGGCGGTGATGCTGCTCT 28911 - 28929 N ATGGCGGTGATGCTGCTCT 36690-36708 5.26 0 41.85 15.7 29
CoV2ID205 LAMP outer forward primer NB-F3 ACCGAAGAGCTACCAGACG 28533 - 28551 N ACCGAAGAGCTACCAGACG 36291-36309 10.53 0 56.14 22.22 30
CoV2ID206 LAMP forward inner primer NB-FIP TCTGGCCCAGTTCCTAGGTAGTTCGTGGTGGTGACGGTAA 28554 - 28572 N TTCGTGGTGGTGACGGTAA 36363-36384 4.55 0 49.78 18.11 30
CoV2ID207 LAMP loop forward primer NB-LF CCATCTTGGACTGAGATCTTTCATT 28573 - 28597 N AATGAAAGATCTCAGTCCAAGATGG 36331-36355 0 0 50.1 16.7 30
CoV2ID208 LAMP outer forward primer Lamb-F3 TCCAGATGAGGATGAAGAAGA 3043 - 3063 ORF1ab TCCAGATGAGGATGAAGAAGA 4431-4451 0 0 39.46 13.15 30
CoV2ID209 LAMP outer backward primer Lamb-B3 AGTCTGAACAACTGGTGTAAG 3311 - 3331 ORF1ab CTTACACCAGTTGTTCAGACT 5146-5162 11.76 0 47.06 19.61 30
CoV2ID210 LAMP forward inner primer Lamb-FIP AGAGCAGCAGAAGTGGCACAGGTGATTGTGAAGAAGAAGAG 3064 - 3085 ORF1ab AGGTGATTGTGAAGAAGAAGAG 4798-4816 0 0 30.08 10.03 30
CoV2ID211 LAMP backward inner primer Lamb-BIP TCAACCTGAAGAAGAGCAAGAACTGATTGTCCTCACTGCC 3242 - 3259 ORF1ab GGCAGTGAGGACAATCAG 5018-5035 0 0 31.48 10.49 30
CoV2ID212 LAMP loop forward primer Lamb-LF CTCATATTGAGTTGATGGCTCA 3088 - 3109 ORF1ab TGAGCCATCAACTCAATATGAG 4643-4664 13.64 0 48.48 20.71 30
CoV2ID213 LAMP loop backward primer Lamb-LB ACAAACTGTTGGTCAACAAGAC 3220 - 3241 ORF1ab ACAAACTGTTGGTCAACAAGAC 4996-5017 0 0 43.29 14.43 30
CoV2ID214 PCR primer forward PCR-C-fwd primer ACACTCTTTCCCTACACGACGCTCTTCCGATCTAACGCTGAAGCGCTGGGGGCAAA 29192 - 29214 N TTTGCCCCCAGCGCTTCAGCGTT 37060-37082 26.09 60 58.18 48.09 31
CoV2ID215 PCR primer reverse PCR-C-rev primer TGACTGGAGTTCAGACGTGTGCTCTTCCGATCTGTTTGTAATCAGTTCCTTGTCTG 29149 - 29172 N CAGACAAGGAACTGATTACAAACA 37017-37040 12.5 0 52.58 21.69 31
CoV2ID216 LAMP outer backward primer Wang_N_B3 TTTGGCCTTGTTGTTGTTGG 28987 - 29006 N CCAACAACAACAAGGCCAAA 36775-36788 0 0 30.61 10.2 32
CoV2ID217 LAMP forward inner primer Wang_N_FIP TCCCCTACTGCTGCCTGGAGTTTTCGGCAGTCAAGCCTCTTC 28807 - 28824 N CGGCAGTCAAGCCTCTTC 36643-36664 4.55 0 41.34 15.3 32
CoV2ID218 LAMP backward inner primer Wang_N_BIP TCCTGCTAGAATGGCTGGCAATTTTTTTTGCTCTCAAGCTGGTTCA 28953 - 28973 N TGAACCAGCTTGAGAGCAAAA 36670-36691 0 0 36.36 12.12 32
CoV2ID219 LAMP loop backward primer Wang_N_LB GCGGTGATGCTGCTCT 28914 - 28929 N GCGGTGATGCTGCTCT 36693-36708 6.25 0 44.35 16.87 32
CoV2ID220 RPA forward primer E-Sarbeco_F1_RPA GAAGAGACAGGTACGTTAATAGTTAATAGCGT 26263 - 26294 E GAAGAGACAGGTACGTTAATAGTTAATAGCGT 33925-33956 3.12 20 30.95 18.02 33
CoV2ID221 RPA reverse primer E-Sarbeco-R2_RPA ACGTTAACAATATTGCAGCAGTACGCACACA 26360 - 26390 E TGTGTGCGTACTGCTGCAATATTGTTAACGT 34022-34052 16.13 80 51 49.04 33
CoV2ID222 RPA forward primer 2019-nCoV_N2-F_RPA ACAAGGAACTGATTACAAACATTGGCCGCAAA 29152 - 29183 N ACAAGGAACTGATTACAAACATTGGCCGCAAA 37020-37051 18.75 0 54.32 24.36 33
CoV2ID223 RPA reverse primer 2019-nCoV_N2-R_RPA TTCCATGCCAATGCGCGACATTCCGAAGAA 29213 - 29242 N TTCTTCGGAATGTCGCGCATTGGCATGGAA 37081-37110 10 40 45.71 31.9 33
CoV2ID224 PCR primer forward Lamb_orf1ab_F ATTTGGTGCCACTTCTGCTGC 3148 - 3168 ORF1ab ATTTGGTGCCACTTCTGCTGC 4793-4813 0 0 30.61 10.2 34
CoV2ID225 PCR primer reverse Lamb_orf1ab_R TCACTGCCGTCTTGTTGACCA 3229 - 3249 ORF1ab TGGTCAACAAGACGGCAGTGA 5005-5025 0 0 43.76 14.59 34
CoV2ID226 LAMP outer forward primer Yang_ORF1ab_F3 GTTACGATGGTGGCTGTA 14885 - 14902 ORF1ab GTTACGATGGTGGCTGTA 18142-18159 66.67 60 83.33 70 35
CoV2ID227 LAMP outer backward primer Yang_ORF1ab_B3 CTCAAATGAATCTTAAGTATGCC 15059 - 15081 ORF1ab CTCAAATGAATCTTAAGTATGCC 18316-18338 65.22 60 83.23 69.48 35
CoV2ID228 LAMP forward inner primer Yang_ORF1ab_FIP GCTAACCAAGTCATCGTCAATCCATTTAATAAATGGGGTAAGGCT 14952 - 14976 ORF1ab TCCATTTAATAAATGGGGTAAGGCT 18209-18233 56 60 80.57 65.52 35
CoV2ID229 LAMP backward inner primer Yang_ORF1ab_BIP AATGAGTTATGAGGATCAAGATGCAACGTAATGTCATCCCTACTATAA 15035 - 15058 ORF1ab AACGTAATGTCATCCCTACTATAA 18251-18275 40 20 69.71 43.24 35
CoV2ID230 LAMP loop forward primer Yang_ORF1ab_LF ACCTAGACAAATCAGCTGGT 14930 - 14949 ORF1ab ACCTAGACAAATCAGCTGGT 18187-18206 45 80 70.48 65.16 35
CoV2ID231 LAMP loop backward primer Yang_ORF1ab_LB CTTTTCGCATATACAAA 15019 - 15035 ORF1ab CTTTTCGCATATACAAA 18276-18292 35.29 40 67.51 47.6 35
CoV2ID232 LAMP outer forward primer Yang_E_F3 AGCTGATGAGTACGAACTT 26226 - 26244 E AGCTGATGAGTACGAACTT 33857-33868 0 0 26.59 8.86 35
CoV2ID233 LAMP outer backward primer Yang_E_B3 ACTCTCGTGTTAAAAATCTGAA 26420 - 26441 E ACTCTCGTGTTAAAAATCTGAA 34121-34132 0 0 43.65 14.55 35
CoV2ID234 LAMP forward inner primer Yang_E_FIP TTCGTTTCGGAAGAGACAGTACTTCTTTTTCTTGCTTTCGTGGT 26293 - 26318 E GTACTTCTTTTTCTTGCTTTCGTGGT 33955-33980 11.54 20 44.87 25.47 35
CoV2ID235 LAMP backward inner primer Yang_E_BIP TTGCTAGTTACACTAGCCATCCTTACGTGAGTCTTGTAAAACCT 26387 - 26406 E ACGTGAGTCTTGTAAAACCT 33985-34010 23.08 20 51.28 31.45 35
CoV2ID236 LAMP loop forward primer Yang_E_LF GTACGTTAATAGTTAATAGCG 26273 - 26293 E GTACGTTAATAGTTAATAGCG 33935-33955 0 0 29.02 9.67 35
CoV2ID237 LAMP loop backward primer Yang_E_LB GCGCTTCGATTGTGTGC 26350 - 26366 E GCGCTTCGATTGTGTGC 34012-34028 29.41 0 59.38 29.6 35
CoV2ID238 LAMP forward inner primer Yang_N_FIP CAATGCTGCAATCGTGCTACGCTTCTACGCAGAAGGGAGCA 28782 - 28802 N GCTTCTACGCAGAAGGGAGCA 36540-36560 0 0 52.38 17.46 35
CoV2ID239 LAMP backward inner primer Yang_N_BIP GGCGGCAGTCAAGCCTCTTCAACTCCAGGCAGCAGTAGG 28861 - 28882 N TTCAACTCCAGGCAGCAGTAGG 36640-36661 4.55 0 37.88 14.14 35
CoV2ID240 LAMP loop forward primer Yang_N_LF CTTCCTCAAGGAACAAC 28754 - 28770 N CTTCCTCAAGGAACAAC 36512-36528 0 0 50.14 16.71 35
CoV2ID241 LAMP loop backward primer Yang_N_LB ACGTAGTCGCAACAGTTCAAGAAATT 28837 - 28862 N ACGTAGTCGCAACAGTTCAAGAAATT 36617-36641 16 20 48.95 28.32 35
CoV2ID242 LAMP outer forward primer Orf1a-A-F3 CTGCACCTCATGGTCATGTT 498 - 517 ORF1ab CTGCACCTCATGGTCATGTT 936-955 10 20 49.76 26.59 36
CoV2ID243 LAMP outer backward primer Orf1a-A-B3 AGCTCGTCGCCTAAGTCAA 693 - 711 ORF1ab TTGACTTAGGCGACGAGCT 1217-1229 23.08 20 59.71 34.26 36
CoV2ID244 LAMP forward inner primer Orf1a-A-FIP GAGGGACAAGGACACCAAGTGTATGGTTGAGCTGGTAGCAGA 517 - 537 ORF1ab TATGGTTGAGCTGGTAGCAGA 1011-1032 0 0 42.42 14.14 36
CoV2ID245 LAMP backward inner primer Orf1a-A-BIP CCAGTGGCTTACCGCAAGGTTTTAGATCGGCGCCGTAAC 669 - 687 ORF1ab GTTACGGCGCCGATCTAAA 1186-1204 0 0 31.58 10.53 36
CoV2ID246 LAMP loop forward primer Orf1a-A-LF CCGTACTGAATGCCTTCGAGT 538 - 558 ORF1ab ACTCGAAGGCATTCAGTACGG 977-997 0 0 32.43 10.81 36
CoV2ID247 LAMP loop backward primer Orf1a-A-LB TTCGTAAGAACGGTAATAAAGGAGC 633 - 657 ORF1ab TTCGTAAGAACGGTAATAAAGGAGC 1150-1174 8 0 41.9 16.63 36
CoV2ID248 LAMP outer forward primer Orf1a-B-F3 TCATCAAACGTTCGGATGCT 474 - 493 ORF1ab TCATCAAACGTTCGGATGCT 906-917 0 0 33.33 11.11 36
CoV2ID249 LAMP outer backward primer Orf1a-B-B3 TATGGCCACCAGCTCCTT 651 - 668 ORF1ab AAGGAGCTGGTGGCCATA 1168-1185 0 0 27.25 9.08 36
CoV2ID250 LAMP forward inner primer Orf1a-B-FIP CGACCGTACTGAATGCCTTCGAGAACTGCACCTCATGGTCAT 495 - 514 ORF1ab GAACTGCACCTCATGGTCAT 978-1000 0 0 35.4 11.8 36
CoV2ID251 LAMP backward inner primer Orf1a-B-BIP AGACACTTGGTGTCCTTGTCCCAGAAGAACCTTGCGGTAAGC 614 - 633 ORF1ab GCTTACCGCAAGGTTCTTCT 1009-1030 0 0 42.86 14.29 36
CoV2ID252 LAMP loop forward primer Orf1a-B-LF CTGCTACCAGCTCAACCATAAC 515 - 536 ORF1ab GTTATGGTTGAGCTGGTAGCAG 953-975 4.35 0 44.31 16.22 36
CoV2ID253 LAMP loop backward primer Orf1a-B-LB TCATGTGGGCGAAATACCAGT 592 - 612 ORF1ab TCATGTGGGCGAAATACCAGT 1031-1051 0 0 36.51 12.17 36
CoV2ID254 LAMP outer backward primer Orf1a-C-B3 GATCAGTGCCAAGCTCGTC 704 - 722 ORF1ab GACGAGCTTGGCACTGATC 1235-1251 0 0 41.74 13.91 36
CoV2ID255 LAMP forward inner primer Orf1a-C-FIP GAGGGACAAGGACACCAAGTGTGGTAGCAGAACTCGAAGGC 528 - 547 ORF1ab TGGTAGCAGAACTCGAAGGC 1011-1032 0 0 42.42 14.14 36
CoV2ID256 LAMP loop forward primer Orf1a-C-LF ACCACTACGACCGTACTGAAT 548 - 568 ORF1ab ATTCAGTACGGTCGTAGTGGT 987-1007 0 0 39.91 13.3 36
CoV2ID257 LAMP outer forward primer Zhu_Orf1ab_F3 GGATTTTGTGACTTAAAAGGTAAG 13286 - 13309 ORF1ab GGATTTTGTGACTTAAAAGGTAAG 16513-16536 41.67 60 68.85 56.84 37
CoV2ID258 LAMP outer backward primer Zhu_Orf1ab_B3 GGTTTGCGGTGTAAGTGCAGCCCGT 13470 - 13494 ORF1ab GGTTTGCGGTGTAAGTGCAGCCCGT 16708-16726 36.84 20 66.92 41.25 37
CoV2ID259 LAMP forward inner primer Zhu_Orf1ab_FIP TGTACAAATACCTACAACTTGTGACACTTAAAAACACAGTCTGTACCG 13355 - 13379 ORF1ab ACACTTAAAAACACAGTCTGTACCG 16582-16606 28 40 57.52 41.84 37
CoV2ID260 LAMP backward inner primer Zhu_Orf1ab_BIP TCTGCGGTATGTGGAAAGGTTATGCTGATGCACAATCGTTT 13445 - 13462 ORF1ab GCTGATGCACAATCGTTT 16607-16630 25 60 59.92 48.31 37
CoV2ID261 LAMP loop forward primer Zhu_Orf1ab_LF CTAATGACCCTGTGGGTTT 13335 - 13353 ORF1ab CTAATGACCCTGTGGGTTT 16562-16580 36.84 20 61.4 39.41 37
CoV2ID262 LAMP loop backward primer Zhu_Orf1ab_LB GAACCCATGCTTCAGTC 13427 - 13443 ORF1ab GAACCCATGCTTCAGTC 16664-16680 11.76 20 47.62 26.46 37
CoV2ID263 LAMP outer forward primer Zhu_N_F3 CTACCTAGGAACTGGGCC 28606 - 28623 N CTACCTAGGAACTGGGCC 36364-36381 5.56 0 49.74 18.43 37
CoV2ID264 LAMP outer backward primer Zhu_N_B3 GGCAGTCAAGCCTCTTCT 28808 - 28825 N GGCAGTCAAGCCTCTTCT 36566-36583 16.67 0 51.85 22.84 37
CoV2ID265 LAMP forward inner primer Zhu_N_FIP CCTATGGTGCTAACAAAGACTGAGGGAGCCTTGAATACACC 28676 - 28698 N ACTGAGGGAGCCTTGAATACACC 36434-36456 0 0 49.48 16.49 37
CoV2ID266 LAMP backward inner primer Zhu_N_BIP AATCCTGCTAACAATGCTGCAATCCTACGCAGAAGGGAGCAG 28786 - 28803 N CTACGCAGAAGGGAGCAG 36479-36502 0 0 46.23 15.41 37
CoV2ID267 LAMP loop forward primer Zhu_N_LF GCATCATATGGGTTGCAAC 28659 - 28677 N GCATCATATGGGTTGCAAC 36417-36435 0 0 52.38 17.46 37
CoV2ID268 LAMP loop backward primer Zhu_N_LB CTTCCTCAAGGAACAACAT 28754 - 28772 N CTTCCTCAAGGAACAACAT 36512-36530 0 0 50.38 16.79 37
CoV2ID269 PCR primer forward Amrane_S_F AAACTTGTGCCCTTTTGGTG 22561 - 22580 S AAACTTGTGCCCTTTTGGTG 28216-28235 0 0 40.24 13.41 38
CoV2ID270 PCR primer reverse Amrane_S_R TGCTGATTCTCTTCCTGTTCC 22620 - 22640 S GGAACAGGAAGAGAATCAGCA 28296-28316 4.76 0 35.83 13.53 38
CoV2ID271 Probe Amrane_S_P CGCCACCAGATTTGCATCTG 22591 - 22610 S CGCCACCAGATTTGCATCTG 28246-28265 5 20 30.71 18.57 38
CoV2ID272 PCR primer forward Wu_For ATGGGTTGGGATTATCCTAAATGTGA 15283 - 15308 ORF1ab ATGGGTTGGGATTATCCTAAATGTGA 18540-18565 76.92 80 92.31 83.08 39
CoV2ID273 PCR primer reverse Wu_Rev AGCAGTTGTGGCATCTCCTGATGAG 15480 - 15504 ORF1ab CTCATCAGGAGATGCCACAACTGCT 18737-18761 44 0 68.57 37.52 39
CoV2ID274 Probe MGB Probe ATGCTTAGAATTATGGCCTCAC 15325 - 15346 ORF1ab ATGCTTAGAATTATGGCCTCAC 18582-18603 27.27 0 53.25 26.84 39
CoV2ID275 PCR primer forward short_N_spk_2_F AAGACGGCATCATATGGGTTGC 28653 - 28674 N AAGACGGCATCATATGGGTTGC 36411-36432 0 0 52.38 17.46 40
CoV2ID276 PCR primer reverse short_N_spk_1_R GGCAATGTTGTTCCTTGAGGAAG 28754 - 28776 N CTTCCTCAAGGAACAACATTGCC 36512-36534 0 0 50.72 16.91 40
CoV2ID277 LAMP outer forward primer Yu_orf1ab_F3 CCACTAGAGGAGCTACTGTA 15182 - 15201 ORF1ab CCACTAGAGGAGCTACTGTA 18439-18458 30 40 63.1 44.37 41
CoV2ID278 LAMP outer backward primer Yu_orf1ab_B3 TGACAAGCTACAACACGT 15370 - 15387 ORF1ab ACGTGTTGTAGCTTGTCA 18627-18644 33.33 40 56.61 43.31 41
CoV2ID279 LAMP forward inner primer Yu_orf1ab_FIP AGGTGAGGGTTTTCTACATCACTATATTGGAACAAGCAAATTCTATGG 15205 - 15227 ORF1ab ATTGGAACAAGCAAATTCTATGG 18513-18538 38.46 20 65.02 41.16 41
CoV2ID280 LAMP backward inner primer Yu_orf1ab_BIP ATGGGTTGGGATTATCCTAAATGTGTGCGAGCAAGAACAAGTG 15344 - 15361 ORF1ab CACTTGTTCTTGCTCGCA 18540-18564 76 100 92 89.33 41
CoV2ID281 LAMP loop forward primer Yu_orf1ab_LF CAGTTTTTAACATGTTGTGCCAACC 15229 - 15253 ORF1ab GGTTGGCACAACATGTTAAAAACTG 18486-18510 40 0 65.71 35.24 41
CoV2ID282 LAMP loop backward primer Yu_orf1ab_LB ATAGAGCCATGCCTAACATGCTT 15308 - 15330 ORF1ab ATAGAGCCATGCCTAACATGCTT 18565-18587 47.83 60 74.53 60.79 41
CoV2ID283 PCR primer forward M-475-F TGTGACATCAAGGACCTGCC 26997 - 27016 M TGTGACATCAAGGACCTGCC 34717-34732 18.75 60 47.62 42.12 42
CoV2ID284 PCR primer reverse M-574-R CTGAGTCACCTGCTACACGC 27077 - 27096 M GCGTGTAGCAGGTGACTCAG 34797-34816 5 0 40 15 42
CoV2ID285 Probe M-507-P TGTTGCTACATCACGAACGC 27029 - 27048 M TGTTGCTACATCACGAACGC 34745-34764 20 0 50.71 23.57 42
CoV2ID286 PCR primer forward S-1850-F GCACAGAAGTCCCTGTTGCT 23412 - 23431 S GCACAGAAGTCCCTGTTGCT 29504-29523 0 0 38.57 12.86 42
CoV2ID287 PCR primer reverse S-1949-R AAACAGCCTGCACGTGTTTG 23492 - 23511 S CAAACACGTGCAGGCTGTTT 29630-29649 0 0 50.48 16.83 42
CoV2ID288 Probe S-1884-P ACTTACTCCTACTTGGCGTGT 23446 - 23466 S ACTTACTCCTACTTGGCGTGT 29538-29558 0 0 40.14 13.38 42
CoV2ID289 LAMP outer forward primer S1-F3 AGTTTGAGCCATCAACTCA 3084 - 3102 ORF1ab AGTTTGAGCCATCAACTCA 4641-4657 17.65 20 52.1 29.92 43
CoV2ID290 LAMP outer backward primer S1-B3 TGAACCTCAACAATTGTTTGA 3271 - 3291 ORF1ab TCAAACAATTGTTGAGGTTCA 5047-5067 4.76 0 42.86 15.87 43
CoV2ID291 LAMP forward inner primer S1-F1P CAGGTTGAAGAGCAGCAGAAGTGTACTGAAGATGATTACCAAGG 3114 - 3135 ORF1ab GTACTGAAGATGATTACCAAGG 4705-4723 5.26 0 48.87 18.04 43
CoV2ID292 LAMP backward inner primer S1-B1P AGCAAGAAGAAGATTGGTTAGATGATGTCTGATTGTCCTCACTG 3244 - 3262 ORF1ab CAGTGAGGACAATCAGACA 5020-5038 0 0 32.33 10.78 43
CoV2ID293 LAMP loop forward primer S1-LPF GGCACCAAATTCCAAAGGT 3139 - 3157 ORF1ab ACCTTTGGAATTTGGTGCC 4784-4802 0 0 32.08 10.69 43
CoV2ID294 LAMP loop backward primer S1-LPB AACTGTTGGTCAACAAGACGG 3223 - 3243 ORF1ab AACTGTTGGTCAACAAGACGG 4999-5019 0 0 43.54 14.51 43
CoV2ID295 LAMP outer forward primer S2-F3 ATTCTAAGCACACGCCTAT 22173 - 22191 S ATTCTAAGCACACGCCTAT 27158-27176 15.79 20 46.37 27.39 43
CoV2ID296 LAMP outer backward primer S2-B3 GAAGATAACCCACATAATAAGCT 22351 - 22373 S AGCTTATTATGTGGGTTATCTTC 27827-27847 9.52 40 48.07 32.53 43
CoV2ID297 LAMP forward inner primer S2-F1P ACCTATTGGCAAATCTACCAATGGTTTAGTGCGTGATCTCCCT 22195 - 22213 S TTTAGTGCGTGATCTCCCT 27347-27364 5.56 20 45.5 23.69 43
CoV2ID298 LAMP backward inner primer S2-B1P ATCACTAGGTTTCAAACTTTACTTGCCTGTCCAACCTGAAGAAGA 22322 - 22140 S TCTTCTTCAGGTTGGACAG 27648-27666 10.53 20 47.62 26.05 43
CoV2ID299 LAMP loop forward primer S2-LPF TTCTAAAGCCGAAAAACCCTG 22214 - 22234 S CAGGGTTTTTCGGCTTTAGAA 27328-27348 9.52 0 55.56 21.69 43
CoV2ID300 LAMP loop backward primer S2-LPB CATAGAAGTTATTTGACTCCTGGTG 22295 - 22319 S CATAGAAGTTATTTGACTCCTGGTG 27573-27596 4.17 20 41.67 21.95 43
CoV2ID301 LAMP outer forward primer S3-F3 CACCTTATGGGTTGGGATT 15277 - 15295 ORF1ab CACCTTATGGGTTGGGATT 18534-18552 63.16 80 81.2 74.79 43
CoV2ID302 LAMP outer backward primer S3-B3 AACATATAGTGAACCGCCA 15447 - 15465 ORF1ab TGGCGGTTCACTATATGTT 18704-18722 26.32 20 64.66 36.99 43
CoV2ID303 LAMP forward inner primer S3-F1P GTTTGCGAGCAAGAACAAGTGAATGTGATAGAGCCATGCC 15302 - 15320 ORF1ab AATGTGATAGAGCCATGCC 18600-18621 31.82 60 58.66 50.16 43
CoV2ID304 LAMP backward inner primer S3-B1P ATACAACGTGTTGTAGCTTGTCACACATGACCATTTCACTCAA 15427 - 15448 ORF1ab TTGAGTGAAATGGTCATGTGTG 18622-18647 34.62 40 57.69 44.1 43
CoV2ID305 LAMP loop forward primer S3-LPF GGCCATAATTCTAAGCATGTTA 15321 - 15342 ORF1ab TAACATGCTTAGAATTATGGCC 18578-18599 27.27 20 56.93 34.73 43
CoV2ID306 LAMP loop backward primer S3-LPB ATTAGCTAATGAGTGTGCTCAAGTA 15402 - 15426 ORF1ab ATTAGCTAATGAGTGTGCTCAAGTA 18659-18683 48 20 73.9 47.3 43
CoV2ID307 LAMP outer forward primer S4-F3 ACATGCTTAGAATTATGGCC 15323 - 15342 ORF1ab ACATGCTTAGAATTATGGCC 18580-18599 30 20 57.38 35.79 43
CoV2ID308 LAMP outer backward primer S4-B3 GCTTGACAAATGTTAAAAACACT 15514 - 15536 ORF1ab AGTGTTTTTAACATTTGTCAAGC 18771-18793 56.52 20 79.3 51.94 43
CoV2ID309 LAMP forward inner primer S4-F1P TTGAGCACACTCATTAGCTAATCTATCACTTGTTCTTGCTCGCA 15343 - 15361 ORF1ab TCACTTGTTCTTGCTCGCA 18655-18680 50 60 75.27 61.76 43
CoV2ID310 LAMP backward inner primer S4-B1P GAGTGAAATGGTCATGTGTGGCGCATAAGCAGTTGTGGCA 15492 - 15509 ORF1ab TGCCACAACTGCTTATGC 18686-18708 30.43 40 64.8 45.08 43
CoV2ID311 LAMP loop forward primer S4-LPF GACAAGCTACAACACGTTGTATGT 15363 - 15386 ORF1ab ACATACAACGTGTTGTAGCTTGTC 18620-18643 37.5 0 59.92 32.47 43
CoV2ID312 LAMP loop backward primer S4-LPB ACTATATGTTAAACCAGGTGGAACC 15456 - 15480 ORF1ab ACTATATGTTAAACCAGGTGGAACC 18713-18737 52 20 74.1 48.7 43
CoV2ID313 LAMP outer forward primer S5-F3 ATGGCCTCACTTGTTCTT 15337 - 15354 ORF1ab ATGGCCTCACTTGTTCTT 18594-18611 22.22 40 47.62 36.61 43
CoV2ID314 LAMP outer backward primer S5-B3 TAACATTGGCCGTGACAG 15536 - 15553 ORF1ab CTGTCACGGCCAATGTTA 18793-18810 27.78 20 64.02 37.27 43
CoV2ID315 LAMP forward inner primer S5-F1P TTGAGCACACTCATTAGCTAATCTATGCTCGCAAACATACAACG 15354 - 15372 ORF1ab TGCTCGCAAACATACAACG 18655-18680 50 60 75.27 61.76 43
CoV2ID316 LAMP backward inner primer S5-B1P GTCATGTGTGGCGGTTCACTACACTATTAGCATAAGCAGTTG 15497 - 15518 ORF1ab CAACTGCTTATGCTAATAGTGT 18754-18775 50 40 77.71 55.9 43
CoV2ID317 LAMP loop forward primer S5-LPF ACGGTGTGACAAGCTACAACA 15373 - 15393 ORF1ab TGTTGTAGCTTGTCACACCGT 18630-18650 33.33 20 58.05 37.13 43
CoV2ID318 LAMP loop backward primer S5-LPB CCAGGTGGAACCTCATCAGGAG 15469- 15490 ORF1ab CCAGGTGGAACCTCATCAGGAG 18726-18747 50 80 70.78 66.93 43
CoV2ID319 PCR primer forward Smyrlaki_N1_F GACCCCAAAATCAGCGAA 28287 - 28304 N GACCCCAAAATCAGCGAA 36045-36062 0 0 52.38 17.46 44
CoV2ID320 PCR primer forward Smyrlaki_E_F GGAAGAGACAGGTACGTTAATA 26262 - 26283 E GGAAGAGACAGGTACGTTAATA 33924-33945 0 0 27.92 9.31 44
CoV2ID321 PCR primer reverse Smyrlaki_E_R AGCAGTACGCACACAATCGAA 26354 - 26374 E TTCGATTGTGTGCGTACTGCT 34016-34036 23.81 20 56.46 33.42 44
CoV2ID322 PCR primer forward Smyrlaki_RdRP_F GTCATGTGTGGCGGTTCACT 15439 - 15458 ORF1ab GTCATGTGTGGCGGTTCACT 18696-18715 25 0 61.19 28.73 44
CoV2ID323 PCR primer reverse Smyrlaki_RdRP_R CAACACTATTAGCATAAGCAGTTGT 15519 - 15496 ORF1ab ACAACTGCTTATGCTAATAGTGTT 18753-18776 50 60 77.18 62.39 44
CoV2ID324 PCR primer forward Li_S_F TGTACTTGGACAATCAAAAAGAGTTGAT 24658 - 24685 S TGTACTTGGACAATCAAAAAGAGTTGAT 30974-31001 28.57 0 58.33 28.97 45
CoV2ID325 PCR primer reverse Li_S_R AGGAGCAGTTGTGAAGTTCTTTTC 24776 - 24799 S GAAAAGAACTTCACAACTGCTCCT 31092-31115 0 0 44.25 14.75 45
CoV2ID326 gRNA N-gene gRNA #1 UAAUUUCUACUAAGUGUAGAUCCCCCAGCGCUUCAGCGUUC 29196 - 29215 N CCCCCAGCGCTTCAGCGTTC 37064-37083 25 40 55.71 40.24 10
CoV2ID327 gRNA E-gene gRNA #2 UAAUUUCUACUAAGUGUAGAUGUGGUAUUCUUGCUAGUUAC 26314 - 26333 E GTGGTATTCTTGCTAGTTAC 33976-33995 15 20 44.52 26.51 10
CoV2ID328 gRNA N-gene gRNA #2 UAAUUUCUACUAAGUGUAGAUGCAAUGUUGUUCCUUGAGGA 28756 - 28775 N TCCTCAAGGAACAACATTGC 36514-36533 0 0 51.43 17.14 10
CoV2ID329 gRNA E-gene gRNA #1 UAAUUUCUACUAAGUGUAGAUUUGCUUUCGUGGUAUUCUUG 26306 - 26325 E TTGCTTTCGTGGTATTCTTG 33968-33987 5 0 42.86 15.95 10
CoV2ID330 PCR primer forward SARS-CoV-2-15283-F ATGGGTTGGGATTATCCTAAATG 15283 - 15305 ORF1ab ATGGGTTGGGATTATCCTAAATG 18540-18562 78.26 80 92.55 83.6 46
CoV2ID331 PCR primer reverse SARS-CoV-2-15887-R TGTTGAGAGCAAAATTCATG 15868 - 15887 ORF1ab CATGAATTTTGCTCTCAACA 19137-19156 75 100 87.62 87.54 46
CoV2ID332 PCR primer forward SARS-CoV-2-15286-F GGTTGGGATTATCCTAAATGTGA 15286 - 15308 ORF1ab GGTTGGGATTATCCTAAATGTGA 18543-18565 73.91 80 91.3 81.74 46
CoV2ID333 PCR primer reverse SARS-CoV-2-15725-R GCATCGTCAGAGAGTATCATCAT 15703 - 15725 ORF1ab ATGATGATACTCTCTGACGATGC 18972-18994 65.22 100 81.99 82.4 46
CoV2ID334 PCR primer forward Wuhan-TM2020For TCGTGCTACAACTTCCTCAAG 28743 - 28763 N TCGTGCTACAACTTCCTCAAG 36501-36521 0 0 44.67 14.89 47
CoV2ID335 PCR Probe Wuhan-TM2020Probe CCGCCTCTGCTCCCTTCTGC 28790 - 28809 N GCAGAAGGGAGCAGAGGCGG 36548-36567 0 0 46.9 15.63 47
CoV2ID336 PCR primer reverse SARS2-28875R-G CTGCCTGGAGTTGAATTTCTTG 28854 - 28875 N CAAGAAATTCAACTCCAGGCAG 36633-36654 9.09 20 40.04 23.04 47
CoV2ID337 PCR primer reverse SARS2-28875R-A CTGCCTGGAGTTGAATTTCTTA 28854 -28875 N CAAGAAATTCAACTCCAGGCAG 36634-36654 4.76 0 37.19 13.98 47
CoV2ID338 LAMP outer forward primer ORF7a-F3 TCTTGGCACTGATAACACTC 27410 - 27429 ORF7a TCTTGGCACTGATAACACTC 35149-35168 0 0 52.38 17.46 48
CoV2ID339 LAMP outer backward primer ORF7a-B3 GATCTGGCACGTAACTGAT 27617 - 27635 ORF7a ATCAGTTACGTGCCAGATC 35356-35374 0 0 52.38 17.46 48
CoV2ID340 LAMP forward inner primer ORF7a-FIP TCCAGAAGAGCAAGGTTCTTTTAAAGCTACTTGTGAGCTTTATCACT 27430 - 27451 ORF7a GCTACTTGTGAGCTTTATCACT 35222-35246 4 0 47.43 17.14 48
CoV2ID341 LAMP backward inner primer ORF7a-BIP AGCTGATAACAAATTTGCACTGACGTTTTACGCCGTCAGGAC 27593 - 27610 ORF7a GTCCTGACGGCGTAAAAC 35279-35302 0 0 52.38 17.46 48
CoV2ID342 LAMP loop forward primer ORF7a-LF GTTGTACCTCTAACACACTCTTGGT 27452 - 27476 ORF7a ACCAAGAGTGTGTTAGAGGTACAAC 35191-35215 4 0 43.81 15.94 48
CoV2ID343 LAMP loop backward primer ORF7a-LB GCTTTAGCACTCAATTTGCTTTTGC 27566 - 27590 ORF7a GCTTTAGCACTCAATTTGCTTTTGC 35305-35329 0 0 40.57 13.52 48
CoV2ID344 LAMP LAMP outer forward primer M-GENE-F3 AGTAATAGGTTTCCTATTCCTTAC 26588 - 26611 M AGTAATAGGTTTCCTATTCCTTAC 34295-34318 12.5 0 47.22 19.91 48
CoV2ID345 LAMP LAMP outer backward primer M-GENE-B3 AGCCACATCAAGCCTACA 26783 - 26800 M TGTAGGCTTGATGTGGCT 34496-34513 27.78 0 58.73 28.84 48
CoV2ID346 LAMP forward inner primer M-GENE-FIP GCCATAACAGCCAGACCAAAATTAATGGATTTGTCTTCTACAATTTGC 26613 - 26635 M ATGGATTTGTCTTCTACAATTTGC 34319-34342 29.17 40 59.13 42.77 48
CoV2ID347 LAMP backward inner primer M-GENE-BIP TTAGCTTGTTTTGTGCTTGCTGACAAGCCATTGCGATAGC 267763 - 26780 M GCTATCGCAATGGCTTGT 34413-34431 10.53 20 53.63 28.05 48
CoV2ID348 LAMP loop forward primer M-GENE-LF CAAAAACCTATTCCTGTTGGCATAG 26636 - 26660 M CTATGCCAACAGGAATAGGTTTTTG 34343-34367 12 20 49.71 27.24 48
CoV2ID349 LAMP loop backward primer M-GENE-LB CAGAATAAATTGGATCACCGGTGGA 26735 - 26759 M CAGAATAAATTGGATCACCGGTGGA 34448-34472 4 0 43.43 15.81 48
CoV2ID350 LAMP loop backward primer M-GENE-LB-2 GAATAAATTGGATCACCGGTGGA 26737 - 26759 M GAATAAATTGGATCACCGGTGGA 34450-34472 4.35 0 44.72 16.36 48
CoV2ID351 LAMP LAMP outer forward primer ORF3a-A-F3 CACTTCAGACTATTACCAGCT 26013 - 26033 ORF3a CACTTCAGACTATTACCAGCT 33545-33565 4.76 20 42.63 22.46 48
CoV2ID352 LAMP LAMP outer backward primer ORF3a-A-B3 GCTTGTGCTTACAAAGGC 26211 - 26228 ORF3a GCCTTTGTAAGCACAAGC 33842-33859 0 0 34.66 11.55 48
CoV2ID353 LAMP forward inner primer ORF3a-A-FIP GTTCTTCAGGCTCATCAACAATTTTCTCAACTCAATTGAGTACAGACA 26037 - 26059 ORF3a CTCAACTCAATTGAGTACAGACA 33695-33713 10.53 0 46.37 18.97 48
CoV2ID354 LAMP backward inner primer ORF3a-A-BIP CCAAATTCACACAATCGACGGTTTAGTAGTCGTCGTCGGTT 26189 - 26206 ORF3a AACCGACGACGACTACTA 33797-33814 0 0 39.42 13.14 48
CoV2ID355 LAMP loop forward primer ORF3a-A-LF TGAAGAAGGTAACATGTTCAACACC 26062 - 26086 ORF3a GGTGTTGAACATGTTACCTTCTTCA 33632-33656 20 0 52.95 24.32 48
CoV2ID356 LAMP loop backward primer ORF3a-A-LB CGGAGTTGTTAATCCAGTAATGGAA 26151 - 26175 ORF3a CGGAGTTGTTAATCCAGTAATGGAA 33759-33783 8 0 42.86 16.95 48
CoV2ID357 LAMP LAMP outer forward primer ORF3a-B-F3 ATTTTGTTCGCGCTACTG 25472 - 25489 ORF3a ATTTTGTTCGCGCTACTG 32054-32071 0 0 38.1 12.7 48
CoV2ID358 LAMP LAMP outer backward primer ORF3a-B-B3 ACGAGCAAAAGGTGTGAG 25665 - 25682 ORF3a CTCACACCTTTTGCTCGT 32994-33011 11.11 0 43.12 18.08 48
CoV2ID359 LAMP forward inner primer ORF3a-B-FIP CTCTGAAAAACAGCAAGAAGAGCAAGATACCGATACAAGCCTCAC 25494- 25513 ORF3a GATACCGATACAAGCCTCAC 32077-32096 0 0 37.14 12.38 48
CoV2ID360 LAMP backward inner primer ORF3a-B-BIP TAACCCTCAAAAAGAGATGGCAACAAACAACAACAGCAAGTTG 25635 - 25654 ORF3a CAACTTGCTGTTGTTGTTTG 32563-32575 0 0 45.42 15.14 48
CoV2ID361 LAMP loop forward primer ORF3a-B-LF ACAATAAGCCATCCGAAAGGGA 25514 - 25535 ORF3a TCCCTTTCGGATGGCTTATTGT 32227-32247 0 0 34.92 11.64 48
CoV2ID362 LAMP loop backward primer ORF3a-B-LB CACTCTCCAAGGGTGTTCACT 25607 - 25627 ORF3a CACTCTCCAAGGGTGTTCACT 32664-32679 0 0 25.3 8.43 48
CoV2ID363 LAMP forward inner primer GENE-N-T7-FIP TCTGGCCCAGTTCCTAGGTAGTTAATACGACTCACTATAGGCCAGACGAATTCGTGGTGG 28545 - 28563 N CCAGACGAATTCGTGGTGG 36363-36384 4.55 0 49.78 18.11 48
CoV2ID364 LAMP forward inner primer ORF7-T7-FIP TCCAGAAGAGCAAGGTTCTTTTAAATAATACGACTCACTATAGGGCTACTTGTGAGCTTTATCACT 27430 - 27451 ORF7 GCTACTTGTGAGCTTTATCACT 35222-35246 4 0 47.43 17.14 48
CoV2ID365 LAMP forward inner primer ORF3a-A-T7-FIP GTTCTTCAGGCTCATCAACAATTTTTAATACGACTCACTATAGGGCTCAACTCAATTGAGTACAGACA 26037 - 26059 ORF3a CTCAACTCAATTGAGTACAGACA 33695-33713 10.53 0 46.37 18.97 48
CoV2ID366 gRNA Schermer_Orf1ab GATTTAGACTACCCCAAAAACGAAGGGGACTAAAACCCAACCTCTTCTGTAATTTTTAAACTAT 6510 - 6537 ORF1ab ATAGTTTAAAAATTACAGAAGAGGTTGG 9082-9109 0 0 32.82 10.94 48
CoV2ID367 gRNA Schermer_S Gene GATTTAGACTACCCCAAAAACGAAGGGGACTAAAACGCAGCACCAGCTGTCCAACCTGAAGAAG 22323 - 22350 S CTTCTTCAGGTTGGACAGCTGGTGCTGC 27649-27677 10.34 0 46.63 18.99 48
CoV2ID368 gRNA Schermer_Gene-N GATTTAGACTACCCCAAAAACGAAGGGGACTAAAACTTGTTAGCACCATAGGGAAGTCCAGCTT 28626 - 28653 N AAGCTGGACTTCCCTATGGTGCTAACAA 36384-36411 0 0 52.38 17.46 48
CoV2ID369 gRNA Schermer_Orf7 GATTTAGACTACCCCAAAAACGAAGGGGACTAAAACGGATGAAATGGTGAATTGCCCTCGTATG 27509 - 27535 ORF7 CATACGAGGGCAATTCACCATTTCATCC 35248-35275 0 0 52.38 17.46 48
CoV2ID370 gRNA Schermer_Orf3 GATTTAGACTACCCCAAAAACGAAGGGGACTAAAACTGTGAATTTGGACATGTTCTTCAGGCTC 26107 - 26134 ORF3 GAGCCTGAAGAACATGTCCAAATTCACA 33701-33723 4.35 0 43.06 15.8 48
CoV2ID371 RPA forward primer Orf1ab-Fw_v1 GAAATTAATACGACTCACTATAGGGCGAAGTTGTAGGAGACATTATACTTAAACC 6472 - 6501 ORF1ab CGAAGTTGTAGGAGACATTATACTTAAACC 9035-9064 10 0 40 16.67 48
CoV2ID372 RPA reverse primer Orf1ab-Rev_v1 TAGTAAGACTAGAATTGTCTACATAAGCAGC 6554 - 6584 ORF1ab GCTGCTTATGTAGACAATTCTAGTCTTACTA 9130-9160 9.68 20 47.93 25.87 48
CoV2ID373 RPA forward primer S-RPA-Fw_v1 GAAATAATACGACTCACTATAGGGAGGTTTCAAACTTTACTTGCTTTACATAGA 22271 - 22300 S AGGTTTCAAACTTTACTTGCTTTACATAGA 27466-27487 13.64 20 53.46 29.03 48
CoV2ID374 RPA reverse primer S-RPA-Rev_v1 TCCTAGGTTGAAGATAACCCACATAATAAG 22353 - 22382 S CTTATTATGTGGGTTATCTTCAACCTAGGA 27828-27847 10 40 48.81 32.94 48
CoV2ID375 PCR primer forward Li_orf1ab_F TGATGATACTCTCTGACGATGCTGT 15704 - 15728 ORF1ab TGATGATACTCTCTGACGATGCTGT 18973-18997 64 60 82.29 68.76 49
CoV2ID376 PCR primer reverse Li_orf1ab_R CTCAGTCCAACATTTTGCTTCAGA 15823 - 15846 ORF1ab TCTGAAGCAAAATGTTGGACTGAG 19092-19115 41.67 0 73.81 38.49 49
CoV2ID377 PCR Probe Li_orf1ab_P ATGCATCTCAAGGTCTAGTG 15749 - 15768 ORF1ab ATGCATCTCAAGGTCTAGTG 19018-19037 35 20 60.48 38.49 49
CoV2ID378 PCR primer forward BTstin_ORF1ab_F GGATCAAGAATCCTTTGGTGG 13213 - 13233 ORF1ab GGATCAAGAATCCTTTGGTGG 16440-16460 57.14 100 74.83 77.32 50
CoV2ID379 PCR primer reverse BTstin_ORF1ab_R GTCACAAAATCCTTTAGGATTTGGA 13273 - 13297 ORF1ab TCCAAATCCTAAAGGATTTTGTGAC 16500-16524 28 40 60.38 42.79 50
CoV2ID380 PCR Probe BTstin_ORF1ab_P CATCGTGTTGTCTGTACTGCCGTTGCC 13236 - 13262 ORF1ab CATCGTGTTGTCTGTACTGCCGTTGCC 16463-16489 48.15 20 70.9 46.35 50
CoV2ID381 PCR primer forward WHCV-F1 CCAGGTAACAAACCAACCAACTT 20 -42 - CCAGGTAACAAACCAACCAACTT 106-124 0 0 33.08 11.03 51
CoV2ID382 PCR primer reverse WHCV-R1 GGCAACCAACATAAGAGAACACAC 1491 - 1514 ORF1ab GTGTGTTCTCTTATGTTGGTTGCC 2447-2462 0 0 28.27 9.42 51
CoV2ID383 PCR primer forward WHCV-F2 CAACCAAATGTGCCTTTCAACTC 1201 - 1223 ORF1ab CAACCAAATGTGCCTTTCAACTC 2024-2042 10.53 20 48.12 26.22 51
CoV2ID384 PCR primer reverse WHCV-R2 CACAGTGTCATCACCAAAAGTAACCT 2730 - 2755 ORF1ab AGGTTACTTTTGGTGATGACACTGTG 4109-4134 0 0 39.19 13.06 51
CoV2ID385 PCR primer forward WHCV-F3 TGTCACGCACTCAAAGGGATT 2392 - 2412 ORF1ab TGTCACGCACTCAAAGGGATT 3723-3743 0 0 34.47 11.49 51
CoV2ID386 PCR primer reverse WHCV-R3 GACAGCTAAGTAGACATTTGTGCGAA 3771 - 3796 ORF1ab TTCGCACAAATGTCTACTTAGCTGTC 5917-5942 7.69 0 48.17 18.62 51
CoV2ID387 PCR primer forward WHCV-F4 ATGCCATGCAAGTTGAATCTGAT 3507 - 3529 ORF1ab ATGCCATGCAAGTTGAATCTGAT 5647-5669 8.7 20 43.69 24.13 51
CoV2ID388 PCR primer reverse WHCV-R4 TGCGTGTGGAGGTTAATGTTGT 4989 - 5010 ORF1ab ACAACATTAACCTCCACACGCA 7313-7334 0 0 52.38 17.46 51
CoV2ID389 PCR primer forward WHCV-F5 GATCTCTCAAAGTGCCAGCTACAGT 4665 - 4689 ORF1ab GATCTCTCAAAGTGCCAGCTACAGT 6989-7013 0 0 52.38 17.46 51
CoV2ID390 PCR primer reverse WHCV-R5 TTATAATCAATAGCCACCACATCACC 6158 - 6183 ORF1ab GGTGATGTGGTGGCTATTGATTATAA 8652-8677 19.23 0 54.21 24.48 51
CoV2ID391 PCR primer forward WHCV-F6 AGAAACTTTGTATTGCATAGACGGTG 5791 - 5816 ORF1ab AGAAACTTTGTATTGCATAGACGGTG 8128-8153 3.85 20 39.01 20.95 51
CoV2ID392 PCR primer reverse WHCV-R6 ACCAGTACAGTAAGAAGGCATGCC 7037 - 7060 ORF1ab GGCATGCCTTCTTACTGTACTGGT 9807-9830 0 0 39.29 13.1 51
CoV2ID393 PCR primer forward WHCV-F7 GTTTAGCTGCTGTTAATAGTGTCCCTT 6642 - 6668 ORF1ab GTTTAGCTGCTGTTAATAGTGTCCCTT 9294-9312 15.79 20 56.89 30.89 51
CoV2ID394 PCR primer reverse WHCV-R7 TGCAACTTCCGCACTATCACC 8006 - 8026 ORF1ab GGTGATAGTGCGGAAGTTGCA 10942-10962 14.29 40 39.23 31.17 51
CoV2ID395 PCR primer forward WHCV-F8 TCCTACTGACCAGTCTTCTTACATCGT 7711 - 7737 ORF1ab TCCTACTGACCAGTCTTCTTACATCGT 10587-10613 25.93 20 55.38 33.77 51
CoV2ID396 PCR primer reverse WHCV-R8 TTTCACAAGTGCCGTGCCTAC 9216 - 9236 ORF1ab GTAGGCACGGCACTTGTGAAA 12256-12276 28.57 40 56.69 41.75 51
CoV2ID397 PCR primer forward WHCV-F9 GGTTTGCCTGGCACGATATTAC 8867 - 8888 ORF1ab GGTTTGCCTGGCACGATATTAC 11891-11915 12 0 46.48 19.49 51
CoV2ID398 PCR primer reverse WHCV-R9 ACTTAGGTGTCTTAGGATTGGCTGTAT 10329 - 10355 ORF1ab ATACAGCCAATCCTAAGACACCTAAGT 13418-13444 22.22 0 52.38 24.87 51
CoV2ID399 PCR primer forward WHCV-F10 TTGTCATCTCGCAAAGGCTCT 9958 - 9978 ORF1ab TTGTCATCTCGCAAAGGCTCT 13035-13055 42.86 60 68.48 57.11 51
CoV2ID400 PCR primer reverse WHCV-R10 GAGATTATAAGAGCCCACATGGAAA 11457 - 11481 ORF1ab TTTCCATGTGGGCTCTTATAATCTC 14631-14655 8 0 40.95 16.32 51
CoV2ID401 PCR primer forward WHCV-F11 GCTATGGGTATTATTGCTATGTCTGCT 11108 - 11134 ORF1ab GCTATGGGTATTATTGCTATGTCTGCT 14215-14240 11.54 20 44.69 25.41 51
CoV2ID402 PCR primer reverse WHCV-R11 TGGATTTCCCACAATGCTGAT 12541 - 12561 ORF1ab ATCAGCATTGTGGGAAATCCA 15761-15781 23.81 0 55.1 26.3 51
CoV2ID403 PCR primer forward WHCV-F12 CTGATCAAGCTATGACCCAAATGT 12279 - 12302 ORF1ab CTGATCAAGCTATGACCCAAATGT 15496-15519 41.67 80 70.24 63.97 51
CoV2ID404 PCR primer reverse WHCV-R12 GCAACAGCTGGACAATCCTTAAGT 13707 - 13730 ORF1ab ACTTAAGGATTGTCCAGCTGTTGC 16957-16980 25 0 60.71 28.57 51
CoV2ID405 PCR primer forward WHCV-F13 TCTGCGGTATGTGGAAAGGTTAT 13380 - 13402 ORF1ab TCTGCGGTATGTGGAAAGGTTAT 16607-16629 26.09 0 60.25 28.78 51
CoV2ID406 PCR primer reverse WHCV-R13 GTCAGCAGCATACACAAGTAATTCCT 14546 - 14571 ORF1ab AGGAATTACTTGTGTATGCTGCTGAC 17803-17828 38.46 40 61.54 46.67 51
CoV2ID407 PCR primer forward WHCV-F14 AGGGCTTTAACTGCAGAGTCACAT 14185 - 14208 ORF1ab AGGGCTTTAACTGCAGAGTCACAT 17439-17462 16.67 20 55.16 30.61 51
CoV2ID408 PCR primer reverse WHCV-R14 GCGGACATACTTATCGGCAATT 15582 - 15603 ORF1ab AATTGCCGATAAGTATGTCCGC 18851-18872 13.64 40 44.37 32.67 51
CoV2ID409 PCR primer forward WHCV-F15 TCAATAGCCGCCACTAGAGGAG 15172 - 15193 ORF1ab TCAATAGCCGCCACTAGAGGAG 18429-18450 31.82 20 62.55 38.12 51
CoV2ID410 PCR primer reverse WHCV-R15 TCACCAGCATTTGTCCAGTCAC 16571 - 16592 ORF1ab GTGACTGGACAAATGCTGGTGA 19840-19861 40.91 40 69.05 49.99 51
CoV2ID411 PCR primer forward WHCV-F16 TTGGGGCTTGTGTTCTTTGC 16241 - 16260 ORF1ab TTGGGGCTTGTGTTCTTTGC 19510-19529 45 60 69.52 58.17 51
CoV2ID412 PCR primer reverse WHCV-R16 CAAGCAGGGTTACGTGTAAGGAAT 17730 - 17753 ORF1ab ATTCCTTACACGTAACCCTGCTTG 21002-21025 33.33 40 56.55 43.29 51
CoV2ID413 PCR primer forward WHCV-F17 TGTCAATGCCAGATTACGTGCT 17394 - 17415 ORF1ab TGTCAATGCCAGATTACGTGCT 20666-20687 27.27 20 60.61 35.96 51
CoV2ID414 PCR primer reverse WHCV-R17 TAACAAAGCACTCGTGGACAGC 18880 - 18901 ORF1ab GCTGTCCACGAGTGCTTTGTTA 22159-22180 40.91 60 69.48 56.8 51
CoV2ID415 PCR primer forward WHCV-F18 TATGGGCACATGGCTTTGAGT 18593 - 18613 ORF1ab TATGGGCACATGGCTTTGAGT 21872-21892 38.1 40 65.99 48.03 51
CoV2ID416 PCR primer reverse WHCV-R18 TAAGAACACCATTACGGGCATTT 20025 - 20047 ORF1ab AAATGCCCGTAATGGTGTTCTTA 23316-23338 21.74 0 55.28 25.67 51
CoV2ID417 PCR primer forward WHCV-F19 TTGATGGACAACAGGGTGAAGTAC 19664 - 19687 ORF1ab TTGATGGACAACAGGGTGAAGTAC 22955-22978 41.67 40 66.47 49.38 51
CoV2ID418 PCR primer reverse WHCV-R19 CGAAGTGTCCCATGAGCTTATAAA 21197 - 21220 ORF1ab TTTATAAGCTCATGGGACACTTCG 24623-24646 37.5 80 64.88 60.79 51
CoV2ID419 PCR primer forward WHCV-F20 AGGAGTTGCACCAGGTACAGCT 20886 - 20907 ORF1ab AGGAGTTGCACCAGGTACAGCT 24312-24333 45.45 40 74.03 53.16 51
CoV2ID420 PCR primer reverse WHCV-R20 ACCCACATAATAAGCTGCAGCAC 22344 - 22366 S GTGCTGCAGCTTATTATGTGGGT 27827-27841 13.33 40 50.16 34.5 51
CoV2ID421 PCR primer forward WHCV-F21 CTATTAATTTAGTGCGTGATCTCCCTC 22188 - 22214 S CTATTAATTTAGTGCGTGATCTCCCTC 27311-27328 5.56 0 44.71 16.76 51
CoV2ID422 PCR primer reverse WHCV-R21 AAATTTGTGGGTATGGCAATAGAGTTA 23689 - 23715 S TAACTCTATTGCCATACCCACAAATTT 29922-29941 40 20 62.86 40.95 51
CoV2ID423 PCR primer forward WHCV-F22 ACTTACTCCTACTTGGCGTGTTTATTC 23446 - 23472 S ACTTACTCCTACTTGGCGTGTTTATTC 29538-29561 4.17 20 42.46 22.21 51
CoV2ID424 PCR primer reverse WHCV-R22 GCATTAATGCCAGAGATGTCACC 25061 - 25083 S GGTGACATCTCTGGCATTAATGC 31455-31475 19.05 40 50.11 36.39 51
CoV2ID425 PCR primer forward WHCV-F23 CTATCATCTTATGTCCTTCCCTCAGTC 24700 - 24726 S CTATCATCTTATGTCCTTCCCTCAGTC 31016-31042 25.93 0 58.02 27.98 51
CoV2ID426 PCR primer reverse WHCV-R23 TAGTCGTCGTCGGTTCATCATAAAT 26179 - 26203 ORF3a ATTTATGATGAACCGACGACGACTA 33787-33811 4 0 41.52 15.17 51
CoV2ID427 PCR primer forward WHCV-F24 TACTTCAGGTGATGGCACAACAA 25899 - 25921 ORF3a TACTTCAGGTGATGGCACAACAA 33422-33444 4.35 0 36.65 13.67 51
CoV2ID428 PCR primer reverse WHCV-R24 AAGCTCACAAGTAGCGAGTGTTATCA 27419 - 27444 ORF7a TGATAACACTCGCTACTTGTGAGCTT 35158-35183 0 0 49.45 16.48 51
CoV2ID429 PCR primer forward WHCV-F25 CGTGTAGCAGGTGACTCAGGTTT 27078 - 27100 M CGTGTAGCAGGTGACTCAGGTTT 34798-34820 8.7 40 45.96 31.55 51
CoV2ID430 PCR primer reverse WHCV-R25 TACCGTCACCACCACGAATTC 28551 - 28571 N GAATTCGTGGTGGTGACGGTA 36309-36329 0 0 52.38 17.46 51
CoV2ID431 PCR primer forward WHCV-F26 GGACCCCAAAATCAGCGAAAT 28286 - 28306 N GGACCCCAAAATCAGCGAAAT 36044-36064 0 0 52.38 17.46 51
CoV2ID432 PCR primer reverse WHCV-R26 AAAATCACATGGGGATAGCACTACT 29824 - 29848 - AGTAGTGCTATCCCCATGTGATTTT 37918-37942 8 20 53.52 27.17 51
CoV2ID433 PCR primer forward S1423F GCCGGTAGCACACCTTGTAA 22985 - 23004 S GCCGGTAGCACACCTTGTAA 28856-28873 0 0 34.13 11.38 51
CoV2ID434 PCR primer reverse S1736R2 GGATCACGGACAGCATCAGT 23279 - 23298 S ACTGATGCTGTCCGTGATCC 29371-29390 0 0 42.62 14.21 51
CoV2ID435 PCR primer forward S2620F ACTTCTGCACTGTTAGCGGG 24182 - 24201 S ACTTCTGCACTGTTAGCGGG 30450-30469 15 0 48.81 21.27 51
CoV2ID436 PCR primer reverse S3174R2 ATGAGGTGCTGACTGAGGGA 24717 - 24736 S TCCCTCAGTCAGCACCTCAT 31033-31052 30 20 59.29 36.43 51
CoV2ID437 PCR primer reverse S3240R1 GGCAGGAGCAGTTGTGAAGT 24783 - 24802 S ACTTCACAACTGCTCCTGCC 31099-31118 5 0 45.71 16.9 51
CoV2ID438 RACE primer 5-GSP CCACATGAGGGACAAGGACACCAAGTG 573 - 599 ORF1ab CACTTGGTGTCCTTGTCCCTCATGTGG 1012-1038 0 0 40.39 13.46 51
CoV2ID439 RACE primer 5-GSPn CATGACCATGAGGTGCAGTTCGAGC 491 - 515 ORF1ab GCTCGAACTGCACCTCATGGTCATG 929-953 8 20 44.38 24.13 51
CoV2ID440 RACE primer 3-GSP TGTCGCGCATTGGCATGGAAGTCACACC 29223 - 29250 N TGTCGCGCATTGGCATGGAAGTCACACC 37091-37118 3.57 0 37.24 13.6 51
CoV2ID441 RACE primer 3-GSPn CTCAAGCCTTACCGCAGAGACAGAAG 29409 - 29434 N CTCAAGCCTTACCGCAGAGACAGAAG 37339-37364 3.85 20 37.91 20.59 51
CoV2ID442 Target Generation primer nsp10-Std-T7-F TAATACGACTCACTATAGGGGTGGGGGACAACCAATCACT 13122 - 13141 ORF1ab GTGGGGGACAACCAATCACT 16349-16368 30 20 55.95 35.32 52
CoV2ID443 Target Generation primer nsp10-Std-R AGACGAGGTCTGCCATTGTG 13806 - 13825 ORF1ab CACAATGGCAGACCTCGTCT 17060-17079 45 20 68.57 44.52 52
CoV2ID444 Target Generation primer RdRp-Std-T7-F TAATACGACTCACTATAGGGAATAGAGCTCGCACCGTAGC 15093 - 15113 ORF1ab GAATAGAGCTCGCACCGTAGC 18350-18370 47.62 60 74.38 60.67 52
CoV2ID445 Target Generation primer RdRp-Std-R CATCTACAAAACAGCCGGCC 15957 - 15976 ORF1ab GGCCGGCTGTTTTGTAGATG 19226-19245 65 80 80.48 75.16 52
CoV2ID446 Target Generation primer nsp14-Std-T7-F TAATACGACTCACTATAGGGTAGTGCTAAACCACCGCCTG 18447 - 18466 ORF1ab TAGTGCTAAACCACCGCCTG 21726-21745 45 60 66.67 57.22 52
CoV2ID447 Target Generation primer nsp14-Std-R AACTGCCACCATCACAACCA 19275 - 19294 ORF1ab TGGTTGTGATGGTGGCAGTT 22557-22576 40 0 72.86 37.62 52
CoV2ID448 Target Generation primer E-Std-T7-F TAATACGACTCACTATAGGGGCGTGCCTTTGTAAGCACAA 26207 - 26226 E GCGTGCCTTTGTAAGCACAA 33841-33857 0 0 36.69 12.23 52
CoV2ID449 Target Generation primer E-Std-R GGCAGGTCCTTGATGTCACA 26997 - 27016 E TGTGACATCAAGGACCTGCC 34717-34732 18.75 60 47.62 42.12 52
CoV2ID450 Target Generation primer N-Std-T7-F TAATACGACTCACTATAGGGGAATTGTGCGTGGATGAGGC 28068 - 28087 N GAATTGTGCGTGGATGAGGC 35826-35845 10 20 46.19 25.4 52
CoV2ID451 Target Generation primer N-Std-R TGTCTCTGCGGTAAGGCTTG 29411 - 29430 N CAAGCCTTACCGCAGAGACA 37341-37360 0 0 31.43 10.48 52
CoV2ID452 LAMP outer forward primer Rohaim_ORF1ab_F3 CCGCCACTAGAGGAGCTACT 15179 - 15198 ORF1ab CCGCCACTAGAGGAGCTACT 18436-18455 30 40 61.9 43.97 53
CoV2ID453 LAMP outer backward primer Rohaim_ORF1ab_B3 TGTTGTAGCTTGTCACAC 15373 - 15390 ORF1ab TGTTGTAGCTTGTCACAC 18630-18647 38.89 100 59.52 66.14 53
CoV2ID454 LAMP forward inner primer Rohaim_ORF1ab_FIP ATTGGAACAAGCAAATTCTATTATAGTGATGTAGAAAACCCTCACC 15255 - 15280 ORF1ab TTATAGTGATGTAGAAAACCCTCACC 18512-18537 34.62 0 62.45 32.36 53
CoV2ID455 LAMP backward inner primer Rohaim_ORF1ab_BIP TATGGGTTGGGATTATCCTAAATGTGCCTCACTTGTTCTTGCTC 15340 - 15358 ORF1ab GCCTCACTTGTTCTTGCTC 18539-18564 73.08 80 90.29 81.12 53
CoV2ID456 LAMP loop forward primer Rohaim_ORF1ab_LF GGTTGGCACAACATGTTAAAAAC 15229 - 15251 ORF1ab GGTTGGCACAACATGTTAAAAAC 18486-18508 43.48 0 68.94 37.47 53
CoV2ID457 LAMP loop backward primer Rohaim_ORF1ab_LB AGCCATGCCTAACATGCTTAG 15312 - 15332 ORF1ab AGCCATGCCTAACATGCTTAG 18569-18589 42.86 40 71.66 51.51 53
CoV2ID458 PCR primer forward Rohaim_RdRP_F GTGAAATGGTCATGTGTGGCGG 15431 - 15452 ORF1ab GTGAAATGGTCATGTGTGGCGG 18688-18709 31.82 40 65.37 45.73 53
CoV2ID459 PCR primer reverse Rohaim_RdRP_R TATGCTAATAGTGTTTTTAACATTTG 15505 - 15530 ORF1ab TATGCTAATAGTGTTTTTAACATTTG 18762-18787 57.69 60 80.22 65.97 53
CoV2ID460 RPA forward primer S-RPA-Forward_v1 GAAATTAATACGACTCACTATAGGGAGGTTTCAAACTTTACTTGCTT TACATAGA 22271 - 22300 S AGGTTTCAAACTTTACTTGCTTTACATAGA 27466-27487 13.64 20 53.46 29.03 54
CoV2ID461 RPA forward primer Orf1ab-RPA-Forward_v1 GAAATTAATACGACTCACTATAGGGCGAAGTTGTAGGAGACATTAT ACTTAAACC 6472 - 6501 ORF1ab CGAAGTTGTAGGAGACATTATACTTAAACC 9035-9064 10 0 40 16.67 54
CoV2ID462 sgRNA nCoV-RdRp-sgRNA R ATGTGTGGCGGTTCACTATATGTatctacacttagtagaaatta 15442 - 15464 RdRp ATGTGTGGCGGTTCACTATATGT 18699-18721 26.09 60 62.11 49.4 55
CoV2ID463 sgRNA nCoV-ORF1b-sgRNA R TGGTTGCTTTGTAGGTTACCTGTatctacacttagtagaaatta 18787 - 18809 ORF1b ACAGGTAACCTACAAAGCAACCA 22065-22088 33.33 80 59.92 57.75 55
CoV2ID464 sgRNA nCOV-ORF1ab-sgRNA R GTCTGTACCGTCTGCGGTATGTGatctacacttagtagaaatta 13370 - 13392 ORF1ab GTCTGTACCGTCTGCGGTATGTG 16597-16619 39.13 40 69.98 49.7 55
CoV2ID465 PCR primer forward SARS-CoV-2_IBS_RdRP1_F CATGTGTGGCGGTTCACTAT 15441 - 15460 RdRp CATGTGTGGCGGTTCACTAT 18698-18717 20 20 57.86 32.62 56
CoV2ID466 PCR primer reverse SARS-CoV-2_IBS_RdRP1_R TGCATTAACATTGGCCGTGA 15539 - 15558 RdRp TCACGGCCAATGTTAATGCA 18796-18815 20 0 57.62 25.87 56
CoV2ID467 PCR primer forward SARS-CoV-2_IBS_S1_F CTACATGCACCAGCAACTGT 23114 - 23133 S CTACATGCACCAGCAACTGT 29121-29136 0 0 49.11 16.37 56
CoV2ID468 PCR primer reverse SARS-CoV-2_IBS_S1_R CACCTGTGCCTGTTAAACCA 23194 - 23213 S TGGTTTAACAGGCACAGGTG 29271-29290 35 60 61.43 52.14 56
CoV2ID469 PCR primer forward SARS-CoV-2_IBS_E1_F TTCGGAAGAGACAGGTACGTT 26259 - 26279 E TTCGGAAGAGACAGGTACGTT 33921-33941 0 0 27.66 9.22 56
CoV2ID470 PCR primer reverse SARS-CoV-2_IBS_E1_R CACACAATCGATGCGCAGTA 26349 - 26365 E TGCGCTTCGATTGTGTG 34008-34027 25 0 57.14 27.38 56
CoV2ID471 PCR primer forward SARS-CoV-2_IBS_N1_F CAATGCTGCAATCGTGCTAC 28732 - 28751 N CAATGCTGCAATCGTGCTAC 36490-36509 0 0 44.76 14.92 56
CoV2ID472 PCR primer reverse SARS-CoV-2_IBS_N1_R GTTGCGACTACGTGATGAGG 28830 - 28849 N CCTCATCACGTAGTCGCAAC 36617-36628 16.67 20 52.38 29.68 56
CoV2ID473 PCR primer forward SARS-CoV-2_IBS_RdRP2_F AGAATAGAGCTCGCACCGTA 15092 - 15111 RdRp AGAATAGAGCTCGCACCGTA 18349-18368 50 60 75.48 61.83 56
CoV2ID474 PCR primer reverse SARS-CoV-2_IBS_RdRP2_R CTCCTCTAGTGGCGGCTATT 15174 -15193 RdRp AATAGCCGCCACTAGAGGAG 18431-18450 35 60 63.57 52.86 56
CoV2ID475 PCR primer forward SARS-CoV-2_IBS_RdRP3_F TCTGTGATGCCATGCGAAAT 14015 - 14034 RdRp TCTGTGATGCCATGCGAAAT 17269-17288 20 0 52.86 24.29 56
CoV2ID476 PCR primer reverse SARS-CoV-2_IBS_RdRP3_R ACTACCTGGCGTGGTTTGTA 14108 - 14127 RdRp TACAAACCACGCCAGGTAGT 17362-17381 15 20 48.33 27.78 56
CoV2ID477 PCR primer forward SARS-CoV-2_IBS_S2_F GCTGGTGCTGCAGCTTATTA 22340 - 22359 S GCTGGTGCTGCAGCTTATTA 27669-27678 10 0 46.67 18.89 56
CoV2ID478 PCR primer reverse SARS-CoV-2_IBS_S2_R AGGGTCAAGTGCACAGTCTA 22428 - 22447 S TAGACTGTGCACTTGACCCT 28062-28075 7.14 0 53.06 20.07 56
CoV2ID479 PCR primer forward SARS-CoV-2_IBS_E2_F TTCGGAAGAGACAGGTACGTTA 26259 - 26280 E TTCGGAAGAGACAGGTACGTTA 33921-33942 0 0 26.84 8.95 56
CoV2ID480 PCR primer reverse SARS-CoV-2_IBS_E2_R AGCAGTACGCACACAATCG 26356 - 26374 E CGATTGTGTGCGTACTGCT 34018-34036 21.05 20 53.38 31.48 56
CoV2ID481 PCR primer forward SARS-CoV-2_IBS_N2_F GCTGCAATCGTGCTACAACT 28736 - 28755 N GCTGCAATCGTGCTACAACT 36494-36513 0 0 42.86 14.29 56
CoV2ID482 PCR primer reverse SARS-CoV-2_IBS_N2_R TGAACTGTTGCGACTACGTG 28836 - 28855 N CACGTAGTCGCAACAGTTCA 36617-36634 22.22 20 56.61 32.94 56
CoV2ID483 PCR primer forward Yip_RdRp_OTter_F AGGTATTGGGAACCTGAGTTTTATGAGGCTATGTACACAC 16180 - 16219 RdRp AGGTATTGGGAACCTGAGTTTTATGAGGCTATGTACACAC 19449-19488 25 0 60 28.33 57
CoV2ID484 PCR primer reverse Yip_RdRp_OTter_R ACCTGGAGCATTGCAAACATACGGATTAACAGACAAGAC 16360 - 16398 RdRp GTCTTGTCTGTTAATCCGTATGTTTGCAATGCTCCAGGT 19629-19667 43.59 60 71.92 58.5 57
CoV2ID485 PCR primer forward Yip_RdRp_Inner_F CGCATACAGTCTTRCAGGCT 16220 - 16239 RdRp CGCATACAGTCTTACAGGCT 19489-19508 30 40 60.48 43.49 57
CoV2ID486 PCR primer reverse Yip_RdRp_Inner_R GTGTGATGTTGAWATGACATGGTC 16330 - 16352 RdRp GACCATGTCATATCAACATCACA 19599-19621 52.17 80 69.36 67.18 57
CoV2ID487 PCR Probe Yip_RdRp_probe TTAAGATGTGGTGCTTGCATACGTAGAC 16276 - 16303 RdRp TTAAGATGTGGTGCTTGCATACGTAGAC 19545-19572 42.86 40 69.05 50.64 57
CoV2ID488 PCR primer forward Yip_RdRp_OTter_F AATTGCACAATTTGCCCCCAGCGCTTCA 29182 - 29209 N AATTGCACAATTTGCCCCCAGCGCTTCA 37050-37077 28.57 0 58.33 28.97 57
CoV2ID489 PCR primer reverse Yip_RdRp_OTter_R TGCGTCAATATGCTTATTCAGCAAAATGACTTGATCTTTGA 29310 - 29350 N TCAAAGATCAAGTCATTTTGCTGAATAAGCATATTGACGCA 37231-37271 9.76 0 51.57 20.44 57
CoV2ID490 PCR primer forward Yip_RdRp_Inner_F GCGTTCTTCGGAATGTCG 29210 - 29227 N GCGTTCTTCGGAATGTCG 37078-37095 22.22 0 55.29 25.84 57
CoV2ID491 PCR primer reverse Yip_RdRp_Inner_R TTGGATCTTTGTCATCCAATTTG 29284 - 29306 N CAAATTGGATGACAAAGATCCAA 37215-37227 30.77 40 53.85 41.54 57
CoV2ID492 PCR Probe Yip_RdRp_probe AACGTGGTTGACCTACACAGST 29257 - 29278 N AACGTGGTTGACCTACACAGGT 37153-37172 10 20 49.76 26.59 57