Order Score NCBI EMBL Seed/Full Blast Description
--------------------------------------------------------------------------------
1) 2694 NC_007025 DQ010921 none Yes Feline coronavirus
2) 2694 xxxxxxxx AY994055 none Yes Feline infectious peritonitis virus, complete genome.
3) 1760 NC_006577 AY597011 none No Human coronavirus HKU1
4) 1568 xxxxxxxx AY851295 none No Avian infectious bronchitis virus strain Mass 41, complete genome.
5) 1565 xxxxxxxx AY910861 none No Synthetic construct murine hepatitis virus, complete genome
6) 1564 xxxxxxxx DQ001339 none No Avian infectious bronchitis virus isolate IBV-p65, complete genome.
7) 1564 xxxxxxxx DQ001338 none No Avian infectious bronchitis virus isolate IBV-EP3, complete genome.
8) 1562 xxxxxxxx AY700211 none No Murine hepatitis virus strain A59
9) 1543 NC_006852 xxxxxxxx none No Murine hepatitis virus strain JHM
10) 1515 xxxxxxxx AY686863 none No SARS coronavirus A022, complete genome.
11) 1515 xxxxxxxx AY686864 none No SARS coronavirus B039, complete genome.

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No. 1
GENOME: Feline coronavirus, strand+
NCBI: NC_007025
EMBL: DQ010921
Score: 2694

......AAAAAAAAAAA..BBBBB.aaaaaaaaaaa........................
Query: 0 GAGUGCGGGGUUCUAGUGCAGCUCGACUAGAACCCUGCAAUGGUACUGAUCCAGACCAUG 59
||||||***********||*****|***********| ||||||||||||||||||||||
Sbjct: 12179 GAGUGCGGGGUUCUAGUGCAGCUCGACUAGAACCCUGUAAUGGUACUGAUCCAGACCAUG 12238
......AAAAAAAAAAA..BBBBB.aaaaaaaaaaa........................


......bbbbb........
Query: 60 UUAGUAGAGCUUUUGACAU 78
||||||*****||||||||
Sbjct: 12239 UUAGUAGAGCUUUUGACAU 12257
......bbbbb........


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No. 2
GENOME: Feline infectious peritonitis virus, complete genome.
NCBI: xxxxxxxx
EMBL: AY994055
Score: 2694

......AAAAAAAAAAA..BBBBB.aaaaaaaaaaa........................
Query: 0 GAGUGCGGGGUUCUAGUGCAGCUCGACUAGAACCCUGCAAUGGUACUGAUCCAGACCAUG 59
||||||***********||*****|***********| ||||||||||||||||||||||
Sbjct: 12409 GAGUGCGGGGUUCUAGUGCAGCUCGACUAGAACCCUGUAAUGGUACUGAUCCAGACCAUG 12468
......AAAAAAAAAAA..BBBBB.aaaaaaaaaaa........................


......bbbbb........
Query: 60 UUAGUAGAGCUUUUGACAU 78
||||||*****||||||||
Sbjct: 12469 UUAGUAGAGCUUUUGACAU 12487
......bbbbb........


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No. 3
GENOME: Human coronavirus HKU1
NCBI: NC_006577
EMBL: AY597011
Score: 1760

......AAAAAAAAAAA.. BBBBB.aaaaaaaaaaa. ... ..............
Query: 0 GAGUGCGGGGUUCUAGUGC---AGCUCGACUAGAACCCUG--CAA-UGGUACUGAUCCAG 53
| || |*****+*****| +**+*|+****+*****| | | |||| | |||
Sbjct: 13600 GGGUUCGGGGUACUAGUGUGAAUGCCCGGCUAGUACCCUGUGCUAGUGGU-UU-AUCU-- 13655
......AAAAAAAAAAA.....BBBBB.aaaaaaaaaaa.....................


... ..... ... . bbbbb........
Query: 54 ACC-AUGUU-AGU-A-GAGCUUUUGACAU 78
|| ||||| | | | *+**+||||||||
Sbjct: 13656 ACUGAUGUUCAAUUAAGGGCAUUUGACAU 13684
................bbbbb........


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No. 4
GENOME: Avian infectious bronchitis virus strain Mass 41, complete genome.
NCBI: xxxxxxxx
EMBL: AY851295
Score: 1568

......AAAAAAAAAAA..BBBBB.aaaaaaaaaaa .. ........ ..........
Query: 0 GAGUGCGGGGUUCUAGUGCAGCUCGACUAGAACCCU--GC-AAUGGUAC-UGAUCCAGAC 55
| || |*****+++***| +****|+**+++****+ || ||||| | ||| || ||
Sbjct: 12360 GGGUACGGGGUAGCAGUGAGGCUCGGCUGAUACCCCUAGCUAAUGG-AUGUGACCCCGA- 12417
......AAAAAAAAAAA..BBBBB.aaaaaaaaaaa........................


.......... bbbbb........
Query: 56 CAUGUUAGUA----GAGCUUUUGACAU 78
|||| ||| ****+||||| |
Sbjct: 12418 --UGUU-GUAAAGCGAGCCUUUGAUGU 12441
..............bbbbb........


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No. 5
GENOME: Synthetic construct murine hepatitis virus, complete genome
NCBI: xxxxxxxx
EMBL: AY910861
Score: 1565

......AAAAAAAAAAA.. BBBBB.aaaaaaaaaaa. . ................
Query: 0 GAGUGCGGGGUUCUAGUGC---AGCUCGACUAGAACCCUG--C-AAUGGUACUGAUCCAG 53
| || |*****+*+***| +**+*|+**+*+*****| | | ||| || | |
Sbjct: 13601 GGGUUCGGGGUACAAGUGUAAAUGCCCGUCUUGUACCCUGUGCCAGUGGCUUGGACACUG 13660
......AAAAAAAAAAA.....BBBBB.aaaaaaaaaaa.....................


........ ... . bbbbb........
Query: 54 ACCAUGUU-AGU-A-GAGCUUUUGACAU 78
| |||| | | | *+**+||||||||
Sbjct: 13661 A---UGUUCAAUUAAGGGCAUUUGACAU 13685
...............bbbbb........


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No. 6
GENOME: Avian infectious bronchitis virus isolate IBV-p65, complete genome.
NCBI: xxxxxxxx
EMBL: DQ001339
Score: 1564

......AAAAAAAAAAA..BBBBB.aaaaaaaaaaa .... ...... ..........
Query: 0 GAGUGCGGGGUUCUAGUGCAGCUCGACUAGAACCCU--GCAA-UGGUAC-UGAUCCAGAC 55
| || |*****+++***| +****|+**+++****+ || | ||| | |||||| ||
Sbjct: 12351 GGGUACGGGGUAGCAGUGAGGCUCGGCUGAUACCCCUUGCUAGUGG-AUGUGAUCCUGA- 12408
......AAAAAAAAAAA..BBBBB.aaaaaaaaaaa........................


.......... bbbbb........
Query: 56 CAUGUUAGUA----GAGCUUUUGACAU 78
|||| ||| ****+||||| |
Sbjct: 12409 --UGUU-GUAAAGCGAGCCUUUGAUGU 12432
..............bbbbb........


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No. 7
GENOME: Avian infectious bronchitis virus isolate IBV-EP3, complete genome.
NCBI: xxxxxxxx
EMBL: DQ001338
Score: 1564

......AAAAAAAAAAA..BBBBB.aaaaaaaaaaa .... ...... ..........
Query: 0 GAGUGCGGGGUUCUAGUGCAGCUCGACUAGAACCCU--GCAA-UGGUAC-UGAUCCAGAC 55
| || |*****+++***| +****|+**+++****+ || | ||| | |||||| ||
Sbjct: 12354 GGGUACGGGGUAGCAGUGAGGCUCGGCUGAUACCCCUUGCUAGUGG-AUGUGAUCCUGA- 12411
......AAAAAAAAAAA..BBBBB.aaaaaaaaaaa........................


.......... bbbbb........
Query: 56 CAUGUUAGUA----GAGCUUUUGACAU 78
|||| ||| ****+||||| |
Sbjct: 12412 --UGUU-GUAAAGCGAGCCUUUGAUGU 12435
..............bbbbb........


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No. 8
GENOME: Murine hepatitis virus strain A59
NCBI: xxxxxxxx
EMBL: AY700211
Score: 1562


......AAAAAAAAAAA.. BBBBB.aaaaaaaaaaa. . ................
Query: 0 GAGUGCGGGGUUCUAGUGC---AGCUCGACUAGAACCCUG--C-AAUGGUACUGAUCCAG 53
|| | |*****+*+***| +**+*|+**+*+*****| | | ||| || | |
Sbjct: 13603 GAUU-CGGGGUACAAGUGUAAAUGCCCGUCUUGUACCCUGUGCCAGUGGCUUGGACACUG 13661
......AAAAAAAAAAA.....BBBBB.aaaaaaaaaaa.....................


........ ... . bbbbb........
Query: 54 ACCAUGUU-AGU-A-GAGCUUUUGACAU 78
| |||| | | | *+**+||||||||
Sbjct: 13662 A---UGUUCAAUUAAGGGCAUUUGACAU 13686
...............bbbbb........


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No. 9
GENOME: Murine hepatitis virus strain JHM
NCBI: NC_006852
EMBL: xxxxxxxx
Score: 1543

......AAAAAAAAAAA.. BBBBB.aaaaaaaaaaa. . ................
Query: 0 GAGUGCGGGGUUCUAGUGC---AGCUCGACUAGAACCCUG--C-AAUGGUACUGAUCCAG 53
| || |*****+*+***| +**+*|+**+*+*****| | | ||| || | |
Sbjct: 13618 GGGUUCGGGGUACAAGUGUAAAUGCCCGUCUUGUACCCUGUGCCAGUGGCUUGGACACUG 13677
......AAAAAAAAAAA.....BBBBB.aaaaaaaaaaa.....................


........ ... . bbbbb........
Query: 54 ACCAUGUU-AGU-A-GAGCUUUUGACAU 78
| |||| | | | *+**+||||| ||
Sbjct: 13678 A---UGUUCAAUUAAGGGCAUUUGAUAU 13702
...............bbbbb........


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No. 10
GENOME: SARS coronavirus A022, complete genome.
NCBI: xxxxxxxx

EMBL: AY686863
Score: 1515

......AAAAAAAAAAA..BBBBB.aaaaaaaaaaa. ....................
Query: 0 GAGUGCGGGGUUCUAGUGCAGCUCGACUAGAACCCUG---CAAUGGUACUGAUCCAGACC 56
| || *+***+++***||***+*|+**+++***+*| || || ||| | | ||
Sbjct: 13347 GGGUUUGCGGUGUAAGUGCAGCCCGUCUUACACCGUGCGGCACAGGCACUAGUACUGAUG 13406
......AAAAAAAAAAA..BBBBB.aaaaaaaaaaa........................


.... .....bbbbb........
Query: 57 AUGU-UAGUAGAGCUUUUGACAU 78
|| || |*+***||||| ||
Sbjct: 13407 UCGUCUA-CAGGGCUUUUGAUAU 13428
..........bbbbb........


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No. 11
GENOME: SARS coronavirus B039, complete genome.
NCBI: xxxxxxxx
EMBL: AY686864
Score: 1515

......AAAAAAAAAAA..BBBBB.aaaaaaaaaaa. ....................
Query: 0 GAGUGCGGGGUUCUAGUGCAGCUCGACUAGAACCCUG---CAAUGGUACUGAUCCAGACC 56
| || *+***+++***||***+*|+**+++***+*| || || ||| | | ||
Sbjct: 13357 GGGUUUGCGGUGUAAGUGCAGCCCGUCUUACACCGUGCGGCACAGGCACUAGUACUGAUG 13416
......AAAAAAAAAAA..BBBBB.aaaaaaaaaaa........................


.... .....bbbbb........
Query: 57 AUGU-UAGUAGAGCUUUUGACAU 78
|| || |*+***||||| ||
Sbjct: 13417 UCGUCUA-CAGGGCUUUUGAUAU 13438
..........bbbbb........


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