Alignment viewer

BLASTN 2.6.0+ Reference: Stephen F. Altschul, Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Database: Oryza_20rufipogon_20[genbank_20GCA_5F000817225.1_202015-01-05] 3,818 sequences; 339,177,042 total letters Query= NC_003663.2 Length=224499 Score E Sequences producing significant alignments: (Bits) Value seq6 104 3e-17 seq2 91.5 2e-13 >seq6 Length=27870862 Score = 104 bits (114), Expect = 3e-17 Identities = 118/156 (76%), Gaps = 2/156 (1%) Strand=Plus/Minus Query 49960 CATGCGAAATCGCAGTGCAGACCCTCGTCTCTACTAATTAGTTCGTTGGAAAACGTGAGT 50019 || ||||| |||||||| ||||||||||| | || || |||||||| || ||||| Sbjct 1267410 CAGGCGAAGTCGCAGTGGAGACCCTCGTCGCGGGAGATGAGCTCGTTGGAGAAGGTGAGG 1267351 Query 50020 CCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATGGACGCA-AATGACCCAGAAAAGAA 50078 || ||||| || || ||||| || ||||| || |||| |||| ||||| || || ||||| Sbjct 1267350 CCCGGCATGAGTCCGCGCTTCTTGAGCCAGAAGATGG-CGCAGAATGAACCCGAGAAGAA 1267292 Query 50079 GATTCCTTCTACTGCGGCAAAGGCAACAAGTCTCTC 50114 ||| || || || ||| ||||| || || | ||| Sbjct 1267291 GATCCCCTCGACGCAGGCGAAGGCGACGAGCCGCTC 1267256 Score = 104 bits (114), Expect = 3e-17 Identities = 156/222 (70%), Gaps = 0/222 (0%) Strand=Plus/Plus Query 80094 TCCTCCCTGATCTATGTATCTAGCGGTGTTATTATAAACTCTCAACATTGGAATAATACC 80153 ||| || ||||| | || | || || | ||| |||| | | ||| |||| ||| || Sbjct 3151208 TCCACCTTGATCAACATAACGGGCAGTATCATTGAAAACACGTAGCATAGGAACAATCCC 3151267 Query 80154 ATTGGATGTACCATTGGTCCCGGAGATATAGCTTCCACTGGCACGAATATTACTAATTGA 80213 |||||| || ||||| || || ||||||||| ||| | || |||||||| || ||| Sbjct 3151268 ATTGGAGGTTCCATTTGTTCCACGGATATAGCTCCCAGTAGCTCGAATATTGTGAACTGA 3151327 Query 80214 TAGACCTATTCCCCCTGCCATTTTAGAGATTAATGCGCATCGTTTTAACGTATCATAGAT 80273 || ||| ||||| || || ||| || | || ||| || || ||||||||||| Sbjct 3151328 TACACCAATTCCTCCAGCAGATTTGCTTATGACAGCACATTCCTTCAAAGTATCATAGAT 3151387 Query 80274 GCCCTCTATGCTATCATCAATCATGTTAAGTAGAAAACAGCT 80315 ||||| ||||| ||||| ||||| | || |||||||| Sbjct 3151388 TCCCTCAATGCTGTCATCTTTCATGCAGATAAGGAAACAGCT 3151429 Score = 98.7 bits (108), Expect = 1e-15 Identities = 117/156 (75%), Gaps = 2/156 (1%) Strand=Plus/Plus Query 49960 CATGCGAAATCGCAGTGCAGACCCTCGTCTCTACTAATTAGTTCGTTGGAAAACGTGAGT 50019 || ||||| ||||||||||| |||||||| | || || |||||||| || ||||| Sbjct 7610618 CAGGCGAAGTCGCAGTGCAGGCCCTCGTCGCGGGAGATGAGCTCGTTGGAGAAGGTGAGG 7610677 Query 50020 CCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATGGACGCA-AATGACCCAGAAAAGAA 50078 || ||||| || || ||||| || ||||| || |||| |||| || || || || ||||| Sbjct 7610678 CCCGGCATGAGCCCCCGCTTCTTGAGCCAGAAGATGG-CGCAGAAGGAGCCCGAGAAGAA 7610736 Query 50079 GATTCCTTCTACTGCGGCAAAGGCAACAAGTCTCTC 50114 ||| || || || ||| ||||| || || | ||| Sbjct 7610737 GATCCCCTCGACGCAGGCGAAGGCGACGAGGCGCTC 7610772 Score = 91.5 bits (100), Expect = 2e-13 Identities = 141/199 (71%), Gaps = 2/199 (1%) Strand=Plus/Plus Query 80334 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGACAGTAGATT 80393 ||| || ||||| || | ||| || ||||| || |||||||| | ||||| |||| Sbjct 3151527 AGTGCCAGCATTGAAAAGGGTCGGTGAAGCATGAGTAAACCAGCGCTGAGACATCAGATG 3151586 Query 80394 GTACGTCTCAATAGCTGATTCTATATCC-CATTGATGAATTCCTACCGCGACACGCATTA 80452 ||| |||| ||||| || || || || | ||| || || || || | || | ||||| Sbjct 3151587 GTAGGTCTTGATAGCAGACTCAATGTCATCCTTG-TGTATACCCACTGAAACTCTCATTA 3151645 Query 80453 ACATGTGCTGAGGTCTTTCAACGATCTTGTTATTTATTTTCAACAAGTAAGATTTTTCCA 80512 ||||||| || || |||||||| | ||| | ||||| | |||||| | |||| Sbjct 3151646 ACATGTGTTGCGGCCTTTCAACAACCTTCCCGCCAAGTTTCAGGAGGTAAGACCTCTCCA 3151705 Query 80513 AAGTTTTAAAACCAAAATA 80531 ||| || ||||||||||| Sbjct 3151706 GAGTCTTGAAACCAAAATA 3151724 >seq2 Length=33962743 Score = 91.5 bits (100), Expect = 2e-13 Identities = 159/229 (69%), Gaps = 2/229 (1%) Strand=Plus/Minus Query 80334 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGACAGTAGATT 80393 ||| || ||||| || | ||| || ||||| || |||||||| | ||||| | | Sbjct 32457524 AGTGCCAGCATTGAAAAGGGTTGGCGAAGCATGAGTAAACCAGCGCTGAGACATCATGTG 32457465 Query 80394 GTACGTCTCAATAGCTGATTCTATATCC-CATTGATGAATTCCTACCGCGACACGCATTA 80452 |||||| | ||||| ||||| ||||| | ||| || || || | | || | ||||| Sbjct 32457464 GTACGTTTTGATAGCAGATTCAATATCATCCTTG-TGTATCCCAATAGAAACTCTCATTA 32457406 Query 80453 ACATGTGCTGAGGTCTTTCAACGATCTTGTTATTTATTTTCAACAAGTAAGATTTTTCCA 80512 ||| ||||| |||||||| || | ||| | | ||| |||| |||||| | || | Sbjct 32457405 GCATATGCTGTGGTCTTTCCACAACCTTCCCAACAACTTTTAACAGATAAGATCTCTCAA 32457346 Query 80513 AAGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 80561 || ||||||||||| |||| || ||| |||| || ||||| || Sbjct 32457345 GGGTCTTAAAACCAAAGTAGTCATAGTCAAAATCTCTGTCATAAATTAT 32457297 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 718234520621520