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_020104.1 Length=1021348 Score E Sequences producing significant alignments: (Bits) Value seq3 131 1e-24 seq4 104 2e-16 seq12 100 2e-15 seq2 96.9 2e-14 seq5 95.1 8e-14 seq11 89.7 3e-12 >seq3 Length=34446443 Score = 131 bits (144), Expect = 1e-24 Identities = 114/142 (80%), Gaps = 0/142 (0%) Strand=Plus/Plus Query 474735 ATGCAGTAATTACTGTTCCAGCATATTTTAATGATTCTCAACGTCAAGCAACTAAAGATG 474794 |||| || | |||||||| || || || |||||||| || | || ||||||||||||| Sbjct 32659969 ATGCTGTTGTCACTGTTCCTGCTTACTTCAATGATTCCCAGAGGCAGGCAACTAAAGATG 32660028 Query 474795 CGGGAAGAATTGCAGGTCTTAATGTTTTACGTATTATTAATGAACCAACAGCAGCCGCAC 474854 | || ||||| |||||||||||| | ||||| || ||||| |||||||| || ||| Sbjct 32660029 CCGGTGTTATTGCGGGTCTTAATGTTATGCGTATCATCAATGAGCCAACAGCTGCTGCAA 32660088 Query 474855 TTGCTTATGGTCTTGATAAGAA 474876 |||||||||||||||| ||||| Sbjct 32660089 TTGCTTATGGTCTTGACAAGAA 32660110 Score = 91.5 bits (100), Expect = 1e-12 Identities = 131/185 (71%), Gaps = 0/185 (0%) Strand=Plus/Minus Query 474680 GTTTTAGCCAAAATGAAACAAACCGCGAGCTCATATCTTGGACAAGAAGTAACTGATGCA 474739 ||||| |||| ||||| | || || || || |||||| || || | | || Sbjct 515848 GTTTTGACCAAGATGAAGGAGACAGCTGAATCTTACCTTGGAAAATCTGTTTCCAAGGCT 515789 Query 474740 GTAATTACTGTTCCAGCATATTTTAATGATTCTCAACGTCAAGCAACTAAAGATGCGGGA 474799 || |||||||||||||| ||||| |||||| |||| ||||| || || || ||||| || Sbjct 515788 GTGATTACTGTTCCAGCTTATTTCAATGATGCTCAGCGTCAGGCTACCAAGGATGCTGGT 515729 Query 474800 AGAATTGCAGGTCTTAATGTTTTACGTATTATTAATGAACCAACAGCAGCCGCACTTGCT 474859 | || || || ||| |||| | | || || |||||||| || || || || || || Sbjct 515728 CGCATCGCTGGACTTGATGTCCAAAGAATCATCAATGAACCCACTGCTGCTGCTCTGTCT 515669 Query 474860 TATGG 474864 ||||| Sbjct 515668 TATGG 515664 >seq4 Length=30521686 Score = 104 bits (114), Expect = 2e-16 Identities = 159/222 (72%), Gaps = 6/222 (3%) Strand=Plus/Minus Query 480551 ACGAAGACGGAGTACAAGATGAA--GTGTACTTTCTTTAGAAACATTATAATCAGCTAGA 480608 |||||| ||||| ||||| || | ||| ||| | | || |||||||| || ||| Sbjct 27324183 ACGAAGGCGGAGGACAAGGTGCAAGGTGGACTCCTTCTGGATG--TTATAATCCGCGAGA 27324126 Query 480609 GTTCTGTTATCTTCAAGTTGCTTTCCAGCAAAAATAAGACGTTGTTGATCAGGAGGAATT 480668 || | ||| ||||| ||||| ||||| || ||||| ||||| || || ||||| || Sbjct 27324125 GTACGCCCATCCTCAAGCTGCTTGCCAGCGAAGATAAGGCGTTGCTGGTCCGGAGGGATG 27324066 Query 480669 CCTTCCTTGTCTTGAATCTTTTGTTTGACAGCTTCAATAGTATCAGTGTG-TGAAGTTTC 480727 || |||||||| |||||||| || ||| ||||| ||||| | | | || | | Sbjct 27324065 CCCTCCTTGTCCTGAATCTTAGCCTTCACATTGTCAATCGTATCGGAGGACTCAACCTCC 27324006 Query 480728 AAGGGTAATAGTTTTACCGGTGAGAGTCTTAACGAAAATTTG 480769 |||| | || || || || ||||| ||||||||||| || || Sbjct 27324005 AAGG-TGATGGTCTTGCCAGTGAGGGTCTTAACGAATATCTG 27323965 >seq12 Length=23561512 Score = 100 bits (110), Expect = 2e-15 Identities = 106/140 (76%), Gaps = 0/140 (0%) Strand=Plus/Plus Query 474737 GCAGTAATTACTGTTCCAGCATATTTTAATGATTCTCAACGTCAAGCAACTAAAGATGCG 474796 ||||| |||||||||| ||||| || ||||| || || | |||||| |||||||| Sbjct 6698457 GCAGTGGTTACTGTTCCTGCATACTTCAATGACTCACAGAGGACAGCAACAAAAGATGCT 6698516 Query 474797 GGAAGAATTGCAGGTCTTAATGTTTTACGTATTATTAATGAACCAACAGCAGCCGCACTT 474856 ||| | |||||||| | | ||| | || ||||| ||||| || || || || | ||| Sbjct 6698517 GGACGTATTGCAGGATTGGAAGTTCTCCGCATTATAAATGAGCCGACTGCTGCATCCCTT 6698576 Query 474857 GCTTATGGTCTTGATAAGAA 474876 ||||||||| |||| ||||| Sbjct 6698577 GCTTATGGTTTTGAGAAGAA 6698596 Score = 93.3 bits (102), Expect = 3e-13 Identities = 208/308 (68%), Gaps = 6/308 (2%) Strand=Plus/Plus Query 475877 GTACTTGTTGACGTAACTCCACTTTCATTAGGTCTTGAAACAGTTGGAGGGATT-ATGAC 475935 || ||| |||| || |||||| | || | ||||| || || ||||| ||| | ||||| Sbjct 6701136 GTTCTTCTTGATGTTACTCCATTGTCTCTTGGTCTGGAGAC-GTTGGGTGGAGTGATGAC 6701194 Query 475936 TAATCTTATTGACAGAAATACTCCTATCCCATGCAAAAAATCAAAAGTATTTTCCACTTA 475995 || ||||| |||||| || | | || | ||||||| | ||||| ||||| Sbjct 6701195 CAAGATTATTCCCAGAAACACAACACTGCCCACCTCAAAATCAGAGGTATTCTCCACAGC 6701254 Query 475996 TTCTGATAATCAAACAACTGTAACCATCCAAATCTT--TGAAGGTGAAAGAAAATTCACT 476053 | | ||| || |||| ||| || |||| || | | || || ||| | || Sbjct 6701255 TGCAGATGGACAGACAAGTGTTGAGAT--AAATGTTCTTCAGGGAGAGAGAGAGTTTGTC 6701312 Query 476054 AAAGATAATAACAAACTTGGAACTTTTAATCTTGAAGGTATTCCTCCTGCTCCCAGAGGA 476113 || || || ||||||| || | || || || |||||||| || | || Sbjct 6701313 CGGGACAACAAGTCTCTTGGAAGCTTCCGCTTGGATGGAATCCCTCCTGCACCACGTGGT 6701372 Query 476114 GTTCCTCAAATTGAAGTTACTTTTGATATTGATGCAAATGGTATTCTTAATGTTACTGCT 476173 ||||| ||||||||||| | |||||||||||||| ||||||||||| |||| ||||| Sbjct 6701373 GTTCCACAAATTGAAGTCAAGTTTGATATTGATGCCAATGGTATTCTCTCTGTTGCTGCT 6701432 Query 476174 TGTGATAA 476181 |||||| Sbjct 6701433 ATTGATAA 6701440 >seq2 Length=33962743 Score = 96.9 bits (106), Expect = 2e-14 Identities = 98/128 (77%), Gaps = 0/128 (0%) Strand=Plus/Minus Query 474737 GCAGTAATTACTGTTCCAGCATATTTTAATGATTCTCAACGTCAAGCAACTAAAGATGCG 474796 || || ||||| |||||||| |||||||||||| |||| ||||| ||||| || ||||| Sbjct 30787381 GCCGTGATTACAGTTCCAGCTTATTTTAATGATGCTCAGCGTCAGGCAACCAAGGATGCT 30787322 Query 474797 GGAAGAATTGCAGGTCTTAATGTTTTACGTATTATTAATGAACCAACAGCAGCCGCACTT 474856 || | ||||| || ||| |||| | || || ||||||||||| || || || || Sbjct 30787321 GGTCGCATTGCTGGACTTGATGTCCAGAGGATCATCAATGAACCAACTGCTGCTGCTCTG 30787262 Query 474857 GCTTATGG 474864 ||||||| Sbjct 30787261 TCTTATGG 30787254 >seq5 Length=26652778 Score = 95.1 bits (104), Expect = 8e-14 Identities = 152/216 (70%), Gaps = 2/216 (1%) Strand=Plus/Minus Query 480555 AGACGGAGTACAAGATGAAGTGTACTTTCTTTAGAAACATTATAATCAGCTAGAGTTCTG 480614 || ||||| ||||| ||||| || || || | || || ||||| || || || Sbjct 21799760 AGGCGGAGAACAAGGTGAAGGGTGGACTCCTTCTGGATGTTGTAGTCAGCAAGGGTCCTA 21799701 Query 480615 TTATCTTCAAGTTGCTTTCCAGCAAAAATAAGACGTTGTTGATCAGGAGGAATTCCTTCC 480674 ||| || || ||||| |||||||| || ||||| || || || || ||||| || ||| Sbjct 21799700 CCATCCTCGAGCTGCTTGCCAGCAAAGATCAGACGCTGCTGGTCCGGGGGAATCCCCTCC 21799641 Query 480675 TTGTCTTGAATCTTTTGTTTGACAGCTTCAATAGTATCAG-TGTGTGAAGTTTCAAGGGT 480733 ||||| || |||||| || || ||||||||||||| | | || |||||||| Sbjct 21799640 TTGTCCTGGATCTTTGCCTTAACGTTGTCAATAGTATCAGAAGACTCAA-CCTCAAGGGT 21799582 Query 480734 AATAGTTTTACCGGTGAGAGTCTTAACGAAAATTTG 480769 ||||| || || || | ||||| || || ||||| Sbjct 21799581 GATAGTCTTGCCAGTCAAGGTCTTGACAAAGATTTG 21799546 Score = 91.5 bits (100), Expect = 1e-12 Identities = 147/210 (70%), Gaps = 1/210 (0%) Strand=Plus/Plus Query 480561 AGTACAAGATGAAGTGTACTTTCTTTAGAAACATTATAATCAGCTAGAGTTCTGTTATCT 480620 || ||||| ||||| || ||||| || || ||||| || || || | || Sbjct 7981047 AGCACAAGGTGAAGGGTGGACTCTTTCTGAATGTTGTAATCTGCGAGGGTGCGTCCGTCC 7981106 Query 480621 TCAAGTTGCTTT-CCAGCAAAAATAAGACGTTGTTGATCAGGAGGAATTCCTTCCTTGTC 480679 |||||||||||| || ||||| || || || || || ||||| |||||||| |||||||| Sbjct 7981107 TCAAGTTGCTTTGCCCGCAAAGATGAGGCGCTGCTGGTCAGGTGGAATTCCCTCCTTGTC 7981166 Query 480680 TTGAATCTTTTGTTTGACAGCTTCAATAGTATCAGTGTGTGAAGTTTCAAGGGTAATAGT 480739 |||||||| |||||| ||||| || |||| | | || ||||| || || Sbjct 7981167 CTGAATCTTGGCCTTGACATTGTCAATCGTGTCAGAGGACTCAACCTCTAGGGTTATGGT 7981226 Query 480740 TTTACCGGTGAGAGTCTTAACGAAAATTTG 480769 || || ||||| ||||| || || || || Sbjct 7981227 CTTGCCAGTGAGTGTCTTCACAAAGATCTG 7981256 Score = 91.5 bits (100), Expect = 1e-12 Identities = 151/218 (69%), Gaps = 0/218 (0%) Strand=Plus/Minus Query 480552 CGAAGACGGAGTACAAGATGAAGTGTACTTTCTTTAGAAACATTATAATCAGCTAGAGTT 480611 || || ||||| ||||| || || || ||| || | || || ||||| || || Sbjct 21799535 CGGAGGCGGAGGACAAGGTGGAGGGTGGATTCCTTCTGGATGTTGTAGTCAGCAAGCGTG 21799476 Query 480612 CTGTTATCTTCAAGTTGCTTTCCAGCAAAAATAAGACGTTGTTGATCAGGAGGAATTCCT 480671 | ||||||||| ||||| ||||| || || ||||| || || || || || ||||| Sbjct 21799475 CGCCCATCTTCAAGCTGCTTGCCAGCGAAGATGAGACGCTGCTGGTCCGGTGGGATTCCC 21799416 Query 480672 TCCTTGTCTTGAATCTTTTGTTTGACAGCTTCAATAGTATCAGTGTGTGAAGTTTCAAGG 480731 |||||||| || ||||| || ||| ||||| ||||| | | | |||||| Sbjct 21799415 TCCTTGTCCTGGATCTTGGCCTTTACATTGTCAATGGTATCCGAGGACTCAACCTCAAGG 21799356 Query 480732 GTAATAGTTTTACCGGTGAGAGTCTTAACGAAAATTTG 480769 || || || || || ||||||||||| || || || || Sbjct 21799355 GTTATGGTCTTGCCAGTGAGAGTCTTCACAAAGATCTG 21799318 Score = 87.8 bits (96), Expect = 1e-11 Identities = 127/177 (72%), Gaps = 2/177 (1%) Strand=Plus/Minus Query 480594 TTATAATCAGCTAGAGTTCTGTTATCTTCAAGTTGCTTTCCAGCAAAAATAAGACGTTGT 480653 || || ||||| || || ||| ||| || || ||||| || |||||||||||||| || Sbjct 21799949 TTGTAGTCAGCGAGGGTCCTGCCATCCTCCAGCTGCTTGCCGGCAAAAATAAGACGCTGC 21799890 Query 480654 TGATCAGGAGGAATTCCTTCCTTGTCTTGAATCTTTTGTTTGACAGCTTCAATAGTATCA 480713 ||||| || ||||| || |||||||| || ||||| || || || || || || Sbjct 21799889 TGATCTGGGGGAATGCCCTCCTTGTCCTGGATCTTCGCCTTCACGTTGTCGATCGTGTCT 21799830 Query 480714 G-TGTGTGAAGTTTCAAGGGTAATAGTTTTACCGGTGAGAGTCTTAACGAAAATTTG 480769 | || | || ||||| ||||| || || || || || ||||| ||||| || || Sbjct 21799829 GATGACTCAA-CCTCAAGCGTAATGGTCTTGCCAGTAAGGGTCTTCACGAAGATCTG 21799774 >seq11 Length=27785585 Score = 89.7 bits (98), Expect = 3e-12 Identities = 105/142 (74%), Gaps = 0/142 (0%) Strand=Plus/Plus Query 474735 ATGCAGTAATTACTGTTCCAGCATATTTTAATGATTCTCAACGTCAAGCAACTAAAGATG 474794 |||| || | |||||||| || || || ||||| || || | || || || || |||| Sbjct 27541603 ATGCCGTTGTCACTGTTCCTGCCTACTTCAATGACTCCCAGAGGCAGGCCACCAAGGATG 27541662 Query 474795 CGGGAAGAATTGCAGGTCTTAATGTTTTACGTATTATTAATGAACCAACAGCAGCCGCAC 474854 | ||| ||||| ||||| ||||| | || || || || || ||||| || ||||| Sbjct 27541663 CTGGAGTGATTGCTGGTCTCAATGTCATGCGCATCATCAACGAGCCAACTGCTGCCGCTA 27541722 Query 474855 TTGCTTATGGTCTTGATAAGAA 474876 |||| ||||||||||| ||||| Sbjct 27541723 TTGCCTATGGTCTTGACAAGAA 27541744 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 3268015427455064