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_028491.1 Length=98392 Score E Sequences producing significant alignments: (Bits) Value seq6 100 2e-16 seq5 98.7 6e-16 seq1 98.7 6e-16 seq2 95.1 8e-15 seq4 91.5 9e-14 seq9 87.8 1e-12 >seq6 Length=27870862 Score = 100 bits (110), Expect = 2e-16 Identities = 155/219 (71%), Gaps = 2/219 (1%) Strand=Plus/Minus Query 34489 AGACGCAACACCAAATGGAGAGTGCTCTCCTTTTGAATGTTATAATCTGAAAGTGTTCGC 34548 || || | ||||| ||||| ||| |||||| || ||||| ||||| | ||| || || Sbjct 25466606 AGGCGGAGCACCAGGTGGAGTGTGGACTCCTTCTGGATGTTGTAATCCGCAAGGGTGCGG 25466547 Query 34549 TCGTCTTCAAGTTGTTTACCGGCAAATATTAAACGCTGTTGGTCCGGCGGCACTCCCTCC 34608 | || ||||| || ||||| ||||| || | |||||| |||||||| || | |||||| Sbjct 25466546 CCATCCTCAAGCTGCTTACCAGCAAAGATCAGACGCTGCTGGTCCGGGGGGATGCCCTCC 25466487 Query 34609 TTGTCTGTGATCTTTTGTTTTAACGAT-AAAATTGTGTCTTCGCTCTCCACTTCCACGGT 34667 ||||| |||| || | || ||| | ||| ||||| ||| || || | ||| Sbjct 25466486 TTGTCCTGGATC-TTCGCCTTCACGTTGTCAATAGTGTCGGACGACTCAACCTCAAGGGT 25466428 Query 34668 TATCGTTTTACCGGTTAACGTTTTCACAAAAATCTGCAT 34706 || || || || || | || ||||| || |||||||| Sbjct 25466427 AATGGTCTTGCCAGTCAGGGTCTTCACGAAGATCTGCAT 25466389 Score = 82.4 bits (90), Expect = 5e-11 Identities = 142/204 (70%), Gaps = 2/204 (1%) Strand=Plus/Minus Query 34504 TGGAGAGTGCTCTCCTTTTGAATGTTATAATCTGAAAGTGTTCGCTCGTCTTCAAGTTGT 34563 ||||| ||| ||||| || ||||| || || | ||| || || |||| || || || Sbjct 25465679 TGGAGGGTGGATTCCTTCTGGATGTTGTAGTCGGCAAGGGTGCGGCCGTCCTCCAGCTGC 25465620 Query 34564 TTACCGGCAAATATTAAACGCTGTTGGTCCGGCGGCACTCCCTCCTTGTCTGTGATCTTT 34623 || ||||| || || | |||||| |||||||| || | ||||||||||| |||| || Sbjct 25465619 TTGCCGGCGAAGATGAGACGCTGCTGGTCCGGGGGGATGCCCTCCTTGTCCTGGATC-TT 25465561 Query 34624 TGTTTTAACGAT-AAAATTGTGTCTTCGCTCTCCACTTCCACGGTTATCGTTTTACCGGT 34682 | || ||| | || ||||| | ||| || || | ||| || || || ||||| Sbjct 25465560 GGCCTTCACGTTGTCGATCGTGTCCGAGGACTCGACCTCGAGGGTGATGGTCTTGCCGGT 25465501 Query 34683 TAACGTTTTCACAAAAATCTGCAT 34706 | || || || || |||||||| Sbjct 25465500 CAGGGTCTTGACGAAGATCTGCAT 25465477 Score = 82.4 bits (90), Expect = 5e-11 Identities = 142/204 (70%), Gaps = 2/204 (1%) Strand=Plus/Minus Query 34504 TGGAGAGTGCTCTCCTTTTGAATGTTATAATCTGAAAGTGTTCGCTCGTCTTCAAGTTGT 34563 ||||| ||| |||||| || ||||| || || | ||| || || |||| || || || Sbjct 25466135 TGGAGGGTGGACTCCTTCTGGATGTTGTAGTCGGCAAGGGTGCGGCCGTCCTCCAGCTGC 25466076 Query 34564 TTACCGGCAAATATTAAACGCTGTTGGTCCGGCGGCACTCCCTCCTTGTCTGTGATCTTT 34623 || || || || || | |||||| |||||||| || | ||||||||||| |||| || Sbjct 25466075 TTGCCAGCGAAGATGAGACGCTGCTGGTCCGGGGGGATGCCCTCCTTGTCCTGGATC-TT 25466017 Query 34624 TGTTTTAACGAT-AAAATTGTGTCTTCGCTCTCCACTTCCACGGTTATCGTTTTACCGGT 34682 | || ||| | ||| ||||| ||| || || | ||| || || || || || Sbjct 25466016 GGCCTTCACGTTGTCAATAGTGTCGGACGACTCAACCTCAAGGGTAATGGTCTTGCCAGT 25465957 Query 34683 TAACGTTTTCACAAAAATCTGCAT 34706 | || ||||| || |||||||| Sbjct 25465956 CAGGGTCTTCACGAAGATCTGCAT 25465933 >seq5 Length=26652778 Score = 98.7 bits (108), Expect = 6e-16 Identities = 160/228 (70%), Gaps = 2/228 (1%) Strand=Plus/Minus Query 34480 CCGCCTCTAAGACGCAACACCAAATGGAGAGTGCTCTCCTTTTGAATGTTATAATCTGAA 34539 || || || || || | |||||| || || || |||||| |||||||| || || | | Sbjct 21800225 CCACCCCTGAGGCGGAGCACCAAGTGTAGGGTAGACTCCTTCTGAATGTTGTAGTCGGCA 21800166 Query 34540 AGTGTTCGCTCGTCTTCAAGTTGTTTACCGGCAAATATTAAACGCTGTTGGTCCGGCGGC 34599 || || || | || || || || ||||| || || || | | ||| |||||||| || Sbjct 21800165 AGGGTGCGTCCATCCTCCAGCTGCTTACCAGCGAAGATGAGTCTCTGCTGGTCCGGGGGG 21800106 Query 34600 ACTCCCTCCTTGTCTGTGATCTTTTGTTTTAACGATAA-AATTGTGTCTTCGCTCTCCAC 34658 | |||||||| || |||||| | || ||| | ||| |||||| |||||| || Sbjct 21800105 ATGCCCTCCTTATCCTGGATCTTC-GCCTTCACGTTGTCAATGGTGTCTGAGCTCTCAAC 21800047 Query 34659 TTCCACGGTTATCGTTTTACCGGTTAACGTTTTCACAAAAATCTGCAT 34706 |||| ||| || || || || || | || || || ||||||||||| Sbjct 21800046 CTCCAGGGTAATAGTCTTGCCAGTGAGAGTCTTGACGAAAATCTGCAT 21799999 Score = 96.9 bits (106), Expect = 2e-15 Identities = 143/203 (70%), Gaps = 0/203 (0%) Strand=Plus/Minus Query 34504 TGGAGAGTGCTCTCCTTTTGAATGTTATAATCTGAAAGTGTTCGCTCGTCTTCAAGTTGT 34563 ||||| ||| ||||| || ||||| || || | ||| || ||| | |||||||| || Sbjct 21799517 TGGAGGGTGGATTCCTTCTGGATGTTGTAGTCAGCAAGCGTGCGCCCATCTTCAAGCTGC 21799458 Query 34564 TTACCGGCAAATATTAAACGCTGTTGGTCCGGCGGCACTCCCTCCTTGTCTGTGATCTTT 34623 || || || || || | |||||| |||||||| || | |||||||||||| |||||| Sbjct 21799457 TTGCCAGCGAAGATGAGACGCTGCTGGTCCGGTGGGATTCCCTCCTTGTCCTGGATCTTG 21799398 Query 34624 TGTTTTAACGATAAAATTGTGTCTTCGCTCTCCACTTCCACGGTTATCGTTTTACCGGTT 34683 |||| ||| || || | ||| || || | |||||| || || || || Sbjct 21799397 GCCTTTACATTGTCAATGGTATCCGAGGACTCAACCTCAAGGGTTATGGTCTTGCCAGTG 21799338 Query 34684 AACGTTTTCACAAAAATCTGCAT 34706 | || |||||||| |||||||| Sbjct 21799337 AGAGTCTTCACAAAGATCTGCAT 21799315 Score = 93.3 bits (102), Expect = 3e-14 Identities = 146/205 (71%), Gaps = 3/205 (1%) Strand=Plus/Plus Query 34504 TGGAGAGTGCTCTCCTTTTGAATGTTATAATCTGAAAGTGTTCGCTCGTCTTCAAGTTG- 34562 || || ||| ||| || |||||||| ||||||| || || || |||| |||||||| Sbjct 7981056 TGAAGGGTGGACTCTTTCTGAATGTTGTAATCTGCGAGGGTGCGTCCGTCCTCAAGTTGC 7981115 Query 34563 TTTACCGGCAAATATTAAACGCTGTTGGTCCGGCGGCACTCCCTCCTTGTCTGTGATCTT 34622 ||| || ||||| || | ||||| ||||| || || | |||||||||||| ||| | Sbjct 7981116 TTTGCCCGCAAAGATGAGGCGCTGCTGGTCAGGTGGAATTCCCTCCTTGTC-CTGAATCT 7981174 Query 34623 TTGTTTTAACGAT-AAAATTGTGTCTTCGCTCTCCACTTCCACGGTTATCGTTTTACCGG 34681 | | || || | ||| ||||| | ||| || || | |||||| || || || | Sbjct 7981175 TGGCCTTGACATTGTCAATCGTGTCAGAGGACTCAACCTCTAGGGTTATGGTCTTGCCAG 7981234 Query 34682 TTAACGTTTTCACAAAAATCTGCAT 34706 | | || |||||||| |||||||| Sbjct 7981235 TGAGTGTCTTCACAAAGATCTGCAT 7981259 >seq1 Length=39866532 Score = 98.7 bits (108), Expect = 6e-16 Identities = 163/233 (70%), Gaps = 2/233 (1%) Strand=Plus/Plus Query 34478 CGCCGCCTCTAAGACGCAACACCAAATGGAGAGTGCTCTCCTTTTGAATGTTATAATCTG 34537 ||||||| | || || | ||||| ||||| || |||||| || ||||| || || | Sbjct 11683491 CGCCGCCGCGGAGGCGGAGCACCAGGTGGAGGGTCGACTCCTTCTGGATGTTGTAGTCGG 11683550 Query 34538 AAAGTGTTCGCTCGTCTTCAAGTTGTTTACCGGCAAATATTAAACGCTGTTGGTCCGGCG 34597 || || ||| |||| || || || || ||||| || || | ||||| ||||| |||| Sbjct 11683551 CGAGGGTGCGCCCGTCCTCCAGCTGCTTGCCGGCGAAGATGAGCCGCTGCTGGTCGGGCG 11683610 Query 34598 GCACTCCCTCCTTGTCTGTGATCTTTTGTTTTAACGAT-AAAATTGTGTCTTCGCTCTCC 34656 | | ||||||||||| |||| || | || ||| | || ||||| | |||| Sbjct 11683611 GGATCCCCTCCTTGTCCTGGATC-TTCGCCTTCACGTTGTCGATGGTGTCCGAGGACTCC 11683669 Query 34657 ACTTCCACGGTTATCGTTTTACCGGTTAACGTTTTCACAAAAATCTGCATGTT 34709 || |||| || ||||| || || || | || ||||| || |||||||| || Sbjct 11683670 ACCTCCAGCGTGATCGTCTTCCCCGTCAGGGTCTTCACGAAGATCTGCATCTT 11683722 Score = 95.1 bits (104), Expect = 8e-15 Identities = 160/229 (70%), Gaps = 2/229 (1%) Strand=Plus/Minus Query 34479 GCCGCCTCTAAGACGCAACACCAAATGGAGAGTGCTCTCCTTTTGAATGTTATAATCTGA 34538 |||||| | || || | ||||| || || || |||||| || ||||| || || | Sbjct 23562503 GCCGCCGCGGAGGCGGAGCACCAGGTGCAGCGTCGACTCCTTCTGGATGTTGTAGTCGGC 23562444 Query 34539 AAGTGTTCGCTCGTCTTCAAGTTGTTTACCGGCAAATATTAAACGCTGTTGGTCCGGCGG 34598 || || ||| |||| || || || || ||||| || || | ||||| ||||||||||| Sbjct 23562443 CAGCGTGCGCCCGTCCTCCAGCTGCTTGCCGGCGAAGATGAGCCGCTGCTGGTCCGGCGG 23562384 Query 34599 CACTCCCTCCTTGTCTGTGATCTTTTGTTTTAACGAT-AAAATTGTGTCTTCGCTCTCCA 34657 | ||||||||||| || | || | || ||| | || ||||| |||||||| Sbjct 23562383 GATCCCCTCCTTGTC-CTGCACCTTCGCCTTGACGTTCTGGATCGTGTCGCTGCTCTCCA 23562325 Query 34658 CTTCCACGGTTATCGTTTTACCGGTTAACGTTTTCACAAAAATCTGCAT 34706 | |||| || || || || || || | || ||||| || |||||||| Sbjct 23562324 CCTCCAGCGTGATGGTCTTCCCCGTCAGGGTCTTCACGAAGATCTGCAT 23562276 >seq2 Length=33962743 Score = 95.1 bits (104), Expect = 8e-15 Identities = 154/219 (70%), Gaps = 2/219 (1%) Strand=Plus/Plus Query 34489 AGACGCAACACCAAATGGAGAGTGCTCTCCTTTTGAATGTTATAATCTGAAAGTGTTCGC 34548 ||||| | ||||| ||||| || |||||| || ||||| || || | ||| || || Sbjct 3067154 AGACGAAGCACCAGGTGGAGGGTAGACTCCTTCTGGATGTTGTAGTCGGCAAGGGTGCGG 3067213 Query 34549 TCGTCTTCAAGTTGTTTACCGGCAAATATTAAACGCTGTTGGTCCGGCGGCACTCCCTCC 34608 | || || || || || ||||| || || | |||||| ||||| || || | |||||| Sbjct 3067214 CCATCCTCGAGCTGCTTGCCGGCGAAGATGAGACGCTGCTGGTCTGGGGGGATGCCCTCC 3067273 Query 34609 TTGTCTGTGATCTTTTGTTTTAACGAT-AAAATTGTGTCTTCGCTCTCCACTTCCACGGT 34667 ||||| |||| || | || ||| | || ||||| |||||| || |||| ||| Sbjct 3067274 TTGTCCTGGATC-TTGGCCTTGACGTTGTCGATGGTGTCCGAGCTCTCAACCTCCAGGGT 3067332 Query 34668 TATCGTTTTACCGGTTAACGTTTTCACAAAAATCTGCAT 34706 || || || || || | || || ||||| |||||||| Sbjct 3067333 GATGGTCTTGCCTGTGAGGGTCTTGACAAAGATCTGCAT 3067371 Score = 91.5 bits (100), Expect = 9e-14 Identities = 153/219 (70%), Gaps = 2/219 (1%) Strand=Plus/Plus Query 34489 AGACGCAACACCAAATGGAGAGTGCTCTCCTTTTGAATGTTATAATCTGAAAGTGTTCGC 34548 || || | ||||| ||||| ||| |||||| || ||||| || || | || || || Sbjct 3066926 AGGCGGAGCACCAGGTGGAGGGTGGACTCCTTCTGGATGTTGTAGTCGGCGAGGGTGCGT 3066985 Query 34549 TCGTCTTCAAGTTGTTTACCGGCAAATATTAAACGCTGTTGGTCCGGCGGCACTCCCTCC 34608 | || || || || || || || || || | |||||| ||||| || || | |||||| Sbjct 3066986 CCATCCTCCAGCTGCTTGCCAGCGAAGATCAGACGCTGCTGGTCTGGGGGAATCCCCTCC 3067045 Query 34609 TTGTCTGTGATCTTTTGTTTTAACGATA-AAATTGTGTCTTCGCTCTCCACTTCCACGGT 34667 ||||| |||| || | || || || ||| ||||| |||||| || |||| || Sbjct 3067046 TTGTCCTGGATC-TTGGCCTTCACATTATCAATGGTGTCGGAGCTCTCAACCTCCAAAGT 3067104 Query 34668 TATCGTTTTACCGGTTAACGTTTTCACAAAAATCTGCAT 34706 || || || || || || || ||||| || |||||||| Sbjct 3067105 GATGGTCTTCCCAGTCAAGGTCTTCACGAAGATCTGCAT 3067143 >seq4 Length=30521686 Score = 91.5 bits (100), Expect = 9e-14 Identities = 159/229 (69%), Gaps = 2/229 (1%) Strand=Plus/Minus Query 34480 CCGCCTCTAAGACGCAACACCAAATGGAGAGTGCTCTCCTTTTGAATGTTATAATCTGAA 34539 ||||| | || |||| || | || || ||| |||||||| ||||| || |||| | Sbjct 27324416 CCGCCCCGGAGGCGCAGGACAAGGTGCAGGGTGGATTCCTTTTGGATGTTGTAGTCTGCA 27324357 Query 34540 AGTGTTCGCTCGTCTTCAAGTTGTTTACCGGCAAATATTAAACGCTGTTGGTCCGGCGGC 34599 || || || | || || || || || || ||||| || | |||||| ||||| || || Sbjct 27324356 AGGGTGCGGCCATCCTCGAGCTGCTTCCCAGCAAAGATGAGACGCTGCTGGTCTGGTGGG 27324297 Query 34600 ACTCCCTCCTTGTCTGTGATCTTTTGTTTTAACGATA-AAATTGTGTCTTCGCTCTCCAC 34658 | |||||||||||| |||| || | || || || || ||||| | ||| || Sbjct 27324296 ATTCCCTCCTTGTCCTGGATC-TTGGCCTTCACATTATCGATCGTGTCGGAGGACTCGAC 27324238 Query 34659 TTCCACGGTTATCGTTTTACCGGTTAACGTTTTCACAAAAATCTGCATG 34707 |||| ||| || || || ||||| | || ||||| || || |||||| Sbjct 27324237 CTCCAGGGTAATGGTCTTGCCGGTGAGGGTCTTCACGAATATTTGCATG 27324189 Score = 89.7 bits (98), Expect = 3e-13 Identities = 158/228 (69%), Gaps = 2/228 (1%) Strand=Plus/Minus Query 34480 CCGCCTCTAAGACGCAACACCAAATGGAGAGTGCTCTCCTTTTGAATGTTATAATCTGAA 34539 || || | ||| || | ||||| || | ||| |||||| || |||||||| || | | Sbjct 27324644 CCTCCACGAAGGCGGAGGACCAAGTGCAAGGTGGACTCCTTCTGGATGTTATAGTCAGCA 27324585 Query 34540 AGTGTTCGCTCGTCTTCAAGTTGTTTACCGGCAAATATTAAACGCTGTTGGTCCGGCGGC 34599 || || || |||| ||||| || || || || || || | ||||| ||||| || || Sbjct 27324584 AGGGTGCGGCCGTCCTCAAGCTGCTTGCCAGCGAAGATGAGCCGCTGCTGGTCTGGTGGA 27324525 Query 34600 ACTCCCTCCTTGTCTGTGATCTTTTGTTTTAACGAT-AAAATTGTGTCTTCGCTCTCCAC 34658 | ||||||||||| |||| || | || || | || ||||| | ||| || Sbjct 27324524 ATACCCTCCTTGTCCTGGATC-TTGGCCTTCACATTGTCGATCGTGTCAGAGGACTCAAC 27324466 Query 34659 TTCCACGGTTATCGTTTTACCGGTTAACGTTTTCACAAAAATCTGCAT 34706 |||| ||| ||||| || || || | || |||||||| |||||||| Sbjct 27324465 CTCCAAGGTGATCGTCTTGCCAGTAAGGGTCTTCACAAAGATCTGCAT 27324418 >seq9 Length=20482102 Score = 87.8 bits (96), Expect = 1e-12 Identities = 89/116 (77%), Gaps = 0/116 (0%) Strand=Plus/Minus Query 34498 ACCAAATGGAGAGTGCTCTCCTTTTGAATGTTATAATCTGAAAGTGTTCGCTCGTCTTCA 34557 ||||| || ||||| |||||| |||||||| || || | ||||| ||| | ||||| Sbjct 12975578 ACCAAGTGAAGAGTTGACTCCTTCTGAATGTTGTAGTCGGCCAGTGTGCGCCCATCTTCC 12975519 Query 34558 AGTTGTTTACCGGCAAATATTAAACGCTGTTGGTCCGGCGGCACTCCCTCCTTGTC 34613 || || || ||||| ||||| ||||||||||| || || || | || |||||||| Sbjct 12975518 AGCTGCTTGCCGGCGAATATCAAACGCTGTTGATCTGGAGGGATCCCTTCCTTGTC 12975463 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 314714955041594