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: Theobroma_20cacao_20[refseq_20GCF_5F000208745.1_202016-07-09] 431 sequences; 324,879,930 total letters Query= NC_028091.1 Length=196300 Score E Sequences producing significant alignments: (Bits) Value seq4 109 7e-19 seq2 105 8e-18 seq1 105 8e-18 seq8 96.9 4e-15 >seq4 Length=31929104 Score = 109 bits (120), Expect = 7e-19 Identities = 190/271 (70%), Gaps = 9/271 (3%) Strand=Plus/Minus Query 122671 TGGAGACCCTCATCTCGGGAAATAAGTTCATTTGAGAAGCATAGACCTGGCATGAGACCC 122730 |||||||| |||||||| || || | || || ||||| || || ||||| | || Sbjct 2302036 TGGAGACCTTCATCTCGTGAGATTAACTCGTTCGAGAAAGTTAATCCAGGCATTAACCCG 2301977 Query 122731 CGCTTCTTCAACCAATAAATAGCGCAGAATGACCCGGAGAAGAAGATACCCTCCACACAC 122790 ||||| || |||||| | ||||||||||| || |||||||| || || ||||| || Sbjct 2301976 CGCTTTTTTAACCAAAATATAGCGCAGAAACTTCCAGAGAAGAAAATCCCTTCCACGCAA 2301917 Query 122791 GCAAACGCAAAAAGGCGTTCGGCGAAGG--AGCGAGACTTTGCATCAAACCATTTCATTG 122848 ||||| || | || ||||||||||| | ||| || | || | |||||||| | Sbjct 2301916 GCAAAAGCGATTAGCCGTTCGGCGAAAGTTTCCGA-AC----CGTCGATCCATTTCAACG 2301862 Query 122849 CCCATTTCGCCTTCTTCTCAATACATGGTACAGTTTGGATGGCTTCAAATAACTGCTTCT 122908 |||| | || ||||| | | ||| || || |||| || ||| | || | | | |||| Sbjct 2301861 CCCACTCGGCTTTCTTAGCCACACACGGCACTGTTTCGACGGCGTGGAAGAGCCGGTTCT 2301802 Query 122909 TTTCAGATCCA-TCCTTAATGTATTTGTCAA 122938 |||| | | | ||||| ||||| | |||| Sbjct 2301801 TTTC-GTTGGAGTCCTTGATGTAAGTTTCAA 2301772 Score = 89.7 bits (98), Expect = 6e-13 Identities = 160/230 (70%), Gaps = 8/230 (3%) Strand=Plus/Plus Query 11502 TAGTGGCCGCAATAACCACAATGCCAGTCTCATTGTCA---AAGCCATCCATCTCGGTGA 11558 |||| || ||||| || | || ||||| | || || || |||||||| || || | Sbjct 15381959 TAGTAGCAGCAATGACGATAACTCCAGTGT---TGCCAGTAAAACCATCCATTTCAGTTA 15382015 Query 11559 GTAATTGATTAATTGTTTGTTCTCTCTCATCATTTGCT-GGCATACCACCAGCACTGCGT 11617 | |||||||| | ||||| || |||||||||||| || | || ||||| | | Sbjct 15382016 GCAATTGATTTAGAGTTTGCTCCCTCTCATCATTTCCTCCACCTA-TACCAGTTCCTCTC 15382074 Query 11618 TGCTTGCCCACCGCATCAATCTCATCAATGAAGACAATACATGGTTGATTTTCGCGGGCG 11677 ||| | || || |||||||||||||| ||||| || | || ||| ||| | || Sbjct 15382075 TGCCTTCCAACAGCATCAATCTCATCTATGAACACCAAGCACGGTGAATTAGCCTTTGCC 15382134 Query 11678 ATTTCAAAGAGATCGCGAACCCTTTTGGCACCCACACCAACAAACATCTC 11727 | | ||| ||||| | ||| ||| || || || |||||||||||||| Sbjct 15382135 TTGTTAAACAGATCCCTAACTCTTGAAGCTCCTACTCCAACAAACATCTC 15382184 >seq2 Length=41236440 Score = 105 bits (116), Expect = 8e-18 Identities = 276/419 (66%), Gaps = 4/419 (1%) Strand=Plus/Minus Query 11482 ATCAAGGATATCCACGCGATTAGTGGCCGCAATAACCACAATGCCAGTCTCATTGTCAAA 11541 |||||| ||||| | || ||||| || || || || | || || || | | ||||| Sbjct 18386875 ATCAAGAATATCTGCCCGGTTAGTTGCTGCTATTACAATGATACCTGTGTTACCCTCAAA 18386816 Query 11542 GCCATCCATCTCGGTGAGTAATTGATTAATTGTTTGTTCTCTCTCATCATTTGCTGGCAT 11601 |||||||| || || | | || |||| || || || || ||||| || | Sbjct 18386815 ACCATCCATTTCAGTCAAAAGCTGGTTAAGAGTCTGCTCCCTTTCATCGTTCCCACCACC 18386756 Query 11602 ACCACCAGCACTGCGTTGCTTGCCCACCGCATCAATCTCATCAATGAAGACAATACATGG 11661 | ||||| | | |||| || || |||||||| ||||| | ||||||||||| || Sbjct 18386755 AATACCAGTTCCTCTTTGCCGTCCAACAGCATCAATTTCATCCACAAAGACAATACAGGG 18386696 Query 11662 TTGATTTTCGCGGGCGATTTCAAAGAGATCGCGAACCCTTTTGGCACCCACACCAACAAA 11721 ||| || ||| | | |||||||| ||||| | ||| || ||||||||||| Sbjct 18386695 GGCATTCTCCTTGGCCTTCTTGAAGAGATCACGAACTCGAGAGGCGCCAACACCAACAAA 18386636 Query 11722 CATCTCCACAAAGTTTGCGGCAGAGCACTG--GATGAATGGGACATTTGATTCACCCGCG 11779 ||| || ||||| | | | || | || || |||||| ||| | |||||| || Sbjct 18386635 CATTTCAACAAACTCAGAACCTGA--AATGGAGAAGAATGGCACACCAGCTTCACCAGCA 18386578 Query 11780 ATGGCTCGGGCGAGGAGGGTCTTTCCCGTACCTGGCTTACCCGCGAGAAGGGCGCCTCGG 11839 || || ||| || || |||||||| || || || || | ||||| | ||| Sbjct 18386577 ATTGCCTTGGCCAGAAGAGTCTTTCCAGTTCCAGGAGGGCCAACAAGAAGAACACCTTTA 18386518 Query 11840 GGGATCTTGGCACCACTTCCAAAATATCTCTCGGGTTGCTTGAGAAAATCCACAATCTC 11898 ||||| || ||| | || | ||||||| || | ||| || || ||||||| ||| Sbjct 18386517 GGGATGCGAGCCCCAACTGCAGTAAATCTCTCTGGCTTCTTTAGGAACTCCACAACCTC 18386459 >seq1 Length=37323695 Score = 105 bits (116), Expect = 8e-18 Identities = 163/229 (71%), Gaps = 4/229 (2%) Strand=Plus/Plus Query 111941 TGCGGTCTTGGTGTACCAGCATTGAAGAGGGTTGGTGTTGCGTGAATGAACATACCTTGG 112000 || || |||||||| ||||||||||| || ||||| | || ||| ||||| | ||| Sbjct 6395410 TGAGGCCTTGGTGTTCCAGCATTGAAAAGTGTTGGAGAAGCATGAGTGAACCATCTTTGA 6395469 Query 112001 GACATCTTGTCGTATGTCTCCAAGACAGAATCAATGTCTTCCCCGTGGATGCCGATTGCG 112060 |||||| ||| || || | | ||||||||||||| ||| || || || | || Sbjct 6395470 GACATCATGTGATAAGTTTTTATAGCAGAATCAATGTCATCCTTATGAATTCCAACAGCA 6395529 Query 112061 ACCCGCATGAACATGTACTGTGGGGTTTCCATGAGGATGCCATCGAGCCGTTGAAGA--T 112118 |||| ||| ||||||| || || |||| || | | || | || | || |||| | Sbjct 6395530 ACCCTCATTAACATGTGTTGAGGCCTTTCTAT-AACCTTCCCTTGA-ACTTTCAAGAGGT 6395587 Query 112119 AGCTCTTCTCAAGGGTTTTGAGACCAAAGTAACCAAAATCATAGTCCCG 112167 || | ||||||||||||| | ||||||||| || | ||| ||||||| Sbjct 6395588 AGGACCTCTCAAGGGTTTTAAAGCCAAAGTAATCATAGTCAAAGTCCCG 6395636 >seq8 Length=19593398 Score = 96.9 bits (106), Expect = 4e-15 Identities = 190/281 (68%), Gaps = 10/281 (4%) Strand=Plus/Minus Query 11539 AAAGCCATCCATCTCGGTGAGTAATTGATTAATTGTTTGTTCTCTCTCATCATTTGCTGG 11598 ||| ||||||||||| || | || ||||| ||||| || ||||||||||||||| || Sbjct 2546441 AAATCCATCCATCTCAGTCAACAACTGATTGATTGTCTGCTCTCTCTCATCATTTCCTCC 2546382 Query 11599 CATACCACCAGCACTGCGTTGCTTGCCCACCGCATCAATCTCATCAATGAAGACAATACA 11658 | |||||| | | || | || || |||||||||||||| ||||| || || || Sbjct 2546381 TCCAAGACCAGCTCCTCTCTGTCTCCCAACAGCATCAATCTCATCTATGAATACGATGCA 2546322 Query 11659 TGG-----TTGATTTTCGCGGGCGATTTCAAAGAGATCGCGAACCCTTTTGGCACCCACA 11713 ||| | |||||| || | || || | ||| | || || ||||| || Sbjct 2546321 TGGCGCCTTCGATTTT-----GCCTTCTCGAATAAATCCCTTACTCTGGACGCACCTACT 2546267 Query 11714 CCAACAAACATCTCCACAAAGTTTGCGGCAGAGCACTGGATGAATGGGACATTTGATTCA 11773 ||||| |||| ||||||||| | || || | ||| || || || || | ||| Sbjct 2546266 CCAACGAACAGCTCCACAAACTCTGAAGCTGCGCATGAGAAAAACGGCACCCCGGCTTCT 2546207 Query 11774 CCCGCGATGGCTCGGGCGAGGAGGGTCTTTCCCGTACCTGG 11814 || || | |||| || | || |||||||| ||||| || Sbjct 2546206 CCTGCTACTGCTCTCGCCAATAGCGTCTTTCCAGTACCAGG 2546166 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 628028616477600