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_010240.1 Length=169794 Score E Sequences producing significant alignments: (Bits) Value seq5 127 2e-24 seq7 105 7e-18 seq9 98.7 1e-15 seq1 98.7 1e-15 >seq5 Length=39371879 Score = 127 bits (140), Expect = 2e-24 Identities = 148/196 (76%), Gaps = 8/196 (4%) Strand=Plus/Plus Query 42017 CTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAA 42076 ||||||||| ||||| |||||||||| ||| || |||| || ||||| || || ||||| Sbjct 2688693 CTCCTTTTGGATATTATAATCAGCCAAAGTACGGCCGTCCTCCAGCTGTTTCCCGGCGAA 2688752 Query 42077 TATGAGTCGCTGCTGGTCGGCTGGCACGCTCTCCTTGTCCATGATTTTTTGTTTGAGCGT 42136 ||||| ||||| ||||||| || | || || |||||| |||||| |||| ||| Sbjct 2688753 GATGAGCCGCTGTTGGTCGGGAGGGATGCCTTCTTTGTCCTGGATTTTGGCCTTGA-CGT 2688811 Query 42137 CGCC-ACCGTGTCG---CTCGATTCCACATCGACCGTGATGGTTTTGCCCGTTAGCGTCT 42192 | | | ||||||| ||| || || |||| |||||||||||||| || | || | Sbjct 2688812 TGTCGATCGTGTCGGAACTC---TCGACTTCGAGGGTGATGGTTTTGCCGGTCAAAGTTT 2688868 Query 42193 TTACAAAGATTTGCAT 42208 | |||||||||||||| Sbjct 2688869 TGACAAAGATTTGCAT 2688884 Score = 91.5 bits (100), Expect = 2e-13 Identities = 140/196 (71%), Gaps = 8/196 (4%) Strand=Plus/Plus Query 42017 CTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAA 42076 |||||| || || || ||||| |||| || || |||| || ||||| || || ||||| Sbjct 2688921 CTCCTTCTGGATGTTATAATCCGCCAAGGTACGACCGTCTTCGAGCTGTTTCCCGGCGAA 2688980 Query 42077 TATGAGTCGCTGCTGGTCGGCTGGCACGCTCTCCTTGTCCATGATTTTTTGTTTGAGCGT 42136 ||||| | |||||||||| ||| | | |||||||| ||| || |||| ||| Sbjct 2688981 GATGAGCCTTTGCTGGTCGGGTGGGATCCCTTCCTTGTCTTGGATCTTGGCCTTGA-CGT 2689039 Query 42137 CGCC-ACCGTGTCG---CTCGATTCCACATCGACCGTGATGGTTTTGCCCGTTAGCGTCT 42192 | | | ||||||| ||| ||||| |||| ||||||||||| || || | || | Sbjct 2689040 TGTCGATCGTGTCGGAACTC---TCCACTTCGAGGGTGATGGTTTTACCGGTCAAGGTTT 2689096 Query 42193 TTACAAAGATTTGCAT 42208 | || ||||| ||||| Sbjct 2689097 TGACGAAGATCTGCAT 2689112 >seq7 Length=21614486 Score = 105 bits (116), Expect = 7e-18 Identities = 141/195 (72%), Gaps = 6/195 (3%) Strand=Plus/Plus Query 42017 CTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAA 42076 |||||| || |||||||||||||| || || || | || |||||||| |||||||| || Sbjct 2896497 CTCCTTCTGGATATTGTAATCAGCAAGGGTGCGGCCATCCTCTAGCTGTTTACCAGCAAA 2896556 Query 42077 TATGAGTCGCTGCTGGTCGGCTGGCACGCTCTCCTTGTCCATGATTTTTTGTTTGAGCGT 42136 || || | ||| ||||| | ||| | | |||||||| ||| || ||||| | Sbjct 2896557 GATAAGCCTCTGTTGGTCTGGTGGGATCCCTTCCTTGTCTTGGATCTTGGCTTTGACATT 2896616 Query 42137 CGCCACCGTGTC---GCTCGATTCCACATCGACCGTGATGGTTTTGCCCGTTAGCGTCTT 42193 | | ||||| ||| |||||| |||| |||||||| ||||| || || || || Sbjct 2896617 ATCAATAGTGTCAGAGCT---TTCCACCTCGAGGGTGATGGTCTTGCCAGTAAGGGTTTT 2896673 Query 42194 TACAAAGATTTGCAT 42208 |||||||| ||||| Sbjct 2896674 CACAAAGATCTGCAT 2896688 Score = 104 bits (114), Expect = 3e-17 Identities = 143/196 (73%), Gaps = 8/196 (4%) Strand=Plus/Plus Query 42017 CTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAA 42076 |||||| || |||||||||||||| || || || | || |||||||| |||||||| || Sbjct 2883507 CTCCTTCTGGATATTGTAATCAGCAAGGGTGCGGCCATCCTCTAGCTGTTTACCAGCAAA 2883566 Query 42077 TATGAGTCGCTGCTGGTCGGCTGGCACGCTCTCCTTGTCCATGATTTTTTG-TTTGAGCG 42135 || || | ||| ||||| | ||| | | ||||||| | ||| | || | ||||| Sbjct 2883567 GATAAGCCTCTGTTGGTCTGGTGGGATCCCTTCCTTGT-CTTGAATCTTAGCTTTGACAT 2883625 Query 42136 TCGCCACCGTGTC---GCTCGATTCCACATCGACCGTGATGGTTTTGCCCGTTAGCGTCT 42192 | | | ||||| ||| |||||| |||| |||||||| ||||| || || || | Sbjct 2883626 TATCAATAGTGTCAGAGCT---TTCCACCTCGAGGGTGATGGTCTTGCCAGTAAGGGTTT 2883682 Query 42193 TTACAAAGATTTGCAT 42208 | |||||||| ||||| Sbjct 2883683 TCACAAAGATCTGCAT 2883698 Score = 98.7 bits (108), Expect = 1e-15 Identities = 161/231 (70%), Gaps = 6/231 (3%) Strand=Plus/Plus Query 41982 CCTCCTCTTAAACGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCC 42041 |||||||| | ||||| |||||||||| || ||||||||| || || || || || Sbjct 2895778 CCTCCTCTAAGGCGCAAGACCAAATGCAGGGTTGACTCCTTTTGGATGTTATAGTCTGCA 2895837 Query 42042 AGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCTGGC 42101 || |||| | | || || |||||||| ||||| || || | | ||| ||||| | ||| Sbjct 2895838 AGTGTCCTCCCATCTTCAAGCTGCTTTCCAGCAAAAATCAACCTCTGTTGGTCAGGTGGG 2895897 Query 42102 ACGCTCTCCTTGTCCATGATTTTTTGTTTGAGCGTCGCCACCGTGTC---GCTCGATTCC 42158 | | |||||| || ||| || ||||| | | | ||||| |||| ||| Sbjct 2895898 ATACCCTCCTTATCTTGGATCTTGGCTTTGACATTGTCAATTGTGTCAGAGCTC---TCC 2895954 Query 42159 ACATCGACCGTGATGGTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCATT 42209 || || | ||||||||||| || || | || || ||||| || |||||| Sbjct 2895955 ACCTCCAAAGTGATGGTTTTACCAGTCAAGGTTTTCACAAAAATCTGCATT 2896005 Score = 96.9 bits (106), Expect = 4e-15 Identities = 163/232 (70%), Gaps = 8/232 (3%) Strand=Plus/Plus Query 41982 CCTCCTCTTAAACGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCC 42041 |||||||| | ||||| |||||||||| || ||||||||| || || || || || Sbjct 2882788 CCTCCTCTCAGGCGCAAAACCAAATGCAGGGTTGACTCCTTTTGGATGTTATAGTCTGCA 2882847 Query 42042 AGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCTGGC 42101 || |||| | | || || |||||||| ||||| || || | | ||| ||||| | ||| Sbjct 2882848 AGTGTCCTCCCATCCTCAAGCTGCTTTCCAGCAAAAATCAACCTCTGTTGGTCAGGTGGG 2882907 Query 42102 ACGCTCTCCTTGTCCATGATTTTTTGTTTGAGCGTCGCCACC-GTGTC---GCTCGATTC 42157 | | |||||| || ||| || ||| | ||| | || ||||| |||| || Sbjct 2882908 ATACCCTCCTTATCTTGGATCTTGGCTTTAA-CGTTGTCAATTGTGTCAGAGCTC---TC 2882963 Query 42158 CACATCGACCGTGATGGTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCATT 42209 ||| || | ||||||||||| || || | || || ||||| || |||||| Sbjct 2882964 CACCTCCAAAGTGATGGTTTTACCAGTCAAGGTTTTCACAAAAATCTGCATT 2883015 Score = 95.1 bits (104), Expect = 1e-14 Identities = 141/196 (72%), Gaps = 8/196 (4%) Strand=Plus/Plus Query 42017 CTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAA 42076 |||||| || |||||||| ||||||||||| || | || || | |||||| ||||| || Sbjct 2882595 CTCCTTCTGGATATTGTAGTCAGCCAGAGTGCGACCATCCTCCAACTGCTTGCCAGCAAA 2882654 Query 42077 TATGAGTCGCTGCTGGTCGGCTGGCACGCTCTCCTTGTCCATGATTTTTTG-TTTGAGCG 42135 || | | ||||||||| | || | | |||||||||| ||| | |||| ||| | Sbjct 2882655 GATCAACCTCTGCTGGTCTGGAGGAATCCCCTCCTTGTCC-TGAATCTTTGCTTTCACAT 2882713 Query 42136 TCGCCACCGTGTC---GCTCGATTCCACATCGACCGTGATGGTTTTGCCCGTTAGCGTCT 42192 | | | |||||| |||| || || || | ||||||||||| || || | |||| Sbjct 2882714 TGTCAATCGTGTCTGAGCTC---TCAACCTCCAGGGTGATGGTTTTCCCAGTCAAGGTCT 2882770 Query 42193 TTACAAAGATTTGCAT 42208 | ||||| || ||||| Sbjct 2882771 TCACAAATATCTGCAT 2882786 Score = 95.1 bits (104), Expect = 1e-14 Identities = 141/196 (72%), Gaps = 8/196 (4%) Strand=Plus/Plus Query 42017 CTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAA 42076 |||||| || |||||||| ||||||||||| || | || || | |||||||||||| || Sbjct 2895585 CTCCTTCTGGATATTGTAGTCAGCCAGAGTGCGACCATCCTCCAACTGCTTACCAGCAAA 2895644 Query 42077 TATGAGTCGCTGCTGGTCGGCTGGCACGCTCTCCTTGTCCATGATTTTTTG-TTTGAGCG 42135 || | | ||||||||| | || | | |||||||||| ||| | |||| ||| | Sbjct 2895645 GATCAACCTCTGCTGGTCTGGAGGAATCCCCTCCTTGTCC-TGAATCTTTGCTTTCACAT 2895703 Query 42136 TCGCCACCGTGTC---GCTCGATTCCACATCGACCGTGATGGTTTTGCCCGTTAGCGTCT 42192 | | | ||||| |||| || || || | ||||||||||| || || | |||| Sbjct 2895704 TGTCAATTGTGTCTGAGCTC---TCAACCTCCAGGGTGATGGTTTTCCCAGTCAATGTCT 2895760 Query 42193 TTACAAAGATTTGCAT 42208 | ||||| || ||||| Sbjct 2895761 TGACAAATATCTGCAT 2895776 >seq9 Length=38630433 Score = 98.7 bits (108), Expect = 1e-15 Identities = 143/198 (72%), Gaps = 8/198 (4%) Strand=Plus/Minus Query 42018 TCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAAT 42077 |||||||| ||||||||||| || || || || |||| || || ||||| || ||||| Sbjct 27803226 TCCTTTTGGATATTGTAATCCGCAAGGGTTCGGCCGTCTTCAAGTTGCTTGCCGGCGAAG 27803167 Query 42078 ATGAGTCGCTGCTGGTCGGCTGGCACGCTCTCCTTGTCCATGATTTTTTGTTTGAGCGTC 42137 || | ||||| || || | || | || |||||||| ||| || |||| ||| Sbjct 27803166 ATCAAGCGCTGTTGATCAGGAGGAATGCCTTCCTTGTCTTGGATCTTGGCCTTGA-CGTT 27803108 Query 42138 G-CCACCGTGTC---GCTCGATTCCACATCGACCGTGATGGTTTTGCCCGTTAGCGTCTT 42193 | | | ||||| |||| ||||| |||| |||||||||||||| ||||| || || Sbjct 27803107 GTCGATGGTGTCTGAGCTC---TCCACCTCGAGGGTGATGGTTTTGCCGGTTAGGGTTTT 27803051 Query 42194 TACAAAGATTTGCATTTT 42211 || ||||| ||||| || Sbjct 27803050 CACGAAGATCTGCATCTT 27803033 >seq1 Length=37323695 Score = 98.7 bits (108), Expect = 1e-15 Identities = 138/194 (71%), Gaps = 0/194 (0%) Strand=Plus/Plus Query 42018 TCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAAT 42077 ||||| ||||||||||| || || | || || |||| || |||||||| || ||||| Sbjct 32435724 TCCTTCTGAATATTGTAGTCGGCTAAGGTGCGGCCGTCTTCGAGCTGCTTGCCGGCGAAG 32435783 Query 42078 ATGAGTCGCTGCTGGTCGGCTGGCACGCTCTCCTTGTCCATGATTTTTTGTTTGAGCGTC 42137 ||||| || ||||| || | ||| | | ||||||||| ||| || ||||| | Sbjct 32435784 ATGAGACGTTGCTGATCCGGTGGGATTCCTTCCTTGTCCTGGATCTTGGCTTTGACATTG 32435843 Query 42138 GCCACCGTGTCGCTCGATTCCACATCGACCGTGATGGTTTTGCCCGTTAGCGTCTTTACA 42197 | | ||||| ||||| || || | || ||||| || |||||||| || || || Sbjct 32435844 TCGATGGTGTCAGAGGATTCGACCTCTAGGGTTATGGTCTTCCCCGTTAGGGTTTTGACG 32435903 Query 42198 AAGATTTGCATTTT 42211 ||||| ||||| || Sbjct 32435904 AAGATCTGCATCTT 32435917 Score = 91.5 bits (100), Expect = 2e-13 Identities = 159/230 (69%), Gaps = 6/230 (3%) Strand=Plus/Minus Query 41982 CCTCCTCTTAAACGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCC 42041 || || | ||||||||||||||| || | || |||||||| ||||| || ||||| Sbjct 11148464 CCACCACGTAAACGCAACACCAAGTGAAGGGTAGATTCCTTTTGGATATTATAGTCAGCG 11148405 Query 42042 AGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCTGGC 42101 ||||| | | || || |||||||| ||||| || ||||| | |||||||| | ||| Sbjct 11148404 AGAGTTCTTCCATCTTCAAGCTGCTTGCCAGCAAAGATGAGCCTTTGCTGGTCTGGTGGG 11148345 Query 42102 ACGCTCTCCTTGTCCATGATTTTTTGTTTGAGCGTCGCCACCGTGTC---GCTCGATTCC 42158 | | |||||| || ||| ||| || | | | | ||||| ||| || Sbjct 11148344 ATACCCTCCTTATCTTGGATCTTTGCCTTCACATTATCAATGGTGTCTGAACTC---TCA 11148288 Query 42159 ACATCGACCGTGATGGTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 42208 || || | ||||| || || || || || ||||| ||||| |||||||| Sbjct 11148287 ACCTCCAATGTGATAGTCTTTCCGGTAAGAGTCTTCACAAAAATTTGCAT 11148238 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 543209873441040