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_033780.1 Length=144510 Score E Sequences producing significant alignments: (Bits) Value seq2 158 1e-33 seq1 113 4e-20 seq9 105 6e-18 seq7 102 8e-17 seq6 102 8e-17 >seq2 Length=41236440 Score = 158 bits (174), Expect = 1e-33 Identities = 175/231 (76%), Gaps = 2/231 (1%) Strand=Plus/Plus Query 41634 CGCCGCCGCGTAGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGG 41693 |||| ||||| || || | |||||||| || ||| ||||||||||||||||||||||| Sbjct 32406480 CGCCACCGCGGAGGCGGAGGACCAGATGGAGGGTGGACTCCTTCTGAATGTTATAGTCGG 32406539 Query 41694 AGAGGGTGCGCTCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCCGCGG 41753 ||||| || |||| || ||||||||||||||||| || || || |||||||||| | Sbjct 32406540 CTAGGGTACGGCCGTCTTCAAGCTGCTTGCCGGCGAAGATGAGACGTTGTTGGTCCGGAG 32406599 Query 41754 GAACGCTCTCCTTGTCCATGATTTTTTGCTTCAACGACGAC-ACAGTGTCGCTCGACTCC 41812 | | || ||||||| | || | || || | ||| | | | |||||| || || Sbjct 32406600 GGATGCCTTCCTTGT-CTTGGATCTTGGCCTTGACGTTGTCGATGGTGTCGGAGGATTCG 32406658 Query 41813 ACCTCCACCGTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCATG 41863 ||||||| ||||| || |||||||| || || || ||||| ||||||||| Sbjct 32406659 ACCTCCAAGGTTATGGTCTTACCCGTTAGGGTTTTCACGAAGATCTGCATG 32406709 >seq1 Length=37323695 Score = 113 bits (124), Expect = 4e-20 Identities = 171/241 (71%), Gaps = 2/241 (1%) Strand=Plus/Plus Query 41634 CGCCGCCGCGTAGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGG 41693 |||| || | ||||| | || || || || ||| ||||||||||| || ||||||| Sbjct 32435686 CGCCACCCCTGAGACGGAGGACGAGGTGAAGGGTGGATTCCTTCTGAATATTGTAGTCGG 32435745 Query 41694 AGAGGGTGCGCTCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCCGCGG 41753 | |||||| |||| |||||||||||||||||||| || || || || || |||| | Sbjct 32435746 CTAAGGTGCGGCCGTCTTCGAGCTGCTTGCCGGCGAAGATGAGACGTTGCTGATCCGGTG 32435805 Query 41754 GAACGCTCTCCTTGTCCATGATTTTTTGCTTCAACGACGAC-ACAGTGTCGCTCGACTCC 41812 | | | ||||||||| || | || |||| || | | | ||||| || || Sbjct 32435806 GGATTCCTTCCTTGTCC-TGGATCTTGGCTTTGACATTGTCGATGGTGTCAGAGGATTCG 32435864 Query 41813 ACCTCCACCGTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCATGTTATCGATG 41872 ||||| | ||||| || || ||||| || || || ||||| |||||||| || || || Sbjct 32435865 ACCTCTAGGGTTATGGTCTTCCCCGTTAGGGTTTTGACGAAGATCTGCATCTTTGCGTTG 32435924 Query 41873 G 41873 | Sbjct 32435925 G 32435925 >seq9 Length=38630433 Score = 105 bits (116), Expect = 6e-18 Identities = 174/246 (71%), Gaps = 9/246 (4%) Strand=Plus/Minus Query 41635 GCCGCCGCGTAGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGA 41694 |||||| || ||||| | ||||| || || || ||||| || || || || || | Sbjct 27803263 GCCGCCACGGAGACGGAGTACCAGGTGGAGAGTCGATTCCTTTTGGATATTGTAATCCGC 27803204 Query 41695 GAGGGTGCGCTCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCCGCGGG 41754 ||||| || |||| || || |||||||||||||| |||| ||||||||| || | || Sbjct 27803203 AAGGGTTCGGCCGTCTTCAAGTTGCTTGCCGGCGAAGATCAAGCGCTGTTGATCAGGAGG 27803144 Query 41755 AACGCTCTCCTTGTCCATGATTTTTTGCTTCAACGACGAC-ACAGTGTC---GCTCGACT 41810 || || ||||||| | || | || || | ||| | | | ||||| ||| || Sbjct 27803143 AATGCCTTCCTTGT-CTTGGATCTTGGCCTTGACGTTGTCGATGGTGTCTGAGCT---CT 27803088 Query 41811 CCACCTCCACCGTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCATGTTAT-CG 41869 ||||||| | || || ||||| || || || || || ||||| |||||||| || | || Sbjct 27803087 CCACCTCGAGGGTGATGGTTTTGCCGGTTAGGGTTTTCACGAAGATCTGCATCTTGTACG 27803028 Query 41870 ATGGAT 41875 | |||| Sbjct 27803027 AGGGAT 27803022 Score = 104 bits (114), Expect = 2e-17 Identities = 165/233 (71%), Gaps = 8/233 (3%) Strand=Plus/Minus Query 41635 GCCGCCGCGTAGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGA 41694 ||| ||||| || | | ||| || || || || |||||||| || || ||||| | Sbjct 27803491 GCCTCCGCGCAGCCTGAGCACAAGGTGAAGGGTTGATTCCTTCTGGATATTGTAGTCCGC 27803432 Query 41695 GAGGGTGCGCTCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCCGCGGG 41754 |||||||| |||| |||||||||||||| ||||| |||| ||||||||||||| || Sbjct 27803431 CAGGGTGCGGCCGTCCTCGAGCTGCTTGCCAGCGAAGATCAATCGCTGTTGGTCCGGAGG 27803372 Query 41755 AACGCTCTCCTTGTCCATGATTTTTTGCTTCAACGACGAC-ACAGTGTC---GCTCGACT 41810 | || |||||||| | || | || || | |||| | | | ||||| ||| | Sbjct 27803371 GATGCCCTCCTTGT-CTTGGATCTTGGCCTTAACGTTGTCGATCGTGTCAGAGCT---TT 27803316 Query 41811 CCACCTCCACCGTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCATG 41863 | || || | || || || || || || || || || ||||| ||||||||| Sbjct 27803315 CGACTTCAAGAGTGATGGTCTTGCCGGTTAGGGTTTTGACGAAGATCTGCATG 27803263 Score = 98.7 bits (108), Expect = 9e-16 Identities = 155/215 (72%), Gaps = 8/215 (4%) Strand=Plus/Minus Query 41653 CACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAGAGGGTGCGCTCGTCGTC 41712 ||| || || || ||| ||||||||| ||||| || || | ||||| | |||| || Sbjct 27803701 CACAAGGTGAAGAGTGGACTCCTTCTGGATGTTGTAATCCGCAAGGGTCCTGCCGTCCTC 27803642 Query 41713 GAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCC-GCGGGAACGCTCTCCTTGTCCA 41771 | |||||| ||||||||||||| | ||| || ||| | |||| | || ||||| ||| Sbjct 27803641 CAACTGCTTCCCGGCGAATATCAACCTCTGCTGATCCGGAGGGATCCCT-TCCTTATCC- 27803584 Query 41772 TGATTTTTTGCTTCAACGACGACACAGTGTCGCTCGA---CTCCACCTCCACCGTTATCG 41828 || ||||||| | ||| || | ||| | ||| ||| ||||||| || || | Sbjct 27803583 TGGATTTTTGCCTTGACGTTATCA-ATTGTATC-CGAACTCTCTACCTCCAGAGTAATAG 27803526 Query 41829 TTTTACCCGTCAGCGTCTTTACGAAAATCTGCATG 41863 |||| || |||| || || ||||||||||||||| Sbjct 27803525 TTTTCCCGGTCAAGGTTTTAACGAAAATCTGCATG 27803491 >seq7 Length=21614486 Score = 102 bits (112), Expect = 8e-17 Identities = 158/222 (71%), Gaps = 8/222 (4%) Strand=Plus/Plus Query 41645 AGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAGAGGGTGCGC 41704 || || || |||| |||||| || |||||| || ||||||||||| | || || | | Sbjct 2882797 AGGCGCAAAACCAAATGCAGGGTTGACTCCTTTTGGATGTTATAGTCTGCAAGTGTCCTC 2882856 Query 41705 TCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCCGCGGGAACGCTCTCC 41764 | || || |||||||| || || || |||| | ||||||||| | || | | |||| Sbjct 2882857 CCATCCTCAAGCTGCTTTCCAGCAAAAATCAACCTCTGTTGGTCAGGTGGGATACCCTCC 2882916 Query 41765 TTGTCCATGATTTTTTGCTTCAACGACGAC-ACAGTGTC---GCTCGACTCCACCTCCAC 41820 || | | || | || |||| |||| | | | ||||| ||| ||||||||||| Sbjct 2882917 TTAT-CTTGGATCTTGGCTTTAACGTTGTCAATTGTGTCAGAGCT---CTCCACCTCCAA 2882972 Query 41821 CGTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCAT 41862 || || |||||||| |||| || || || ||||||||||| Sbjct 2882973 AGTGATGGTTTTACCAGTCAAGGTTTTCACAAAAATCTGCAT 2883014 Score = 96.9 bits (106), Expect = 3e-15 Identities = 167/235 (71%), Gaps = 12/235 (5%) Strand=Plus/Plus Query 41635 GCCGCCGCGTAGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGA 41694 ||| || || || || ||||||| ||| || || ||||||||||||||||||||| | Sbjct 2896233 GCCACCACGAAGCCGCAACACCAAATGGAGGGTTGACTCCTTCTGAATGTTATAGTCTGC 2896292 Query 41695 GAGGGTGCGCTCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCCGCGGG 41754 ||||| | | || || ||||| || ||||| || || | | ||| ||||||| || Sbjct 2896293 AAGGGTTCTGCCATCTTCAAGCTGTTTTCCGGCAAAAATTAACCTCTGCTGGTCCGGTGG 2896352 Query 41755 AACGCTCTCCTTGTCCATGATTTTTTG-CTTCA-ACGA-CGACACAGTGTCGCTCGA--- 41808 | | |||||||||| ||| | || | ||||| | | || | || || ||| Sbjct 2896353 GATACCCTCCTTGTCC-TGAATCTTGGCCTTCACATTATCG--ATGGTATC---CGAACT 2896406 Query 41809 CTCCACCTCCACCGTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCATG 41863 ||||||||||| || || ||||| || || || || || || || ||||||||| Sbjct 2896407 CTCCACCTCCAAAGTGATGGTTTTCCCAGTGAGAGTTTTCACAAATATCTGCATG 2896461 Score = 93.3 bits (102), Expect = 4e-14 Identities = 156/222 (70%), Gaps = 8/222 (4%) Strand=Plus/Plus Query 41645 AGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAGAGGGTGCGC 41704 || || || |||| |||||| || |||||| || ||||||||||| | || || | | Sbjct 2895787 AGGCGCAAGACCAAATGCAGGGTTGACTCCTTTTGGATGTTATAGTCTGCAAGTGTCCTC 2895846 Query 41705 TCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCCGCGGGAACGCTCTCC 41764 | || || |||||||| || || || |||| | ||||||||| | || | | |||| Sbjct 2895847 CCATCTTCAAGCTGCTTTCCAGCAAAAATCAACCTCTGTTGGTCAGGTGGGATACCCTCC 2895906 Query 41765 TTGTCCATGATTTTTTGCTTCAACGACGAC-ACAGTGTC---GCTCGACTCCACCTCCAC 41820 || | | || | || |||| || | | | ||||| ||| ||||||||||| Sbjct 2895907 TTAT-CTTGGATCTTGGCTTTGACATTGTCAATTGTGTCAGAGCT---CTCCACCTCCAA 2895962 Query 41821 CGTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCAT 41862 || || |||||||| |||| || || || ||||||||||| Sbjct 2895963 AGTGATGGTTTTACCAGTCAAGGTTTTCACAAAAATCTGCAT 2896004 >seq6 Length=26303135 Score = 102 bits (112), Expect = 8e-17 Identities = 154/214 (72%), Gaps = 4/214 (2%) Strand=Plus/Minus Query 41651 AACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAGAGGGTGCGCTCGTCG 41710 || |||| ||| || || ||| |||||||||||||| || | | || || |||| Sbjct 25054316 AAAACCAAATGAAGTGTCGACTCTTTCTGAATGTTATAATCAGCCAAAGTTCGACCGTCC 25054257 Query 41711 TCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTC-CGCGGGAACGCTCTCCTTGTC 41769 ||||||||||| || || || || || | || ||||| |||||| || |||||||| Sbjct 25054256 TCGAGCTGCTTCCCAGCAAAGATAAGCCTTTGCTGGTCTGGCGGGATTCCT-TCCTTGTC 25054198 Query 41770 CATGATTTTTTGCTTCAACGACGAC-ACAGTGTCGCTCGACTCCACCTCCACCGTTATCG 41828 | ||| || |||| ||| | | | |||||| || || |||| ||||||| Sbjct 25054197 CTGGATCTTGGCCTTC-ACGTTGTCGATGGTGTCGGAGCTTTCGACTTCCAGGGTTATCG 25054139 Query 41829 TTTTACCCGTCAGCGTCTTTACGAAAATCTGCAT 41862 | ||||||||||| ||||| ||||| |||||||| Sbjct 25054138 TCTTACCCGTCAGGGTCTTGACGAAGATCTGCAT 25054105 Score = 98.7 bits (108), Expect = 9e-16 Identities = 164/232 (71%), Gaps = 4/232 (2%) Strand=Plus/Minus Query 41636 CCGCCGCGTAGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAG 41695 || || |||||||| | || || || || || ||||||||| ||||| || |||| Sbjct 25054103 CCACCACGTAGACGGAGGACGAGGTGGAGAGTCGACTCCTTCTGGATGTTGTAATCGGCC 25054044 Query 41696 AGGGTGCGCTCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCC-GCGGG 41754 | ||| || |||| ||||||||||| || || || || || | ||||||||| | ||| Sbjct 25054043 AAGGTTCGGCCGTCCTCGAGCTGCTTCCCAGCAAAGATAAGCCTTTGTTGGTCCGGTGGG 25053984 Query 41755 AACGCTCTCCTTGTCCATGATTTTTTGCTTCAACGACGAC-ACAGTGTCGCTCGACTCCA 41813 | | || ||||||||| ||| || |||| ||| | | | |||||| ||| | Sbjct 25053983 ATCCCT-TCCTTGTCCTGGATCTTGGCCTTC-ACGTTGTCGATCGTGTCGGAACTCTCGA 25053926 Query 41814 CCTCCACCGTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCATGTT 41865 | || | || || || || || || || ||||| ||||| |||||||| || Sbjct 25053925 CTTCGAGGGTGATTGTCTTGCCGGTGAGTGTCTTAACGAAGATCTGCATCTT 25053874 Score = 87.8 bits (96), Expect = 2e-12 Identities = 160/230 (70%), Gaps = 6/230 (3%) Strand=Plus/Minus Query 41636 CCGCCGCGTAGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAG 41695 || || || || || || ||||| || || ||| |||||||||||| || || || | Sbjct 25054559 CCACCACGAAGGCGCAAGACCAGGTGAAGGGTGGACTCCTTCTGAATATTGTAATCAGCC 25054500 Query 41696 AGGGTGCGCTCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCCGCGGGA 41755 || || | | || || | ||||| || || ||||||| | || || || | ||| Sbjct 25054499 AGAGTCCTTCCATCTTCCAATTGCTTCCCAGCAAATATCAACCTTTGCTGATCTGGTGGA 25054440 Query 41756 ACGCTCTCCTTGTCCATGATTTTTTGCTTCAACGACGACACAGTGTCGCTCGA---CTCC 41812 | | ||||||||| ||| | ||||| | ||| | | || || ||| |||| Sbjct 25054439 ATCCCTTCCTTGTCC-TGAATCTTTGCCTTAAC-ATTA-TCAATGGTATCCGAGCTCTCC 25054383 Query 41813 ACCTCCACCGTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCAT 41862 ||||||| || || ||||| || ||||| ||||| |||||||||||||| Sbjct 25054382 ACCTCCAAAGTAATGGTTTTCCCTGTCAGAGTCTTAACGAAAATCTGCAT 25054333 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 462301509337200