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_015398.1 Length=101487 Score E Sequences producing significant alignments: (Bits) Value seq7 116 2e-21 seq6 104 2e-17 seq2 93.3 3e-14 seq1 93.3 3e-14 seq5 86.0 4e-12 >seq7 Length=21614486 Score = 116 bits (128), Expect = 2e-21 Identities = 145/195 (74%), Gaps = 8/195 (4%) Strand=Plus/Plus Query 34791 TCTTTCTGAATGTTATAGTCCGAAAGGCTTCGTTCATCATCCAGCTGTTTTCCGGCAAAT 34850 || ||||||||||||||||| | |||| ||| |||| || ||||||||||| ||||| Sbjct 2883280 TCCTTCTGAATGTTATAGTCTGCAAGGGTTCTGCCATCTTCAAGCTGTTTTCCAGCAAAA 2883339 Query 34851 ATTAGTCGTTGCTGGTCTTGCGGCACCCCCTCCTTGTCGCTAATCTTCTGTTTGACGGAT 34910 |||| | ||||||||| | || | ||||||||||| |||||| || || || Sbjct 2883340 ATTAACCTCTGCTGGTCTGGTGGGATACCCTCCTTGTCCTGAATCTTGGCCTTCAC--AT 2883397 Query 34911 GCTATCGAT--TCACCG--GCCTCAACATCGACGGTTATGGTTTTTCCCGTGAGAGTCTT 34966 ||||||| | ||| ||| || || | || |||||||| || |||||||| || Sbjct 2883398 --TATCGATGGTATCCGAACTCTCCACCTCCAAAGTGATGGTTTTCCCAGTGAGAGTTTT 2883455 Query 34967 CACAAAGATCTGCAT 34981 |||||| |||||||| Sbjct 2883456 CACAAATATCTGCAT 2883470 Score = 116 bits (128), Expect = 2e-21 Identities = 145/195 (74%), Gaps = 8/195 (4%) Strand=Plus/Plus Query 34791 TCTTTCTGAATGTTATAGTCCGAAAGGCTTCGTTCATCATCCAGCTGTTTTCCGGCAAAT 34850 || ||||||||||||||||| | |||| ||| |||| || ||||||||||||||||| Sbjct 2896270 TCCTTCTGAATGTTATAGTCTGCAAGGGTTCTGCCATCTTCAAGCTGTTTTCCGGCAAAA 2896329 Query 34851 ATTAGTCGTTGCTGGTCTTGCGGCACCCCCTCCTTGTCGCTAATCTTCTGTTTGACGGAT 34910 |||| | |||||||| | || | ||||||||||| |||||| || || || Sbjct 2896330 ATTAACCTCTGCTGGTCCGGTGGGATACCCTCCTTGTCCTGAATCTTGGCCTTCAC--AT 2896387 Query 34911 GCTATCGAT--TCACCG--GCCTCAACATCGACGGTTATGGTTTTTCCCGTGAGAGTCTT 34966 ||||||| | ||| ||| || || | || |||||||| || |||||||| || Sbjct 2896388 --TATCGATGGTATCCGAACTCTCCACCTCCAAAGTGATGGTTTTCCCAGTGAGAGTTTT 2896445 Query 34967 CACAAAGATCTGCAT 34981 |||||| |||||||| Sbjct 2896446 CACAAATATCTGCAT 2896460 Score = 93.3 bits (102), Expect = 3e-14 Identities = 139/195 (71%), Gaps = 8/195 (4%) Strand=Plus/Plus Query 34791 TCTTTCTGAATGTTATAGTCCGAAAGGCTTCGTTCATCATCCAGCTGTTTTCCGGCAAAT 34850 || ||||| || || || || | |||| | || |||| || |||||||| || ||||| Sbjct 2883508 TCCTTCTGGATATTGTAATCAGCAAGGGTGCGGCCATCCTCTAGCTGTTTACCAGCAAAG 2883567 Query 34851 ATTAGTCGTTGCTGGTCTTGCGGCACCCCCTCCTTGTCGCTAATCTTCTGTTTGACGGAT 34910 || || | || |||||| | || | ||| |||||||| |||||| |||||| || Sbjct 2883568 ATAAGCCTCTGTTGGTCTGGTGGGATCCCTTCCTTGTCTTGAATCTTAGCTTTGAC--AT 2883625 Query 34911 GCTATCGAT----TCACCGGCCTCAACATCGACGGTTATGGTTTTTCCCGTGAGAGTCTT 34966 |||| || ||| | || || |||| ||| ||||| || || || || || || Sbjct 2883626 --TATCAATAGTGTCAGAGCTTTCCACCTCGAGGGTGATGGTCTTGCCAGTAAGGGTTTT 2883683 Query 34967 CACAAAGATCTGCAT 34981 ||||||||||||||| Sbjct 2883684 CACAAAGATCTGCAT 2883698 Score = 89.7 bits (98), Expect = 3e-13 Identities = 138/195 (71%), Gaps = 8/195 (4%) Strand=Plus/Plus Query 34791 TCTTTCTGAATGTTATAGTCCGAAAGGCTTCGTTCATCATCCAGCTGTTTTCCGGCAAAT 34850 || ||||| || || || || | |||| | || |||| || |||||||| || ||||| Sbjct 2896498 TCCTTCTGGATATTGTAATCAGCAAGGGTGCGGCCATCCTCTAGCTGTTTACCAGCAAAG 2896557 Query 34851 ATTAGTCGTTGCTGGTCTTGCGGCACCCCCTCCTTGTCGCTAATCTTCTGTTTGACGGAT 34910 || || | || |||||| | || | ||| |||||||| ||||| |||||| || Sbjct 2896558 ATAAGCCTCTGTTGGTCTGGTGGGATCCCTTCCTTGTCTTGGATCTTGGCTTTGAC--AT 2896615 Query 34911 GCTATCGAT----TCACCGGCCTCAACATCGACGGTTATGGTTTTTCCCGTGAGAGTCTT 34966 |||| || ||| | || || |||| ||| ||||| || || || || || || Sbjct 2896616 --TATCAATAGTGTCAGAGCTTTCCACCTCGAGGGTGATGGTCTTGCCAGTAAGGGTTTT 2896673 Query 34967 CACAAAGATCTGCAT 34981 ||||||||||||||| Sbjct 2896674 CACAAAGATCTGCAT 2896688 Score = 89.7 bits (98), Expect = 3e-13 Identities = 106/143 (74%), Gaps = 2/143 (1%) Strand=Plus/Minus Query 34748 ATCAT--TTCCTCCCCTCAACCTCAAAACCAAGTGAATTGTGCTTTCTTTCTGAATGTTA 34805 ||||| |||||||||| | ||||||||||||||||| || || || || |||||| Sbjct 12529404 ATCATAGTTCCTCCCCTAAGCCTCAAAACCAAGTGAAGAGTCGACTCCTTTTGGATGTTA 12529345 Query 34806 TAGTCCGAAAGGCTTCGTTCATCATCCAGCTGTTTTCCGGCAAATATTAGTCGTTGCTGG 34865 || || | ||| |||| |||| || |||||||| || ||||| || | || ||||| Sbjct 12529344 TAATCTGCAAGAGTTCGACCATCTTCAAGCTGTTTGCCAGCAAAAATCAATCTCTGCTGA 12529285 Query 34866 TCTTGCGGCACCCCCTCCTTGTC 34888 || | || | || |||||||| Sbjct 12529284 TCAGGAGGGATTCCTTCCTTGTC 12529262 Score = 87.8 bits (96), Expect = 1e-12 Identities = 134/191 (70%), Gaps = 0/191 (0%) Strand=Plus/Plus Query 34791 TCTTTCTGAATGTTATAGTCCGAAAGGCTTCGTTCATCATCCAGCTGTTTTCCGGCAAAT 34850 || ||||| || || ||||| | || | || |||| |||| ||| || || ||||| Sbjct 2882596 TCCTTCTGGATATTGTAGTCAGCCAGAGTGCGACCATCCTCCAACTGCTTGCCAGCAAAG 2882655 Query 34851 ATTAGTCGTTGCTGGTCTTGCGGCACCCCCTCCTTGTCGCTAATCTTCTGTTTGACGGAT 34910 || | | ||||||||| | || | |||||||||||| |||||| ||| || Sbjct 2882656 ATCAACCTCTGCTGGTCTGGAGGAATCCCCTCCTTGTCCTGAATCTTTGCTTTCACATTG 2882715 Query 34911 GCTATCGATTCACCGGCCTCAACATCGACGGTTATGGTTTTTCCCGTGAGAGTCTTCACA 34970 | |||| || | |||||| || | ||| |||||||| || || | ||||||||| Sbjct 2882716 TCAATCGTGTCTGAGCTCTCAACCTCCAGGGTGATGGTTTTCCCAGTCAAGGTCTTCACA 2882775 Query 34971 AAGATCTGCAT 34981 || |||||||| Sbjct 2882776 AATATCTGCAT 2882786 Score = 84.2 bits (92), Expect = 1e-11 Identities = 105/143 (73%), Gaps = 2/143 (1%) Strand=Plus/Minus Query 34748 ATCAT--TTCCTCCCCTCAACCTCAAAACCAAGTGAATTGTGCTTTCTTTCTGAATGTTA 34805 ||||| |||||||||| | ||||||||||||||||| || || || || |||||| Sbjct 12548030 ATCATAATTCCTCCCCTAAGCCTCAAAACCAAGTGAAGAGTCGACTCCTTTTGGATGTTA 12547971 Query 34806 TAGTCCGAAAGGCTTCGTTCATCATCCAGCTGTTTTCCGGCAAATATTAGTCGTTGCTGG 34865 || || | ||| ||| |||| || |||||||| || ||||| || | || ||||| Sbjct 12547970 TAATCTGCAAGAGTTCAACCATCTTCAAGCTGTTTGCCAGCAAAAATCAATCTCTGCTGA 12547911 Query 34866 TCTTGCGGCACCCCCTCCTTGTC 34888 || | || | || |||||||| Sbjct 12547910 TCAGGAGGGATTCCTTCCTTGTC 12547888 Score = 84.2 bits (92), Expect = 1e-11 Identities = 105/143 (73%), Gaps = 2/143 (1%) Strand=Plus/Minus Query 34748 ATCAT--TTCCTCCCCTCAACCTCAAAACCAAGTGAATTGTGCTTTCTTTCTGAATGTTA 34805 ||||| |||||||||| | ||||||||||||||||| || || || || |||||| Sbjct 12607102 ATCATAGTTCCTCCCCTAAGCCTCAAAACCAAGTGAAGAGTCGACTCCTTTTGGATGTTA 12607043 Query 34806 TAGTCCGAAAGGCTTCGTTCATCATCCAGCTGTTTTCCGGCAAATATTAGTCGTTGCTGG 34865 || || | ||| |||| |||| || |||||||| || ||||| || | || ||||| Sbjct 12607042 TAATCTGCAAGAGTTCGACCATCCTCAAGCTGTTTGCCAGCAAAAATCAATCTCTGCTGA 12606983 Query 34866 TCTTGCGGCACCCCCTCCTTGTC 34888 || | || | || ||||| || Sbjct 12606982 TCAGGAGGGATTCCTTCCTTATC 12606960 >seq6 Length=26303135 Score = 104 bits (114), Expect = 2e-17 Identities = 155/218 (71%), Gaps = 4/218 (2%) Strand=Plus/Minus Query 34766 CCTCAAAACCAAGTGAATTGTGCTTTCTTTCTGAATGTTATAGTC--CGAAAGGCTTCGT 34823 |||||||||||| |||| ||| ||||||||||||||||| || | |||| |||| Sbjct 25054320 CCTCAAAACCAAATGAAGTGTCGACTCTTTCTGAATGTTATAATCAGCCAAAG--TTCGA 25054263 Query 34824 TCATCATCCAGCTGTTTTCCGGCAAATATTAGTCGTTGCTGGTCTTGCGGCACCCCCTCC 34883 | || || ||||| || || ||||| || || | |||||||||| |||| | || ||| Sbjct 25054262 CCGTCCTCGAGCTGCTTCCCAGCAAAGATAAGCCTTTGCTGGTCTGGCGGGATTCCTTCC 25054203 Query 34884 TTGTCGCTAATCTTCTGTTTGACGGATGCTATCGATTCACCGGCCTCAACATCGACGGTT 34943 ||||| ||||| || ||| | || | || | || || || | |||| Sbjct 25054202 TTGTCCTGGATCTTGGCCTTCACGTTGTCGATGGTGTCGGAGCTTTCGACTTCCAGGGTT 25054143 Query 34944 ATGGTTTTTCCCGTGAGAGTCTTCACAAAGATCTGCAT 34981 || || || ||||| || ||||| || ||||||||||| Sbjct 25054142 ATCGTCTTACCCGTCAGGGTCTTGACGAAGATCTGCAT 25054105 >seq2 Length=41236440 Score = 93.3 bits (102), Expect = 3e-14 Identities = 135/191 (71%), Gaps = 0/191 (0%) Strand=Plus/Plus Query 34791 TCTTTCTGAATGTTATAGTCCGAAAGGCTTCGTTCATCATCCAGCTGTTTTCCGGCAAAT 34850 || ||||||||||||||||| | ||| | || | || || ||||| || ||||| || Sbjct 32406518 TCCTTCTGAATGTTATAGTCGGCTAGGGTACGGCCGTCTTCAAGCTGCTTGCCGGCGAAG 32406577 Query 34851 ATTAGTCGTTGCTGGTCTTGCGGCACCCCCTCCTTGTCGCTAATCTTCTGTTTGACGGAT 34910 || || ||||| ||||| | || | || |||||||| ||||| |||||| Sbjct 32406578 ATGAGACGTTGTTGGTCCGGAGGGATGCCTTCCTTGTCTTGGATCTTGGCCTTGACGTTG 32406637 Query 34911 GCTATCGATTCACCGGCCTCAACATCGACGGTTATGGTTTTTCCCGTGAGAGTCTTCACA 34970 | || | || || || || || | ||||||||| || ||||| || || ||||| Sbjct 32406638 TCGATGGTGTCGGAGGATTCGACCTCCAAGGTTATGGTCTTACCCGTTAGGGTTTTCACG 32406697 Query 34971 AAGATCTGCAT 34981 ||||||||||| Sbjct 32406698 AAGATCTGCAT 32406708 >seq1 Length=37323695 Score = 93.3 bits (102), Expect = 3e-14 Identities = 146/209 (70%), Gaps = 0/209 (0%) Strand=Plus/Minus Query 34773 ACCAAGTGAATTGTGCTTTCTTTCTGAATGTTATAGTCCGAAAGGCTTCGTTCATCATCC 34832 ||||| || | ||| || ||||| || |||||||| | ||| |||| |||| || Sbjct 11147762 ACCAAATGGAGGGTGGACTCCTTCTGGATATTATAGTCAGCTAGGGTTCGACCATCTTCA 11147703 Query 34833 AGCTGTTTTCCGGCAAATATTAGTCGTTGCTGGTCTTGCGGCACCCCCTCCTTGTCGCTA 34892 |||||||| || ||||| || || | ||||||||| | || | || |||||||| Sbjct 11147702 AGCTGTTTGCCAGCAAAAATAAGCCTTTGCTGGTCAGGAGGGATTCCTTCCTTGTCTTGG 11147643 Query 34893 ATCTTCTGTTTGACGGATGCTATCGATTCACCGGCCTCAACATCGACGGTTATGGTTTTT 34952 ||||| ||||| | || | ||| | |||||| || | ||| ||||| || Sbjct 11147642 ATCTTAGCCTTGACATTGTCAATAGTATCAGAGCTCTCAACCTCAAGGGTGATGGTCTTG 11147583 Query 34953 CCCGTGAGAGTCTTCACAAAGATCTGCAT 34981 || || || || ||||||||||| ||||| Sbjct 11147582 CCTGTTAGGGTTTTCACAAAGATTTGCAT 11147554 Score = 86.0 bits (94), Expect = 4e-12 Identities = 147/211 (70%), Gaps = 8/211 (4%) Strand=Plus/Plus Query 34778 GTGAATTGTGCTTTCTTTCTGAATGTTATAGTCCGAAAGGCTTCGTTCATCATCCAGCTG 34837 ||||| ||| ||| |||||||| || ||||| | | | | || | || || ||||| Sbjct 32435711 GTGAAGGGTGGATTCCTTCTGAATATTGTAGTCGGCTAAGGTGCGGCCGTCTTCGAGCTG 32435770 Query 34838 TTTTCCGGCAAATATTAGTCGTTGCTGGTCTTGCGGCACCCCCTCCTTGTCGCTAATCTT 34897 || ||||| || || || |||||||| || | || | || |||||||| ||||| Sbjct 32435771 CTTGCCGGCGAAGATGAGACGTTGCTGATCCGGTGGGATTCCTTCCTTGTCCTGGATCTT 32435830 Query 34898 CTGTTTGACGGATGCTATCGAT----TCACCGGCCTCAACATCGACGGTTATGGTTTTTC 34953 |||||| || | ||||| ||| || || || || | ||||||||| || | Sbjct 32435831 GGCTTTGAC--AT--TGTCGATGGTGTCAGAGGATTCGACCTCTAGGGTTATGGTCTTCC 32435886 Query 34954 CCGTGAGAGTCTTCACAAAGATCTGCATATT 34984 |||| || || || || ||||||||||| || Sbjct 32435887 CCGTTAGGGTTTTGACGAAGATCTGCATCTT 32435917 Score = 82.4 bits (90), Expect = 5e-11 Identities = 150/214 (70%), Gaps = 8/214 (4%) Strand=Plus/Minus Query 34772 AACCAAGTGAATTGTGCTTTCTTTCTGAATGTTATAGTCCGAAAGGCTTCGTTCATCATC 34831 ||||||||||| || || || ||||||||||| || | ||| | | | |||| || Sbjct 11148219 AACCAAGTGAAGGGTTGACTCCTTTTGAATGTTATAATCAGCAAGTGTCCTTCCATCTTC 11148160 Query 34832 CAGCTGTTTTCCGGCAAATATTAGTCGTTGCTGGTCTTGCGGCACCCCCTCCTTGTCGCT 34891 || |||||||| ||||| || | | ||||| ||| | || | ||||| || || Sbjct 11148159 AAGTTGTTTTCCAGCAAAAATCAACCTCTGCTGATCTGGTGGGATACCCTCTTTATCCTG 11148100 Query 34892 AATCTTCTGTTTGACGGATGCTATCGAT--TCACCG-GC-CTCAACATCGACGGTTATGG 34947 |||||| ||||| || | || || | ||| || ||| || || | || || | Sbjct 11148099 AATCTTAGCCTTGAC--AT--TGTCAATAGTGTCCGAGCTCTCTACCTCCAAAGTGATCG 11148044 Query 34948 TTTTTCCCGTGAGAGTCTTCACAAAGATCTGCAT 34981 |||| || ||||||||||| |||||||| ||||| Sbjct 11148043 TTTTACCTGTGAGAGTCTTGACAAAGATTTGCAT 11148010 >seq5 Length=39371879 Score = 86.0 bits (94), Expect = 4e-12 Identities = 134/192 (70%), Gaps = 0/192 (0%) Strand=Plus/Plus Query 34791 TCTTTCTGAATGTTATAGTCCGAAAGGCTTCGTTCATCATCCAGCTGTTTTCCGGCAAAT 34850 || ||||| |||||||| |||| | | | || | || || |||||||| ||||| || Sbjct 2688922 TCCTTCTGGATGTTATAATCCGCCAAGGTACGACCGTCTTCGAGCTGTTTCCCGGCGAAG 2688981 Query 34851 ATTAGTCGTTGCTGGTCTTGCGGCACCCCCTCCTTGTCGCTAATCTTCTGTTTGACGGAT 34910 || || | ||||||||| | || | ||| |||||||| ||||| |||||| Sbjct 2688982 ATGAGCCTTTGCTGGTCGGGTGGGATCCCTTCCTTGTCTTGGATCTTGGCCTTGACGTTG 2689041 Query 34911 GCTATCGATTCACCGGCCTCAACATCGACGGTTATGGTTTTTCCCGTGAGAGTCTTCACA 34970 | |||| || ||| || |||| ||| |||||||| || || | || || || Sbjct 2689042 TCGATCGTGTCGGAACTCTCCACTTCGAGGGTGATGGTTTTACCGGTCAAGGTTTTGACG 2689101 Query 34971 AAGATCTGCATA 34982 |||||||||||| Sbjct 2689102 AAGATCTGCATA 2689113 Score = 82.4 bits (90), Expect = 5e-11 Identities = 140/197 (71%), Gaps = 12/197 (6%) Strand=Plus/Plus Query 34791 TCTTTCTGAATGTTATAGTC--CGAAAGGCTTCGTTCATCATCCAGCTGTTTTCCGGCAA 34848 ||||||||||||||||| || | |||| | || |||| |||| || || ||||||| Sbjct 2688238 TCTTTCTGAATGTTATAATCAGCTAAAGTCCTC--CCATCCTCCAATTGCTTCCCGGCAA 2688295 Query 34849 ATATTAGTCGTTGCTGGTCTTGCGGCACCCCCTCCTTGTCGCTAATCTTCTGTTTGACGG 34908 | || || | |||||| ||| | || | || ||||| || |||||| ||||| Sbjct 2688296 AGATAAGCCTTTGCTGATCTGGGGGGATTCCTTCCTTATCCTGAATCTTTGCCTTGAC-- 2688353 Query 34909 ATGCTATCGAT--TCACCGGCC--TCAACATCGACGGTTATGGTTTTTCCCGTGAGAGTC 34964 || ||||||| | ||| | || || || | ||| || |||||||| || | ||| Sbjct 2688354 AT--TATCGATTGTATCCGAACTTTCCACCTCCAAGGTGATTGTTTTTCCAGTCAAGGTC 2688411 Query 34965 TTCACAAAGATCTGCAT 34981 || ||||| |||||||| Sbjct 2688412 TTGACAAAAATCTGCAT 2688428 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 324631894760568