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_002816.1 Length=123500 Score E Sequences producing significant alignments: (Bits) Value seq7 107 2e-18 seq1 100 2e-16 seq6 98.7 8e-16 seq5 95.1 1e-14 seq9 82.4 6e-11 >seq7 Length=21614486 Score = 107 bits (118), Expect = 2e-18 Identities = 155/216 (72%), Gaps = 6/216 (3%) Strand=Plus/Plus Query 45125 AATACCAAGTGCAGCGTGCTCTCCTTCTGAATGTTGTAGTCGTTCA---GTTGGCGATCG 45181 || ||||| || || || ||||||||||||||| ||||| | || ||| | | Sbjct 2896249 AACACCAAATGGAGGGTTGACTCCTTCTGAATGTTATAGTC-TGCAAGGGTT--CTGCCA 2896305 Query 45182 TCGTCCAGTTGTTTTCCGGCGAATATCAACCGCTGTTGGTCGGGAGGCACACCCTCCTTG 45241 || || || ||||||||||| || || |||| ||| ||||| || || | |||||||||| Sbjct 2896306 TCTTCAAGCTGTTTTCCGGCAAAAATTAACCTCTGCTGGTCCGGTGGGATACCCTCCTTG 2896365 Query 45242 TCCGCAATTTTTTGCTTAACCGCCGCCACGCTGTCCCCACCCTCCACCTCCACGGTAATC 45301 ||| ||| || ||| || | | | | ||| || ||||||||||| || || Sbjct 2896366 TCCTGAATCTTGGCCTTCACATTATCGATGGTATCCGAACTCTCCACCTCCAAAGTGATG 2896425 Query 45302 GTCTTGCCCGTCAGAGTCTTCACAAAGATTTGCATG 45337 || || || || ||||| |||||||| || |||||| Sbjct 2896426 GTTTTCCCAGTGAGAGTTTTCACAAATATCTGCATG 2896461 Score = 104 bits (114), Expect = 2e-17 Identities = 164/232 (71%), Gaps = 6/232 (3%) Strand=Plus/Plus Query 45109 GCCACCTCTCAATCTTAATACCAAGTGCAGCGTGCTCTCCTTCTGAATGTTGTAGTCGTT 45168 |||||| | | || || ||||| || || || ||||||||||||||| ||||| | Sbjct 2883243 GCCACCACGGAGTCGCAACACCAAATGGAGGGTTGACTCCTTCTGAATGTTATAGTC-TG 2883301 Query 45169 CA---GTTGGCGATCGTCGTCCAGTTGTTTTCCGGCGAATATCAACCGCTGTTGGTCGGG 45225 || ||| | | || || || |||||||| || || || |||| ||| ||||| || Sbjct 2883302 CAAGGGTT--CTGCCATCTTCAAGCTGTTTTCCAGCAAAAATTAACCTCTGCTGGTCTGG 2883359 Query 45226 AGGCACACCCTCCTTGTCCGCAATTTTTTGCTTAACCGCCGCCACGCTGTCCCCACCCTC 45285 || | ||||||||||||| ||| || ||| || | | | | ||| || ||| Sbjct 2883360 TGGGATACCCTCCTTGTCCTGAATCTTGGCCTTCACATTATCGATGGTATCCGAACTCTC 2883419 Query 45286 CACCTCCACGGTAATCGTCTTGCCCGTCAGAGTCTTCACAAAGATTTGCATG 45337 |||||||| || || || || || || ||||| |||||||| || |||||| Sbjct 2883420 CACCTCCAAAGTGATGGTTTTCCCAGTGAGAGTTTTCACAAATATCTGCATG 2883471 Score = 100 bits (110), Expect = 2e-16 Identities = 150/209 (72%), Gaps = 3/209 (1%) Strand=Plus/Plus Query 45130 CAAG-TGCAGCGTGCTCTCCTTCTGAATGTTGTAGTCGTTCAGTTGGCGATCGTCGTCCA 45188 |||| || || ||| ||||||||| || |||||||| ||| |||| | || |||| Sbjct 2882579 CAAGATGAAGGGTGGACTCCTTCTGGATATTGTAGTCAGCCAGAGTGCGACCATCCTCCA 2882638 Query 45189 GTTGTTTTCCGGCGAATATCAACCGCTGTTGGTCGGGAGGCACACCCTCCTTGTCCGCAA 45248 || || || || || ||||||| ||| ||||| ||||| | |||||||||||| || Sbjct 2882639 ACTGCTTGCCAGCAAAGATCAACCTCTGCTGGTCTGGAGGAATCCCCTCCTTGTCCTGAA 2882698 Query 45249 TTTTTTGCTTAACCGCCGCCACGC-TGTCCCCACCCTCCACCTCCACGGTAATCGTCTTG 45307 | ||||||| | | || | |||| | ||| ||||||| ||| || || || Sbjct 2882699 -TCTTTGCTTTCACATTGTCAATCGTGTCTGAGCTCTCAACCTCCAGGGTGATGGTTTTC 2882757 Query 45308 CCCGTCAGAGTCTTCACAAAGATTTGCAT 45336 || |||| ||||||||||| || ||||| Sbjct 2882758 CCAGTCAAGGTCTTCACAAATATCTGCAT 2882786 Score = 93.3 bits (102), Expect = 3e-14 Identities = 146/208 (70%), Gaps = 1/208 (0%) Strand=Plus/Plus Query 45130 CAAG-TGCAGCGTGCTCTCCTTCTGAATGTTGTAGTCGTTCAGTTGGCGATCGTCGTCCA 45188 |||| || || ||| ||||||||| || |||||||| ||| |||| | || |||| Sbjct 2895569 CAAGATGAAGGGTGGACTCCTTCTGGATATTGTAGTCAGCCAGAGTGCGACCATCCTCCA 2895628 Query 45189 GTTGTTTTCCGGCGAATATCAACCGCTGTTGGTCGGGAGGCACACCCTCCTTGTCCGCAA 45248 || || || || || ||||||| ||| ||||| ||||| | |||||||||||| || Sbjct 2895629 ACTGCTTACCAGCAAAGATCAACCTCTGCTGGTCTGGAGGAATCCCCTCCTTGTCCTGAA 2895688 Query 45249 TTTTTTGCTTAACCGCCGCCACGCTGTCCCCACCCTCCACCTCCACGGTAATCGTCTTGC 45308 | ||| || || | | |||| | ||| ||||||| ||| || || || | Sbjct 2895689 TCTTTGCTTTCACATTGTCAATTGTGTCTGAGCTCTCAACCTCCAGGGTGATGGTTTTCC 2895748 Query 45309 CCGTCAGAGTCTTCACAAAGATTTGCAT 45336 | |||| ||||| ||||| || ||||| Sbjct 2895749 CAGTCAATGTCTTGACAAATATCTGCAT 2895776 Score = 84.2 bits (92), Expect = 2e-11 Identities = 157/228 (69%), Gaps = 2/228 (1%) Strand=Plus/Plus Query 45110 CCACCTCTCAATCTTAATACCAAGTGCAGCGTGCTCTCCTTCTGAATGTTGTAGTCGTTC 45169 || ||||||| | || ||||| ||||| || |||||| || ||||| ||||| Sbjct 2882788 CCTCCTCTCAGGCGCAAAACCAAATGCAGGGTTGACTCCTTTTGGATGTTATAGTCTGCA 2882847 Query 45170 AGTTGGCGATCGTCGTCCAGTTGTTTTCCGGCGAATATCAACCGCTGTTGGTCGGGAGGC 45229 ||| | | || || || || ||||| || || ||||||| ||||||||| || || Sbjct 2882848 AGTGTCCTCCCATCCTCAAGCTGCTTTCCAGCAAAAATCAACCTCTGTTGGTCAGGTGGG 2882907 Query 45230 ACACCCTCCTTGTCCGCAATTTTTTGCTTAACCGCCGCCACGC-TGTCCCCACCCTCCAC 45288 | ||||||||| || || || |||| | || | || |||| | |||||| Sbjct 2882908 ATACCCTCCTTATCTTGGATCTTG-GCTTTAACGTTGTCAATTGTGTCAGAGCTCTCCAC 2882966 Query 45289 CTCCACGGTAATCGTCTTGCCCGTCAGAGTCTTCACAAAGATTTGCAT 45336 ||||| || || || || || |||| || |||||||| || ||||| Sbjct 2882967 CTCCAAAGTGATGGTTTTACCAGTCAAGGTTTTCACAAAAATCTGCAT 2883014 >seq1 Length=37323695 Score = 100 bits (110), Expect = 2e-16 Identities = 148/210 (70%), Gaps = 0/210 (0%) Strand=Plus/Minus Query 45128 ACCAAGTGCAGCGTGCTCTCCTTCTGAATGTTGTAGTCGTTCAGTTGGCGATCGTCGTCC 45187 |||||||| || || |||||| |||||||| || || ||| | | || || Sbjct 11148218 ACCAAGTGAAGGGTTGACTCCTTTTGAATGTTATAATCAGCAAGTGTCCTTCCATCTTCA 11148159 Query 45188 AGTTGTTTTCCGGCGAATATCAACCGCTGTTGGTCGGGAGGCACACCCTCCTTGTCCGCA 45247 ||||||||||| || || ||||||| ||| || || || || | |||||| || ||| | Sbjct 11148158 AGTTGTTTTCCAGCAAAAATCAACCTCTGCTGATCTGGTGGGATACCCTCTTTATCCTGA 11148099 Query 45248 ATTTTTTGCTTAACCGCCGCCACGCTGTCCCCACCCTCCACCTCCACGGTAATCGTCTTG 45307 || || ||| || | | ||||| | ||| ||||||| || ||||| || Sbjct 11148098 ATCTTAGCCTTGACATTGTCAATAGTGTCCGAGCTCTCTACCTCCAAAGTGATCGTTTTA 11148039 Query 45308 CCCGTCAGAGTCTTCACAAAGATTTGCATG 45337 || || |||||||| ||||||||||||||| Sbjct 11148038 CCTGTGAGAGTCTTGACAAAGATTTGCATG 11148009 Score = 87.8 bits (96), Expect = 1e-12 Identities = 134/191 (70%), Gaps = 0/191 (0%) Strand=Plus/Minus Query 45146 TCCTTCTGAATGTTGTAGTCGTTCAGTTGGCGATCGTCGTCCAGTTGTTTTCCGGCGAAT 45205 |||||||| ||||||||||| ||| | | || ||||| || || || || || Sbjct 11148656 TCCTTCTGGATGTTGTAGTCTGCCAGAGTTCTCCCATCCTCCAGCTGCTTCCCAGCAAAA 11148597 Query 45206 ATCAACCGCTGTTGGTCGGGAGGCACACCCTCCTTGTCCGCAATTTTTTGCTTAACCGCC 45265 ||||||| ||| ||||| ||||| | |||||||||||| || ||| ||| || Sbjct 11148596 ATCAACCTCTGCTGGTCTGGAGGGATCCCCTCCTTGTCCTGGATCTTTGCCTTCACATTA 11148537 Query 45266 GCCACGCTGTCCCCACCCTCCACCTCCACGGTAATCGTCTTGCCCGTCAGAGTCTTCACA 45325 | | | |||| | || ||||||| || || ||||| || |||| ||||||||| Sbjct 11148536 TCAATGGTGTCTGAGCTATCAACCTCCAACGTTATTGTCTTTCCAGTCAAGGTCTTCACA 11148477 Query 45326 AAGATTTGCAT 45336 || || ||||| Sbjct 11148476 AATATCTGCAT 11148466 >seq6 Length=26303135 Score = 98.7 bits (108), Expect = 8e-16 Identities = 149/212 (70%), Gaps = 0/212 (0%) Strand=Plus/Minus Query 45125 AATACCAAGTGCAGCGTGCTCTCCTTCTGAATGTTGTAGTCGTTCAGTTGGCGATCGTCG 45184 || |||| ||| || ||| |||||||||||| ||||| || ||| | | || Sbjct 25054544 AAGACCAGGTGAAGGGTGGACTCCTTCTGAATATTGTAATCAGCCAGAGTCCTTCCATCT 25054485 Query 45185 TCCAGTTGTTTTCCGGCGAATATCAACCGCTGTTGGTCGGGAGGCACACCCTCCTTGTCC 45244 |||| ||| || || || |||||||||| || || || || || | || ||||||||| Sbjct 25054484 TCCAATTGCTTCCCAGCAAATATCAACCTTTGCTGATCTGGTGGAATCCCTTCCTTGTCC 25054425 Query 45245 GCAATTTTTTGCTTAACCGCCGCCACGCTGTCCCCACCCTCCACCTCCACGGTAATCGTC 45304 ||| ||| |||||| | | | | ||| | ||||||||||| ||||| || Sbjct 25054424 TGAATCTTTGCCTTAACATTATCAATGGTATCCGAGCTCTCCACCTCCAAAGTAATGGTT 25054365 Query 45305 TTGCCCGTCAGAGTCTTCACAAAGATTTGCAT 45336 || || ||||||||||| || || || ||||| Sbjct 25054364 TTCCCTGTCAGAGTCTTAACGAAAATCTGCAT 25054333 >seq5 Length=39371879 Score = 95.1 bits (104), Expect = 1e-14 Identities = 115/157 (73%), Gaps = 0/157 (0%) Strand=Plus/Plus Query 45180 CGTCGTCCAGTTGTTTTCCGGCGAATATCAACCGCTGTTGGTCGGGAGGCACACCCTCCT 45239 |||| ||||| ||||| |||||||| || | |||||||||||||||||| | || || | Sbjct 2688728 CGTCCTCCAGCTGTTTCCCGGCGAAGATGAGCCGCTGTTGGTCGGGAGGGATGCCTTCTT 2688787 Query 45240 TGTCCGCAATTTTTTGCTTAACCGCCGCCACGCTGTCCCCACCCTCCACCTCCACGGTAA 45299 ||||| ||||| ||| || | | |||| || ||| || || | ||| | Sbjct 2688788 TGTCCTGGATTTTGGCCTTGACGTTGTCGATCGTGTCGGAACTCTCGACTTCGAGGGTGA 2688847 Query 45300 TCGTCTTGCCCGTCAGAGTCTTCACAAAGATTTGCAT 45336 | || ||||| |||| ||| || |||||||||||||| Sbjct 2688848 TGGTTTTGCCGGTCAAAGTTTTGACAAAGATTTGCAT 2688884 >seq9 Length=38630433 Score = 82.4 bits (90), Expect = 6e-11 Identities = 141/205 (69%), Gaps = 0/205 (0%) Strand=Plus/Minus Query 45133 GTGCAGCGTGCTCTCCTTCTGAATGTTGTAGTCGTTCAGTTGGCGATCGTCGTCCAGTTG 45192 ||| || ||| ||||||||| |||||||| || || | |||| |||| || Sbjct 27803695 GTGAAGAGTGGACTCCTTCTGGATGTTGTAATCCGCAAGGGTCCTGCCGTCCTCCAACTG 27803636 Query 45193 TTTTCCGGCGAATATCAACCGCTGTTGGTCGGGAGGCACACCCTCCTTGTCCGCAATTTT 45252 || |||||||||||||||| ||| || || ||||| | || ||||| ||| ||||| Sbjct 27803635 CTTCCCGGCGAATATCAACCTCTGCTGATCCGGAGGGATCCCTTCCTTATCCTGGATTTT 27803576 Query 45253 TTGCTTAACCGCCGCCACGCTGTCCCCACCCTCCACCTCCACGGTAATCGTCTTGCCCGT 45312 | ||| || | | | ||| || ||| ||||||| ||||| || || || || Sbjct 27803575 TGCCTTGACGTTATCAATTGTATCCGAACTCTCTACCTCCAGAGTAATAGTTTTCCCGGT 27803516 Query 45313 CAGAGTCTTCACAAAGATTTGCATG 45337 || || || || || || |||||| Sbjct 27803515 CAAGGTTTTAACGAAAATCTGCATG 27803491 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 395073124744051