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_021312.1 Length=459984 Score E Sequences producing significant alignments: (Bits) Value seq8 132 1e-25 seq2 129 2e-24 seq4 127 6e-24 seq9 105 2e-17 seq1 93.3 1e-13 seq5 84.2 6e-11 >seq8 Length=19593398 Score = 132 bits (146), Expect = 1e-25 Identities = 337/506 (67%), Gaps = 14/506 (3%) Strand=Plus/Minus Query 288853 TCAAACCTACCAGAACGAGTTAATGCTGGGTCTAATATATCGGCTCTGTTTGTTGCTGCC 288912 ||||||||||| | | ||| |||| || | | ||| | ||||| ||||||||| Sbjct 2546527 TCAAACCTACCGGGTCTCAATAAAGCTGCATCAAGCACATCCGGCCTGTTAGTTGCTGCC 2546468 Query 288913 AATACAACAATAGATTCGGT-TTGCTT--AAATCCATCCATACTTGTTAAAATTTGATTA 288969 || |||| | | ||| || | | |||||||||||| || || | ||||| Sbjct 2546467 AAAACAATGACAC---CGGAATTCCCTGAAAATCCATCCATCTCAGTCAACAACTGATTG 2546411 Query 288970 AGTGTTTGTTCCCTTTCATCATTTGAACCTCTTGAATCACCCGAATCGCTCCtttttttA 289029 | ||| || || || ||||||||| |||| | | ||| | | ||| | | | Sbjct 2546410 ATTGTCTGCTCTCTCTCATCATTT---CCTCCTCCAAGACCAGCTCCTCTC---TGTCTC 2546357 Query 289030 CCAACAGCATCAATTTCGTCAATGAAAATCACACACGGAGAATTTTGTCTCGCAATTGCA 289089 |||||||||||||| || || ||||| | | || || | || | | || | | Sbjct 2546356 CCAACAGCATCAATCTCATCTATGAATACGATGCATGGCGCCTTCGATTTTGCCTTCTCG 2546297 Query 289090 AATAATTCTCTTACACGGGATGCTCCAAGACCAACATACATTTCTACAAATTCAGAAGCG 289149 ||||| || ||||| | ||| || || | ||||| ||| || ||||| || ||||| Sbjct 2546296 AATAAATCCCTTACTCTGGACGCACCTACTCCAACGAACAGCTCCACAAACTCTGAAGCT 2546237 Query 289150 GATACTTGA-ATGAATGTTACATTTGCTTCGCCTGCTACTGCCCTCGCCAGAAGTGTCTT 289208 | | ||| | || | || ||||| ||||||||||| ||||||| || ||||| Sbjct 2546236 GCG-CATGAGAAAAACGGCACCCCGGCTTCTCCTGCTACTGCTCTCGCCAATAGCGTCTT 2546178 Query 289209 ACCTGTTCCAGGTGGTCCCTCTAATAGAACTCCCTTTGGTACTTTTGCCCCAGCAGACTT 289268 || || ||||| || ||| | |||| | || ||||| | || || || || | Sbjct 2546177 TCCAGTACCAGGAGGACCCACCAATAAACAACCTTTTGGGATCTTAGCTCCTAAAGCTGT 2546118 Query 289269 ATATTTCTCAGGGCTCTTTAAAAATTCTACAATTTCCTCAAGTTCATATTTTGCCTCATC 289328 || || || ||| | || || || || |||| ||| | ||||| ||||||||| || Sbjct 2546117 GTACTTGTCTGGGTTTTTCAAGAAATCAACAACTTCTTGGAGTTCCAATTTTGCCTGGTC 2546058 Query 289329 ACATCCTGCTACATCAGCAAAAGTAA 289354 | ||| ||||| |||||||| |||| Sbjct 2546057 AGCTCCAGCTACGTCAGCAAAGGTAA 2546032 >seq2 Length=41236440 Score = 129 bits (142), Expect = 2e-24 Identities = 313/465 (67%), Gaps = 8/465 (2%) Strand=Plus/Minus Query 288889 ATATCGGCTCTGTTTGTTGCTGCCAATACAACAATAGATTCGGTTTGCTTAAATCCATCC 288948 ||||| || | ||| |||||||| | ||||| ||| | | | || ||| |||||| Sbjct 18386868 ATATCTGCCCGGTTAGTTGCTGCTATTACAATGATACCTGTGTTACCCTCAAAACCATCC 18386809 Query 288949 ATACTTGTTAAAATTTGATTAAGTGTTTGTTCCCTTTCATCATTTGAACCTCTTGAATCA 289008 || || |||| || ||||| || || ||||||||||| || ||| | ||| | Sbjct 18386808 ATTTCAGTCAAAAGCTGGTTAAGAGTCTGCTCCCTTTCATCGTTCCCACCACC--AAT-A 18386752 Query 289009 CCCGAATCGCTCCtttttttACCAACAGCATCAATTTCGTCAATGAAAATCACACACGGA 289068 || | || ||| || | ||||||||||||||||| || | || | | ||| || Sbjct 18386751 CCAGT-TC-CTCTTTGCCGT-CCAACAGCATCAATTTCATCCACAAAGACAATACAGGGG 18386695 Query 289069 GAATTTTGTCTCGCAATTGCAAATAATTCTCTTACACGGGATGCTCCAAGACCAACATAC 289128 | ||| | | || | || | || | || || || || |||| ||||||| || Sbjct 18386694 GCATTCTCCTTGGCCTTCTTGAAGAGATCACGAACTCGAGAGGCGCCAACACCAACAAAC 18386635 Query 289129 ATTTCTACAAATTCAGAAGCGGATACTTGA-ATGAATGTTACATTTGCTTCGCCTGCTAC 289187 ||||| ||||| |||||| | || | | || | ||||| ||| ||||| || || | Sbjct 18386634 ATTTCAACAAACTCAGAACCTGA-AATGGAGAAGAATGGCACACCAGCTTCACCAGCAAT 18386576 Query 289188 TGCCCTCGCCAGAAGTGTCTTACCTGTTCCAGGTGGTCCCTCTAATAGAACTCCCTTTGG 289247 |||| | |||||||| ||||| || |||||||| || || | | ||||| || || || Sbjct 18386575 TGCCTTGGCCAGAAGAGTCTTTCCAGTTCCAGGAGGGCCAACAAGAAGAACACCTTTAGG 18386516 Query 289248 TACTTTTGCCCCAGCAGACTTATATTTCTCAGGGCTCTTTAAAAATTCTACAATTTCCTC 289307 | |||||| | | || || |||| || |||||| || || |||| ||| Sbjct 18386515 GATGCGAGCCCCAACTGCAGTAAATCTCTCTGGCTTCTTTAGGAACTCCACAACCTCCAT 18386456 Query 289308 AAGTTCATATTTTGCCTCATCACATCCTGCTACATCAGCAAAAGT 289352 | || | ||||| |||||| ||| || |||||| |||| || Sbjct 18386455 GAAATCCTGCTTTGCTTCATCAACTCCAGCAACATCATCAAACGT 18386411 >seq4 Length=31929104 Score = 127 bits (140), Expect = 6e-24 Identities = 284/421 (67%), Gaps = 18/421 (4%) Strand=Plus/Plus Query 288938 TAAATCCATCCATACTTGTTAAAATTTGATTAAGTGTTTGTTCCCTTTCATCATTTGAAC 288997 |||| |||||||| |||| | |||||| || ||||| ||||| ||||||||| | Sbjct 15381995 TAAAACCATCCATTTCAGTTAGCAATTGATTTAGAGTTTGCTCCCTCTCATCATTT---C 15382051 Query 288998 CTCTTGAATCACCCGAATC-GCTCCtttttt--tACCAACAGCATCAATTTCGTCAATGA 289054 ||| |||| | | | |||| | | | |||||||||||||| || || |||| Sbjct 15382052 CTC------CACCTATACCAGTTCCTCTCTGCCTTCCAACAGCATCAATCTCATCTATGA 15382105 Query 289055 AAATCACACACGGAGAATTTTGTCTCGCAATTGCAAATAATTCTCTTACACGGGATGCTC 289114 | | || ||||| ||||| | || | ||| | || || || | || |||| Sbjct 15382106 ACACCAAGCACGGTGAATTAGCCTTTGCCTTGTTAAACAGATCCCTAACTCTTGAAGCTC 15382165 Query 289115 CAAGACCAACATACATTTCTACAAATTCAGAAGCGGATACTTGAATGAATGTTACATTTG 289174 | | |||||| |||| |||| || || || | || | | || ||| | || || Sbjct 15382166 CTACTCCAACAAACATCTCTATGAACTCTGATCCAGAAAGTGAAAAGAAAGGAACCCCTG 15382225 Query 289175 CTTCGCCTGCTACTGCCCTCGCCAGAAGTGTCTTACCTGTTCCAGGTGGTCCCTCTAATA 289234 |||| ||||| | |||| | |||| | |||||| || || ||||| ||||| |||| | Sbjct 15382226 CTTCTCCTGCAATTGCCTTTGCCATCAATGTCTTTCCAGTCCCAGGAGGTCCAACTAAAA 15382285 Query 289235 GAACTCCCTTTGGTACTTTTGC-CCCA--GCAGACTTATATTTCTCAGGGCTCTTTAAAA 289291 | ||||| || || | |||||| |||| |||| | | ||||| ||| | ||||| | Sbjct 15382286 GCACTCCTTTAGGAATTTTTGCACCCACCGCAG---CAAACTTCTCTGGGTTTTTTAAGA 15382342 Query 289292 ATTCTACAATTTCCTCAAGTTCATATTTTGCCTCATCACATCCTGCTACATCAGCAAAAG 289351 | || || || || | || || | || || |||||| || || |||||| ||||| Sbjct 15382343 ACTCAACTATCTCTTGAAAATCTTGCTTAGCTTCATCAACACCAGCAACATCATTAAAAG 15382402 Query 289352 T 289352 | Sbjct 15382403 T 15382403 Score = 93.3 bits (102), Expect = 1e-13 Identities = 260/394 (66%), Gaps = 19/394 (5%) Strand=Plus/Plus Query 133250 GATGGTATTGTTCTTGAAAATTTAGGAACACGGTTTATGGGAGAAGTTCAACTGGCCGAA 133309 ||||| || || || |||||| | | ||||| ||| ||||| ||| | ||||| Sbjct 2301645 GATGGCATCGTCCTCGAAAATCTCGCCGTTCGGTTCATGAAGGAAGTCCAAATCGCCGAG 2301704 Query 133310 GCCCGTGCCTTTTATGGGCTACAGATTGCGATGGAAAATATCCATTCTATCA--CATATT 133367 || ||||| || ||||| | || || || || ||||||||||| || | ||| | Sbjct 2301705 GCTCGTGCGTTCTATGGCTTCCAAATCGCCATCGAAAATATCCACTCCGAGATGTATAGT 2301764 Query 133368 CTACTCTAATTGATACTTACATCAAAGATACCGTCCAGAAGCACAAACTATTCAACGCCA 133427 || ||| |||| ||||||||||| || || | | ||| || || ||| ||||| Sbjct 2301765 CTCCTC--CTTGAAACTTACATCAAGGACTCCAACGAAAAGAACCGGCTCTTCCACGCCG 2301822 Query 133428 TTAGCGA---ATTTCCTTGTATTAAAAAGAAATCTGACTGGGCTATTAAATGGATCCAGG 133484 | ||| | | || ||| | |||||| | || ||||| | ||||||||| | Sbjct 2301823 T---CGAAACAGTGCCGTGTGTGGCTAAGAAAGCCGAGTGGGCGTTGAAATGGATC---G 2301876 Query 133485 ACAAGCGTGCG---AGTTTTGCTACTCGTCTCGTTGCTTTTGCTGTAGTAGAGGGCAttt 133541 || || || | ||| || || || | ||||||||| || || || |||| Sbjct 2301877 AC---GGTTCGGAAACTTTCGCCGAACGGCTAATCGCTTTTGCTTGCGTGGAAGGGATTT 2301933 Query 133542 ttttCAGTGGTGCGTTCTGCTCTATTTTTTGGCTTAAAAAGCGTGGTATTCTACCTGGAC 133601 | ||| ||| |||||| |||| |||||| | |||||||| || | | |||||| Sbjct 2301934 TCTTCTCTGGAAGTTTCTGCGCTATATTTTGGTTAAAAAAGCGCGGGTTAATGCCTGGAT 2301993 Query 133602 TGTGTTTTTCTAACGAACTTATTTCAAGGGACGA 133635 | ||| || ||||| | || ||| | || || Sbjct 2301994 TAACTTTCTCGAACGAGTTAATCTCACGAGATGA 2302027 Score = 89.7 bits (98), Expect = 2e-12 Identities = 165/236 (70%), Gaps = 7/236 (3%) Strand=Plus/Plus Query 289030 CCAACAGCATCAATTTCGTCAATGAAAATCACACACGGAGAATTTTGTCTCGCAA--TTG 289087 ||||| ||||||| ||| ||||| || || | |||| | | || || || | ||| Sbjct 22402209 CCAACTGCATCAAGTTCATCAATAAATATAATCGACGGTGCAGATTTCCTTGCCACATTG 22402268 Query 289088 CAAATAATTCTCTTACACGGGATGCTCCAAGACCAACATACATTTCTACAAATTCAGAAG 289147 ||| ||||| | || | |||||| |||||| ||| ||| ||||||||| || Sbjct 22402269 AAAAGG--TCTCTAATTCGAGCTGCTCCTCTTCCAACAAACAATTCAACAAATTCACTAG 22402326 Query 289148 CGGATACT-TGAATGAATGTTACATTTGCTTCGCCTGCTACTGCCCTCGCCAGAAGTGTC 289206 | ||||| |||| || | || ||||| || |||||||| | || || | |||| Sbjct 22402327 CTGATACGCTGAAAAAAGGA-ACTCCCGCTTCTCCAGCTACTGCACGAGCTAGTAATGTC 22402385 Query 289207 TTACCTGTTCCAGGTGGTCCCTCTAATAGAACTCCCTTTGGTACTTTTGC-CCCAG 289261 || |||||||||||||| ||| ||| || || || | || | |||||| ||||| Sbjct 22402386 TTCCCTGTTCCAGGTGGACCCACTAGCAGTACACCTCTAGGCAATTTTGCTCCCAG 22402441 >seq9 Length=38630433 Score = 105 bits (116), Expect = 2e-17 Identities = 273/407 (67%), Gaps = 7/407 (2%) Strand=Plus/Minus Query 288939 AAATCCATCCATACTTGTTAAAATTTGATTAAGTGTTTGTTCCCTTTCATCATTTGAACC 288998 ||| |||||||| | || | ||||||||| || ||| | |||||||| ||||| Sbjct 36191458 AAAGCCATCCATTTCTACTAGCAATTGATTAAGCGTACTTTCACGCTCATCATTAGAACC 36191399 Query 288999 TCTTGAATCACCCGAATCGCTCCtttttttACCAACAGCATCAATTTCGTCAATGAAAAT 289058 | ||| | || | | ||| || | ||||| |||||||| || ||||| || || Sbjct 36191398 TGA-GAAGCCTCC-ACGCCCTC-TTGCTCGACCAATTGCATCAATCTCATCAATAAATAT 36191342 Query 289059 CACACACGGAGAATTTTGTCTCGCAA-TTGCAAATAATTCTCTTACACGGGATGCTCCAA 289117 | | |||| | |||||| || ||| || | ||| || || | ||||| ||||| Sbjct 36191341 TATGCTAGGAGCACATTGTCTTGCTTCTTGGAACAAGTTC-CTCACCCTGGATGGTCCAA 36191283 Query 289118 GACCAACATACATTTCTACAAATTCAGAAGCGGATACTTGAATGAAT-GTTACATTTGCT 289176 ||||||| |||| || | || |||||| | |||| | || ||| | |||| | Sbjct 36191282 CACCAACAAACATCTCCATGAAATCAGAACCTGATA-TAGATAGAAAAGGTACACCCGAC 36191224 Query 289177 TCGCCTGCTACTGCCCTCGCCAGAAGTGTCTTACCTGTTCCAGGTGGTCCCTCTAATAGA 289236 || || || ||| | || || || ||||| ||||| || || || || | || ||| Sbjct 36191223 TCACCAGCAGTTGCTTTTGCTAGGAGGGTCTTTCCTGTACCTGGAGGGCCAACCAAAAGA 36191164 Query 289237 ACTCCCTTTGGTACTTTTGCCCCAGCAGACTTATATTTCTCAGGGCTCTTTAAAAATTCT 289296 | || ||||| | |||||| || || |||||||| ||| |||| | || | Sbjct 36191163 GCACCTTTTGGAATTTTTGCTCCTAGTTCCTCATATTTCTTCGGGTTCTTAAGGAAGTGC 36191104 Query 289297 ACAATTTCCTCAAGTTCATATTTTGCCTCATCACATCCTGCTACATC 289343 |||| ||| | || | ||| ||||||||||| || |||||||| Sbjct 36191103 ACAAACTCCATGATCTCTTGTTTGGCCTCATCACAGCCAGCTACATC 36191057 >seq1 Length=37323695 Score = 93.3 bits (102), Expect = 1e-13 Identities = 104/137 (76%), Gaps = 3/137 (2%) Strand=Plus/Plus Query 301830 GGGAACACCACGGGTTACGTTAGACTTGGACGCAACACCAGCAAAGTGGAAAGTATTCAG 301889 |||||||||| |||| || || ||| || || |||||||| ||||||| || || || Sbjct 517613 GGGAACACCAAGGGTAACATTCT--TTGCACTCA-CACCAGCATAGTGGAAGGTGTTAAG 517669 Query 301890 AGTTAATTGAGTAGTTGGCTCACCAATACTTTGTGCCGCAATCATACCAACCATTTCTCC 301949 ||| | |||||||| ||||||||||| |||||| |||| ||| | ||| || || Sbjct 517670 AGTCATTTGAGTAGCAGGCTCACCAATTGATTGTGCAGCAACACAACCTATCATCTCACC 517729 Query 301950 TGGTGCTACAATAGACT 301966 |||||||| | ||||| Sbjct 517730 AGGTGCTACTAAAGACT 517746 >seq5 Length=39371879 Score = 84.2 bits (92), Expect = 6e-11 Identities = 215/325 (66%), Gaps = 2/325 (1%) Strand=Plus/Minus Query 289020 CCtttttttACCAACAGCATCAATTTCGTCAATGAAAATCACACACGGAGAATTTTGTCT 289079 |||| | |||||| || || || || ||||| || || | || || | ||||| Sbjct 1691784 CCTTGCTCTACCAATTGCGTCTATCTCATCAATAAATATGATACTAGGGGCGCACTGTCT 1691725 Query 289080 CGCAATTGCAAATAATTCTCTTACACGGGATGCTCCAAGACCAACATACATTTCTACAAA 289139 || | |||||| ||| || | || | |||| |||||| ||||||| | ||| Sbjct 1691724 TGCCTCTTGAAATAAGCTTCTCACTCTTGACGGCCCAACTCCAACAAACATTTCCATAAA 1691665 Query 289140 TTCAGAAGCGGATACTTGA-ATGAATGTTACATTTGCTTCGCCTGCTACTGCCCTCGCCA 289198 || || | || | | || | ||| | ||| | |||||| || |||| | || | Sbjct 1691664 ATCTGATCCAGACA-TAGAGAGGAAAGGCACACCAGATTCGCCAGCAGTTGCCTTTGCAA 1691606 Query 289199 GAAGTGTCTTACCTGTTCCAGGTGGTCCCTCTAATAGAACTCCCTTTGGTACTTTTGCCC 289258 |||||||||| || || ||||| || || | | || | || || || | |||||| | Sbjct 1691605 GAAGTGTCTTCCCAGTGCCAGGAGGACCAACAAGAAGTGCACCTTTGGGAATTTTTGCTC 1691546 Query 289259 CAGCAGACTTATATTTCTCAGGGCTCTTTAAAAATTCTACAATTTCCTCAAGTTCATATT 289318 | || |||||||| ||| |||||| || | ||| | ||| || ||| | | Sbjct 1691545 CTAACTCCTCATATTTCTTTGGGTTCTTTAGGAAGTGTACGAACTCCATAATTTCTTGCT 1691486 Query 289319 TTGCCTCATCACATCCTGCTACATC 289343 ||||||||||||| || || ||||| Sbjct 1691485 TTGCCTCATCACAACCAGCAACATC 1691461 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 1471809472347247