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: Brassica_20rapa_20[refseq_20GCF_5F000309985.1_202012-11-07] 40,249 sequences; 284,129,391 total letters Query= NC_025960.1 Length=148981 Score E Sequences producing significant alignments: (Bits) Value seq2 104 2e-17 seq9 102 8e-17 seq6 95.1 1e-14 seq8 86.0 6e-12 seq7 84.2 2e-11 >seq2 Length=27864329 Score = 104 bits (114), Expect = 2e-17 Identities = 341/508 (67%), Gaps = 34/508 (7%) Strand=Plus/Plus Query 46761 CCATGCGTTCGCAAA-AAGGCCCAGTGGGCCATGAAGTGGATCGAGAGCGAGACCGC-CA 46818 || ||||| ||| || |||||||| |||||| ||||||||||||| || | | | Sbjct 22153367 CCTTGCGT-CGCGAAGAAGGCCCAATGGGCCTTGAAGTGGATCGA----TGGATCTCAGA 22153421 Query 46819 CGCTGGCCGAGCGCATGGTGGCATTCGCGATAGTCGAAGGCGTGtttttttCGGGCAGTT 46878 | | || ||| | || ||||| |||||| || ||||| | || || || || || | Sbjct 22153422 CTTTCGCAGAGAGGATCGTGGCCTTCGCGTGCGTGGAAGGGATCTTCTTCTCCGGAAGCT 22153481 Query 46879 TTGCCGCCATTTTTTACATTAA-AACCAAAGGCATAATGCCGGGCCTGACGTTCAGTAAC 46937 | | |||| || | | || || | | ||| | |||||||| || || ||| ||| Sbjct 22153482 TCTGCTCCATCTTCTGGCTCAAGAAGCGAGGGC-TCATGCCGGGGCTCACCTTCTCCAAC 22153540 Query 46938 GAGTTGATCTCGCGCGACGAAGGACTACACACGGACTTTGCGTGTCTCTATTACAAGACG 46997 ||| |||||||||| |||||||| || ||| ||||| ||||| || || | | || Sbjct 22153541 GAGCTGATCTCGCGGGACGAAGGCCTTCACTGCGACTTCGCGTGCCT-GAT--CTATAC- 22153596 Query 46998 CGCGTGAATGA-GAAATTAAACTCGGACACGATCCTGA---GCATGTTTAGGGAGGCGGT 47053 | || | || ||| || ||||| | | ||| || | | || ||||| Sbjct 22153597 CTTGTTGAGGACGAAGCTA---TCGGAGGAGCGCGTGAAGTCGATCGTGTGCGACGCGGT 22153653 Query 47054 GAGCATCGAAAAGGAGTTTTTTACTGCG--GCGCTGCCCGTCGCCTTGCTGGGCATGAAC 47111 | ||||| | ||||||| | |||| ||||| ||| ||| ||| |||| |||||| Sbjct 22153654 GGAGATCGAGAGGGAGTTTGT--GTGCGACGCGCTTCCCTGCGCGTTGGTGGGGATGAAC 22153711 Query 47112 GCACAGTCTATGTGCGAATATATTGAGTTTGTGGCGGATCGTCTGTT-GGTGCAGCTCGG 47170 | | ||| | | ||||||||||||||||||||| | || || ||||| ||| || Sbjct 22153712 CGGGACTTGATGAGTCAGTATATTGAGTTTGTGGCGGATAGGCTTTTGGGTGC-GCTTGG 22153770 Query 47171 ACAACCGAAATATTTTAATGCT----CGTAATCCGTTTGAGTTTATGAACAACATTTCGC 47226 || | || | | | | | || ||||||||||| | ||| | || |||| Sbjct 22153771 -GTACGGGAAGGTGT--ACGGTGTGGCG-AATCCGTTTGATTGGATGGAGTTGATCTCGC 22153826 Query 47227 TCGAGGGCAAAACCAATTTTTTCGAGAA 47254 | |||| ||||| ||||| |||||||| Sbjct 22153827 TTCAGGGTAAAACGAATTTCTTCGAGAA 22153854 >seq9 Length=37155481 Score = 102 bits (112), Expect = 8e-17 Identities = 140/196 (71%), Gaps = 0/196 (0%) Strand=Plus/Plus Query 131928 TTGACTCTTTTTGAATGTTGTAGTCGCTCATGGTACGCGAATCTTCGAGCTGTTTACCGG 131987 ||||||| ||||||||||||||||| | ||||||| |||||| ||||| ||||||| Sbjct 16960960 TTGACTCCTTTTGAATGTTGTAGTCAGCGAGGGTACGCCCATCTTCAAGCTGCTTACCGG 16961019 Query 131988 AATAGATTAGACGCTGTTGATCTGGAGGTATGCCTTCTTTATCGGTAATTTTTTGTTTCA 132047 | |||| | | || ||||| |||| || ||||||||||| ||| || ||| | Sbjct 16961020 CAAAGATCAATCTTTGCTGATCCTGAGGAATACCTTCTTTATCCTGAATCTTGGCTTTAA 16961079 Query 132048 ACTGTTCCACAGTATCGGTCGGCTCCACTTCGACCGTCAGCGTTTTACCAGTCAGAGTTT 132107 | || | ||||| | |||||| || | || | ||| || || ||||| || | Sbjct 16961080 CGTTGTCGATGGTATCAGAGCTCTCCACCTCCAAAGTGATCGTCTTCCCTGTCAGTGTCT 16961139 Query 132108 TTATGAAAATCTGCAT 132123 | | ||| |||||||| Sbjct 16961140 TAACGAAGATCTGCAT 16961155 Score = 100 bits (110), Expect = 3e-16 Identities = 151/215 (70%), Gaps = 0/215 (0%) Strand=Plus/Plus Query 131909 CGCAAAACCAAATGTATGTTTGACTCTTTTTGAATGTTGTAGTCGCTCATGGTACGCGAA 131968 ||||| ||||| || | | ||||| || |||||||| ||||| || |||||| | Sbjct 16960485 CGCAAGACCAAGTGGAGAGTAGACTCCTTCTGAATGTTATAGTCAGCCAAGGTACGACCA 16960544 Query 131969 TCTTCGAGCTGTTTACCGGAATAGATTAGACGCTGTTGATCTGGAGGTATGCCTTCTTTA 132028 || |||||||| || |||| | |||| | |||||| || || ||||| ||||||||||| Sbjct 16960545 TCCTCGAGCTGCTTGCCGGCAAAGATCAAACGCTGCTGGTCCGGAGGAATGCCTTCTTTG 16960604 Query 132029 TCGGTAATTTTTTGTTTCAACTGTTCCACAGTATCGGTCGGCTCCACTTCGACCGTCAGC 132088 || ||||| ||||| | || | || |||| |||||| || | || | Sbjct 16960605 TCTTGGATTTTGGCTTTCACGTTGTCAATGGTGTCGGAACTCTCCACCTCTAGAGTAATG 16960664 Query 132089 GTTTTACCAGTCAGAGTTTTTATGAAAATCTGCAT 132123 || || || ||||| || || | || |||||||| Sbjct 16960665 GTCTTCCCGGTCAGTGTCTTGACAAAGATCTGCAT 16960699 Score = 96.9 bits (106), Expect = 3e-15 Identities = 149/210 (71%), Gaps = 2/210 (1%) Strand=Plus/Plus Query 131915 ACCAAATGTATGTTTGACTCTTTTTGAATGTTGTAGTC-GCTCATGGTACGCGAATCTTC 131973 ||||| || | | | |||||||| || ||||||||||| ||| | ||| || ||| || Sbjct 16960263 ACCAAGTGAAGGGTCGACTCTTTCTGGATGTTGTAGTCAGCT-AGGGTGCGACCATCCTC 16960321 Query 131974 GAGCTGTTTACCGGAATAGATTAGACGCTGTTGATCTGGAGGTATGCCTTCTTTATCGGT 132033 |||||| || |||| | |||| | |||||| || || ||||| ||||||||||| || Sbjct 16960322 GAGCTGCTTGCCGGCAAAGATCAAACGCTGCTGGTCCGGAGGAATGCCTTCTTTGTCTTG 16960381 Query 132034 AATTTTTTGTTTCAACTGTTCCACAGTATCGGTCGGCTCCACTTCGACCGTCAGCGTTTT 132093 ||||| ||||| | || | || |||| |||||| || | || | || || Sbjct 16960382 GATTTTGGCTTTCACGTTGTCAATGGTGTCGGAACTCTCCACCTCTAGAGTAATGGTCTT 16960441 Query 132094 ACCAGTCAGAGTTTTTATGAAAATCTGCAT 132123 || ||||| || || | || |||||||| Sbjct 16960442 CCCGGTCAGTGTCTTGACAAAGATCTGCAT 16960471 Score = 89.7 bits (98), Expect = 5e-13 Identities = 153/222 (69%), Gaps = 0/222 (0%) Strand=Plus/Plus Query 131902 ACGCAAGCGCAAAACCAAATGTATGTTTGACTCTTTTTGAATGTTGTAGTCGCTCATGGT 131961 ||||| || || |||||||| | | ||||| || |||||||||||||| || ||| Sbjct 16984249 ACGCAGACGTAACACCAAATGAAGAGTCGACTCCTTCTGAATGTTGTAGTCAGCCAAGGT 16984308 Query 131962 ACGCGAATCTTCGAGCTGTTTACCGGAATAGATTAGACGCTGTTGATCTGGAGGTATGCC 132021 ||| ||| |||||||| || |||| | |||| | | ||| || |||||||| ||||| Sbjct 16984309 ACGACCATCCTCGAGCTGCTTGCCGGCAAAGATCAACCTCTGCTGGTCTGGAGGAATGCC 16984368 Query 132022 TTCTTTATCGGTAATTTTTTGTTTCAACTGTTCCACAGTATCGGTCGGCTCCACTTCGAC 132081 ||| || || || || || | | || | || |||| |||||| || | Sbjct 16984369 TTCCTTGTCCTGGATCTTAGCCTTAACGTTGTCAATGGTGTCGGAACTCTCCACCTCTAG 16984428 Query 132082 CGTCAGCGTTTTACCAGTCAGAGTTTTTATGAAAATCTGCAT 132123 || | || ||||| || ||||| || | || |||||||| Sbjct 16984429 AGTAATGGTCTTACCGGTAAGAGTCTTGACAAAGATCTGCAT 16984470 Score = 82.4 bits (90), Expect = 7e-11 Identities = 132/190 (69%), Gaps = 0/190 (0%) Strand=Plus/Minus Query 131934 CTTTTTGAATGTTGTAGTCGCTCATGGTACGCGAATCTTCGAGCTGTTTACCGGAATAGA 131993 |||| || ||||||||||| || ||||| ||||||||||||||| || | ||| Sbjct 26352610 CTTTCTGGATGTTGTAGTCAGCCAGAGTACGGCCATCTTCGAGCTGTTTTCCAGCGAAGA 26352551 Query 131994 TTAGACGCTGTTGATCTGGAGGTATGCCTTCTTTATCGGTAATTTTTTGTTTCAACTGTT 132053 | | ||||| ||||| ||||| || |||||||| || || || || | | | Sbjct 26352550 TCAATCGCTGCTGATCCGGAGGGATACCTTCTTTGTCTTGGATCTTGGCCTTGACATTGT 26352491 Query 132054 CCACAGTATCGGTCGGCTCCACTTCGACCGTCAGCGTTTTACCAGTCAGAGTTTTTATGA 132113 | | || |||| | ||| || |||| || | || || || ||||| ||||| | || Sbjct 26352490 CGATGGTGTCGGAGGACTCGACCTCGAGGGTGATGGTCTTCCCGGTCAGGGTTTTCACGA 26352431 Query 132114 AAATCTGCAT 132123 | |||||||| Sbjct 26352430 AGATCTGCAT 26352421 >seq6 Length=26286742 Score = 95.1 bits (104), Expect = 1e-14 Identities = 138/195 (71%), Gaps = 0/195 (0%) Strand=Plus/Minus Query 131930 GACTCTTTTTGAATGTTGTAGTCGCTCATGGTACGCGAATCTTCGAGCTGTTTACCGGAA 131989 ||||| || || ||||||||||| || ||||| ||| || |||||||| || | Sbjct 15796921 GACTCCTTCTGGATGTTGTAGTCCGCCAAAGTACGACCATCCTCAAGCTGTTTGCCAGCG 15796862 Query 131990 TAGATTAGACGCTGTTGATCTGGAGGTATGCCTTCTTTATCGGTAATTTTTTGTTTCAAC 132049 |||| |||||||| || |||||||| |||||||| || || || || |||| Sbjct 15796861 AAGATGAGACGCTGCTGGTCTGGAGGGATGCCTTCCTTGTCTTGGATCTTGGCCTTCACG 15796802 Query 132050 TGTTCCACAGTATCGGTCGGCTCCACTTCGACCGTCAGCGTTTTACCAGTCAGAGTTTTT 132109 | || | ||| |||| |||||| || | ||| | ||| || || |||| || || Sbjct 15796801 TTGTCAATAGTGTCGGAGCTCTCCACCTCAAGCGTGATCGTCTTGCCGGTCAATGTCTTA 15796742 Query 132110 ATGAAAATCTGCATG 132124 | ||||||||||||| Sbjct 15796741 ACGAAAATCTGCATG 15796727 Score = 91.5 bits (100), Expect = 1e-13 Identities = 137/195 (70%), Gaps = 0/195 (0%) Strand=Plus/Minus Query 131930 GACTCTTTTTGAATGTTGTAGTCGCTCATGGTACGCGAATCTTCGAGCTGTTTACCGGAA 131989 ||||| || || |||||||||||| | ||| || ||| |||||||| || || | Sbjct 15797833 GACTCCTTCTGGATGTTGTAGTCGGCTAAGGTGCGACCATCCTCGAGCTGCTTTCCAGCG 15797774 Query 131990 TAGATTAGACGCTGTTGATCTGGAGGTATGCCTTCTTTATCGGTAATTTTTTGTTTCAAC 132049 |||| |||||||| || || ||||| |||||||| || || || || |||| Sbjct 15797773 AAGATGAGACGCTGCTGGTCCGGAGGGATGCCTTCCTTGTCTTGGATCTTGGCCTTCACG 15797714 Query 132050 TGTTCCACAGTATCGGTCGGCTCCACTTCGACCGTCAGCGTTTTACCAGTCAGAGTTTTT 132109 | || | ||| |||| |||||| || | ||| | ||| || || |||| || || Sbjct 15797713 TTGTCAATAGTGTCGGAGCTCTCCACCTCAAGCGTGATCGTCTTGCCGGTCAATGTCTTA 15797654 Query 132110 ATGAAAATCTGCATG 132124 | ||||||||||||| Sbjct 15797653 ACGAAAATCTGCATG 15797639 Score = 91.5 bits (100), Expect = 1e-13 Identities = 340/518 (66%), Gaps = 24/518 (5%) Strand=Plus/Plus Query 46761 CCATGCGTTCGCAAA-AAGGCCCAGTGGGCCATGAAGTGGATCGAGAGCGAGACCGCC-A 46818 || ||||| ||| || |||||||| |||||||||||||||||||| || || | | | Sbjct 22599441 CCTTGCGT-CGCGAAGAAGGCCCAATGGGCCATGAAGTGGATCGA---CG-GATCTCAGA 22599495 Query 46819 CGCTGGCCGAGCGCATGGTGGCATTCGCGATAGTCGAAGGCGTGtttttttCGGGCAGTT 46878 | | |||||| | || ||||| || || || ||||| | || || || || || | Sbjct 22599496 CTTTCGCCGAGAGGATCGTGGCGTTTGCTTGCGTGGAAGGGATCTTCTTCTCCGGAAGCT 22599555 Query 46879 TTGCCGCCATTTTTTACATTAA-AACCAAAGGCATAATGCCGGGCCTGACGTTCAGTAAC 46937 | | |||| || | | || || | | ||| | |||||||| | || ||| ||| Sbjct 22599556 TCTGCTCCATCTTCTGGCTGAAGAAGCGAGGGC-TCATGCCGGGTTTAACCTTCTCCAAC 22599614 Query 46938 GAGTTGATCTCGCGCGACGAAGGACTACACACGGACTTTGCGTGTCTCTATTACAAGACG 46997 ||||||||||| || |||||||| || ||| ||||| || || || || | | || Sbjct 22599615 GAGTTGATCTCTCGAGACGAAGGCCTTCACTGCGACTTCGCCTGCCT-GAT--CTATACT 22599671 Query 46998 CGCGTGAATGAGAAATTAAACTCGGACACGATCCTGA----GCATGTTTAGGGAGGCGGT 47053 | ||| ||| | | |||| | | ||| | ||| | | || ||||| Sbjct 22599672 CTATTGAGGACGAAGCT---CACGGAGGAGCGCGTGAAGTCGATTGTCT-GCGACGCGGT 22599727 Query 47054 GAGCATCGAAAAGGAGTTTTTTACTGCG--GCGCTGCCCGTCGCCTTGCTGGGCATGAAC 47111 | ||||| | ||||||| | |||| ||||| || ||| ||| |||| |||||| Sbjct 22599728 GGAGATCGAGAGGGAGTTTGT--GTGCGACGCGCTTCCGTGCGCGTTGGTGGGGATGAAC 22599785 Query 47112 GCACAGTCTATGTGCGAATATATTGAGTTTGTGGCGGATCGTCTGTTGGTGCAGCTCGGA 47171 | | ||| | | ||||||||||||||||||||| | || |||| ||| || Sbjct 22599786 CGTGATTTGATGAGTCAGTATATTGAGTTTGTGGCGGATAGGCTTTTGGGCGCGCTTGGG 22599845 Query 47172 CAACCGAAATATTTTAATGCTCGTAATCCGTTTGAGTTTATGAACAACATTTCGCTCGAG 47231 | ||| | || ||||||||||| | ||| | |||||||| || Sbjct 22599846 TAGGGGAAGGTGTACGGTGTGGCGAATCCGTTTGATTGGATGGAGTTGATTTCGCTTCAG 22599905 Query 47232 GGCAAAACCAATTTTTTCGAGAAACGAGTCGGAGAGTA 47269 || ||||| || || || ||||| |||| || || || Sbjct 22599906 GGGAAAACGAACTTCTTTGAGAAGAGAGTTGGGGATTA 22599943 Score = 82.4 bits (90), Expect = 7e-11 Identities = 137/198 (69%), Gaps = 0/198 (0%) Strand=Plus/Minus Query 131930 GACTCTTTTTGAATGTTGTAGTCGCTCATGGTACGCGAATCTTCGAGCTGTTTACCGGAA 131989 ||||| || || ||||||||||| || ||||| ||| || |||||||| || | Sbjct 15796693 GACTCCTTCTGGATGTTGTAGTCCGCCAAAGTACGACCATCCTCAAGCTGTTTGCCAGCG 15796634 Query 131990 TAGATTAGACGCTGTTGATCTGGAGGTATGCCTTCTTTATCGGTAATTTTTTGTTTCAAC 132049 |||| || | ||| || |||||||| || || ||||| || ||||| ||||| Sbjct 15796633 AAGATCAGCCTCTGCTGGTCTGGAGGAATACCCTCTTTGTCCTGGATTTTGGCTTTCACG 15796574 Query 132050 TGTTCCACAGTATCGGTCGGCTCCACTTCGACCGTCAGCGTTTTACCAGTCAGAGTTTTT 132109 | || | || |||| |||||| || | ||| | ||| || || || | ||| || Sbjct 15796573 TTGTCAATGGTGTCGGAACTCTCCACCTCTAGCGTGATCGTCTTTCCTGTTAAAGTCTTC 15796514 Query 132110 ATGAAAATCTGCATGACT 132127 | ||| ||||||||| || Sbjct 15796513 ACGAAGATCTGCATGCCT 15796496 >seq8 Length=21613650 Score = 86.0 bits (94), Expect = 6e-12 Identities = 92/122 (75%), Gaps = 0/122 (0%) Strand=Plus/Minus Query 131909 CGCAAAACCAAATGTATGTTTGACTCTTTTTGAATGTTGTAGTCGCTCATGGTACGCGAA 131968 ||||| ||||| || | | | ||||| |||||||||||||||||| | ||| || | Sbjct 12585462 CGCAACACCAAGTGAAGGGTCGACTCCTTTTGAATGTTGTAGTCGGCAAGGGTGCGACCA 12585403 Query 131969 TCTTCGAGCTGTTTACCGGAATAGATTAGACGCTGTTGATCTGGAGGTATGCCTTCTTTA 132028 || || ||||| || || | |||| |||||||| || |||||||| ||| |||| || Sbjct 12585402 TCCTCAAGCTGCTTTCCAGCGAAGATGAGACGCTGCTGGTCTGGAGGGATGTCTTCCTTG 12585343 Query 132029 TC 132030 || Sbjct 12585342 TC 12585341 >seq7 Length=22597724 Score = 84.2 bits (92), Expect = 2e-11 Identities = 135/194 (70%), Gaps = 0/194 (0%) Strand=Plus/Minus Query 131930 GACTCTTTTTGAATGTTGTAGTCGCTCATGGTACGCGAATCTTCGAGCTGTTTACCGGAA 131989 ||||| || || |||||||||||| | |||||| |||||||||||||| |||| Sbjct 13483594 GACTCCTTCTGGATGTTGTAGTCGGCGAGGGTACGGCCGTCTTCGAGCTGTTTCCCGGCG 13483535 Query 131990 TAGATTAGACGCTGTTGATCTGGAGGTATGCCTTCTTTATCGGTAATTTTTTGTTTCAAC 132049 |||| || ||||| || || ||||| |||||||| || || || || || | Sbjct 13483534 AAGATGAGTCGCTGCTGGTCCGGAGGGATGCCTTCCTTGTCCTGGATCTTGGCCTTGACG 13483475 Query 132050 TGTTCCACAGTATCGGTCGGCTCCACTTCGACCGTCAGCGTTTTACCAGTCAGAGTTTTT 132109 | || | || |||| | ||| || |||| || | || || || || || ||||| Sbjct 13483474 TTGTCGATGGTGTCGGAGGACTCGACCTCGAGGGTGATGGTCTTCCCCGTGAGGGTTTTC 13483415 Query 132110 ATGAAAATCTGCAT 132123 | ||| |||||||| Sbjct 13483414 ACGAAGATCTGCAT 13483401 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 476371410947640