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: Raphanus_20raphanistrum_20subsp._20raphanistrum_20[genbank_20GCA_5F0 00769845.1_202014-10-28] 64,732 sequences; 253,833,977 total letters Query= NC_005839.2 Length=131680 Score E Sequences producing significant alignments: (Bits) Value seq4396 109 5e-19 seq964 105 6e-18 seq20570 98.7 8e-16 seq1703 95.1 1e-14 seq24793 91.5 1e-13 seq14782 91.5 1e-13 seq12662 91.5 1e-13 seq25552 86.0 5e-12 seq11485 86.0 5e-12 >seq4396 Length=13502 Score = 109 bits (120), Expect = 5e-19 Identities = 162/230 (70%), Gaps = 0/230 (0%) Strand=Plus/Minus Query 48497 AAACCTCCGCGCAACCTTAACACTAAATGAAGTGTGCTCTCCTTTTGAATGTTGTAATCA 48556 ||||| || |||| | |||||| || ||||| || ||| || ||||||||||||||| Sbjct 12720 AAACCACCACGCAGACGTAACACCAAGTGAAGGGTTGACTCTTTCTGAATGTTGTAATCA 12661 Query 48557 GCCAATTGTCGCTCGTCCTCCAGCTGCTTACCGCCGTAAATTAAACGCTGCTGATCCACC 48616 ||||| || | ||||| |||||||| || || | || | ||||||||| ||| Sbjct 12660 GCCAAGGTGCGACCATCCTCAAGCTGCTTGCCAGCGAAGATGAGACGCTGCTGGTCCGGT 12601 Query 48617 GGCACACTTTCCTTGTCCATAATTTTCTGCTTGATAGACGCTATGGTATCGGTAGACTCC 48676 || | | ||||||||| ||| || ||||| | ||||| |||| |||| Sbjct 12600 GGGATCCCCTCCTTGTCCTGAATCTTGGCCTTGACGTTGTCAATGGTGTCGGAGCTCTCC 12541 Query 48677 GTCTCGACTGTTATGGTTTTACCGGTGAGAGTTTTCACAAAAATCTGCAT 48726 ||| | || || || || ||||| || || || |||||||||||||| Sbjct 12540 ACCTCCAAAGTGATAGTCTTCCCGGTCAGTGTCTTAACAAAAATCTGCAT 12491 >seq964 Length=27231 Score = 105 bits (116), Expect = 6e-18 Identities = 165/231 (71%), Gaps = 4/231 (2%) Strand=Plus/Minus Query 48499 ACCTCCGCGCAACCTTAACACTAAATGAAGTGTGCTCTCCTTTTGAATGTTGTAATCAGC 48558 ||| || | |||||| | || | ||| || || |||||| || || |||||||| || Sbjct 9720 ACCACCTCTCAACCTGAGAACGAGATGGAGAGTCGACTCCTTCTGGATATTGTAATCGGC 9661 Query 48559 CAATTGTCGCTCGTCCTCCAGCTGCTTACCGCCGTAAATTAAACGCTGCTGATCCACCGG 48618 ||| || | ||||| ||||| |||||| || | || | | |||||| ||| || Sbjct 9660 CAAGGTACGTCCATCCTCGAGCTGTTTACCGGCGAAGATGAGCCTCTGCTGGTCCGGAGG 9601 Query 48619 CACACTTTCCTTGTCCATAATTTTCTGCTTGATAGACGCTATGGTATCGGTAGACTC-CG 48677 | || |||||||||| || || ||||| | |||||||||| || ||| || Sbjct 9600 AATACCTTCCTTGTCCTGGATCTTAGCCTTGACGTTATCGATGGTATCGG-AG-CTCTCG 9543 Query 48678 TCT-CGACTGTTATGGTTTTACCGGTGAGAGTTTTCACAAAAATCTGCATC 48727 || ||| || ||||| || ||||||||||||||||| ||||| |||||| Sbjct 9542 ACTTCGAGAGTGATGGTCTTGCCGGTGAGAGTTTTCACGAAAATTTGCATC 9492 >seq20570 Length=3172 Score = 98.7 bits (108), Expect = 8e-16 Identities = 152/215 (71%), Gaps = 4/215 (2%) Strand=Plus/Plus Query 48515 AACACTAAATGAAGTGTGCTCTCCTTTTGAATGTTGTAATCAGCCAATTGTCGCTCGTCC 48574 ||||| || ||||| || |||||| || |||||||| |||||||| || | ||||| Sbjct 307 AACACCAAGTGAAGGGTAGACTCCTTCTGGATGTTGTAGTCAGCCAAGGTTCTCCCGTCC 366 Query 48575 TCCAGCTGCTTACCGCCGTAAATTAAACGCTGCTGATCCACCGGCACACTTTCCTTGTCC 48634 |||| |||||| || || | || | | |||||||||| || | | |||||||||| Sbjct 367 TCCAACTGCTTTCCTGCGAAGATAAGCCTCTGCTGATCCGGAGGAATCCCTTCCTTGTCC 426 Query 48635 ATAATTTTCTGCTTGA--TAGACGCTATGGTATCGGTAGACTCCGTCTCGACTGTTATGG 48692 || || ||| | | | || ||||| || | ||| ||||| || || | Sbjct 427 TGGATCTTGGCCTTAACGTTGTCG--ATGGTGTCAGAGCTTTCCACCTCGAGGGTGATTG 484 Query 48693 TTTTACCGGTGAGAGTTTTCACAAAAATCTGCATC 48727 | || || |||||||||||||| || ||||||||| Sbjct 485 TCTTTCCTGTGAGAGTTTTCACGAAGATCTGCATC 519 >seq1703 Length=21771 Score = 95.1 bits (104), Expect = 1e-14 Identities = 151/214 (71%), Gaps = 2/214 (1%) Strand=Plus/Plus Query 48515 AACACTAAATGAAGTGTGCTCTCCTTTTGAATGTTGTAATCAGCCAATTGTCGCTCGTCC 48574 || || || ||||| || |||||| || || |||||||| ||||| || | ||| Sbjct 18839 AAGACCAAGTGAAGCGTAGACTCCTTCTGGATATTGTAATCGGCCAAGGTGCGACCATCC 18898 Query 48575 TCCAGCTGCTTACCGCCGTAAATTAAACGCTGCTGATCCACCGGCACACTTTCCTTGTCC 48634 || |||||||| ||| || | || | ||||||||||||| || | | |||||||||| Sbjct 18899 TCGAGCTGCTTTCCGGCGAAGATGAGACGCTGCTGATCCGGAGGGATCCCTTCCTTGTCC 18958 Query 48635 ATAATTTTCTGCTTGATAGACG-CTATGGTATCGGTAGACTCCGTCTCGACTGTTATGGT 48693 || || |||| | | | ||||| |||| ||| ||||| || || || Sbjct 18959 TGGATCTT-GGCTTTCACGTTGTCGATGGTGTCGGAGCTTTCCACCTCGAGGGTGATTGT 19017 Query 48694 TTTACCGGTGAGAGTTTTCACAAAAATCTGCATC 48727 || ||||||||||||||||| || || |||||| Sbjct 19018 CTTCCCGGTGAGAGTTTTCACGAAGATTTGCATC 19051 >seq24793 Length=2311 Score = 91.5 bits (100), Expect = 1e-13 Identities = 162/231 (70%), Gaps = 4/231 (2%) Strand=Plus/Plus Query 48499 ACCTCCGCGCAACCTTAACACTAAATGAAGTGTGCTCTCCTTTTGAATGTTGTAATCAGC 48558 ||| || || | ||| | || | |||||| || |||||| || |||||||||||||| Sbjct 1614 ACCACCACGGAGCCTGAGAACAAGATGAAGGGTCGACTCCTTCTGGATGTTGTAATCAGC 1673 Query 48559 CA-ATTGTCGCTCGTCCTCCAGCTGCTTACCGCCGTAAATTAAACGCTGCTGATCCACCG 48617 | | | || ||||||| |||||||| ||| || | || | | |||||||||| | Sbjct 1674 GAGAGTCCTGC-CGTCCTCGAGCTGCTTTCCGGCGAAGATAAGCCTCTGCTGATCCGGGG 1732 Query 48618 GCACACTTTCCTTGTCCATAATTTTCTGCTTGATAGACG-CTATGGTATCGGTAGACTCC 48676 | | | ||||||||| ||| || |||| | | | | ||||| || | ||| Sbjct 1733 GAATGCCCTCCTTGTCCTGAATCTTG-GCTTTAACGTTGTCGATGGTGTCTGAGCTTTCC 1791 Query 48677 GTCTCGACTGTTATGGTTTTACCGGTGAGAGTTTTCACAAAAATCTGCATC 48727 ||||| || || || || || |||||||| || ||||||||||||||| Sbjct 1792 ACCTCGAGGGTGATTGTCTTTCCCGTGAGAGTCTTAACAAAAATCTGCATC 1842 >seq14782 Length=4961 Score = 91.5 bits (100), Expect = 1e-13 Identities = 144/204 (71%), Gaps = 2/204 (1%) Strand=Plus/Plus Query 48524 TGAAGTGTGCTCTCCTTTTGAATGTTGTAATCAGCCAATTGTCGCTC-GTCCTCCAGCTG 48582 ||||| || |||||| || ||||||||||| || | ||| || ||| |||||||| Sbjct 1993 TGAAGAGTCGACTCCTTCTGGATGTTGTAATCCGCGAGG-GTCCTTCCGTCTTCCAGCTG 2051 Query 48583 CTTACCGCCGTAAATTAAACGCTGCTGATCCACCGGCACACTTTCCTTGTCCATAATTTT 48642 ||| ||| || | || | ||||||||| ||| || | | |||||||||| ||| || Sbjct 2052 CTTCCCGGCGAAGATCAGACGCTGCTGGTCCGGTGGGATCCCTTCCTTGTCCTGAATCTT 2111 Query 48643 CTGCTTGATAGACGCTATGGTATCGGTAGACTCCGTCTCGACTGTTATGGTTTTACCGGT 48702 ||||| | | || || |||| || || ||| | ||||| || || || || Sbjct 2112 GGCCTTGACATTGTCGATCGTGTCGGATGATTCGACCTCTAGGGTTATCGTCTTCCCCGT 2171 Query 48703 GAGAGTTTTCACAAAAATCTGCAT 48726 || |||||||| || |||||||| Sbjct 2172 TAGGGTTTTCACGAAGATCTGCAT 2195 >seq12662 Length=5898 Score = 91.5 bits (100), Expect = 1e-13 Identities = 162/231 (70%), Gaps = 4/231 (2%) Strand=Plus/Minus Query 48499 ACCTCCGCGCAACCTTAACACTAAATGAAGTGTGCTCTCCTTTTGAATGTTGTAATCAGC 48558 ||| || || | ||| | || | |||||| || |||||| || |||||||||||||| Sbjct 3488 ACCACCACGGAGCCTGAGAACAAGATGAAGGGTCGACTCCTTCTGGATGTTGTAATCAGC 3429 Query 48559 CA-ATTGTCGCTCGTCCTCCAGCTGCTTACCGCCGTAAATTAAACGCTGCTGATCCACCG 48617 | | | || ||||||| |||||||| ||| || | || | | |||||||||| | Sbjct 3428 GAGAGTCCTGC-CGTCCTCGAGCTGCTTTCCGGCGAAGATAAGCCTCTGCTGATCCGGGG 3370 Query 48618 GCACACTTTCCTTGTCCATAATTTTCTGCTTGATAGACG-CTATGGTATCGGTAGACTCC 48676 | | | ||||||||| ||| || |||| | | | | ||||| || | ||| Sbjct 3369 GAATGCCCTCCTTGTCCTGAATCTTG-GCTTTAACGTTGTCGATGGTGTCTGAGCTTTCC 3311 Query 48677 GTCTCGACTGTTATGGTTTTACCGGTGAGAGTTTTCACAAAAATCTGCATC 48727 ||||| || || || || || |||||||| || ||||||||||||||| Sbjct 3310 ACCTCGAGGGTGATTGTCTTTCCCGTGAGAGTCTTAACAAAAATCTGCATC 3260 >seq25552 Length=2169 Score = 86.0 bits (94), Expect = 5e-12 Identities = 135/192 (70%), Gaps = 1/192 (1%) Strand=Plus/Minus Query 48537 CCTTT-TGAATGTTGTAATCAGCCAATTGTCGCTCGTCCTCCAGCTGCTTACCGCCGTAA 48595 ||||| || |||||||| |||||||| || | || || ||||| |||||| || | Sbjct 435 CCTTTCTGGATGTTGTAGTCAGCCAAAGTACGGCCATCTTCGAGCTGTTTACCGGCGAAG 376 Query 48596 ATTAAACGCTGCTGATCCACCGGCACACTTTCCTTGTCCATAATTTTCTGCTTGATAGAC 48655 || | ||||||||||||| || | || ||| ||||| || || |||| | Sbjct 375 ATCAGACGCTGCTGATCCGGAGGGATACCTTCTTTGTCTTGGATCTTGGCTTTGACATTG 316 Query 48656 GCTATGGTATCGGTAGACTCCGTCTCGACTGTTATGGTTTTACCGGTGAGAGTTTTCACA 48715 | ||||| |||| ||||| |||| || ||||| || || || || |||||||| Sbjct 315 TCGATGGTGTCGGAGGACTCGACTTCGAGAGTGATGGTCTTGCCCGTTAGGGTTTTCACG 256 Query 48716 AAAATCTGCATC 48727 || ||||||||| Sbjct 255 AAGATCTGCATC 244 >seq11485 Length=6519 Score = 86.0 bits (94), Expect = 5e-12 Identities = 148/212 (70%), Gaps = 6/212 (3%) Strand=Plus/Minus Query 48518 ACTAAATGAAGTGTGCTCTCCTTTTGAATGTTGTAATCAGCCAATTGTCGCTCGTCCTCC 48577 || || ||||| || |||||| || ||||||||||||||||| || | ||||| Sbjct 5142 ACCAAGTGAAGAGTAGACTCCTTCTGGATGTTGTAATCAGCCAAAGTCCGACCATCCTCG 5083 Query 48578 AGCTGCTTACCGCCGTAAATTAAACGCTGCTGATCCACCGGCACACTTTCCTTGTCCATA 48637 ||||| || || || | || | | |||||| ||| || | | |||||||||| | Sbjct 5082 AGCTGTTTCCCAGCGAAGATGAGTCTCTGCTGGTCCGGAGGGATGCCTTCCTTGTCCTGA 5023 Query 48638 ATTTTCTGCTT---GATAGACGCTATGGTATCGGTAGACTCCGTCTCGACTGTTATGGTT 48694 || ||| |||| || | || || || || | |||| || | || |||||| Sbjct 5022 ATCTTC-GCTTTCACATTGTCG--ATCGTGTCAGAGCTCTCCACTTCAAGGGTAATGGTT 4966 Query 48695 TTACCGGTGAGAGTTTTCACAAAAATCTGCAT 48726 ||||||||||| || || || ||||||||||| Sbjct 4965 TTACCGGTGAGTGTCTTGACGAAAATCTGCAT 4934 Score = 82.4 bits (90), Expect = 6e-11 Identities = 134/193 (69%), Gaps = 0/193 (0%) Strand=Plus/Minus Query 48535 CTCCTTTTGAATGTTGTAATCAGCCAATTGTCGCTCGTCCTCCAGCTGCTTACCGCCGTA 48594 |||||| || ||||||||||| |||| || |||| || |||||||| || || | Sbjct 4669 CTCCTTCTGGATGTTGTAATCGGCCAGGGTGCGTCCGTCTTCTAGCTGCTTCCCAGCGAA 4610 Query 48595 AATTAAACGCTGCTGATCCACCGGCACACTTTCCTTGTCCATAATTTTCTGCTTGATAGA 48654 || | | |||||| || || | | |||||||||| || || ||||| | Sbjct 4609 GATGAGCCTCTGCTGGTCGGGAGGGATGCCTTCCTTGTCCTGGATCTTTGCCTTGACATT 4550 Query 48655 CGCTATGGTATCGGTAGACTCCGTCTCGACTGTTATGGTTTTACCGGTGAGAGTTTTCAC 48714 |||| || |||| ||| ||||| || ||||| || |||||||| |||||||| Sbjct 4549 GTCTATAGTGTCGGAGCTCTCGACCTCGAGAGTGATGGTCTTGCCGGTGAGTGTTTTCAC 4490 Query 48715 AAAAATCTGCATC 48727 ||||| |||||| Sbjct 4489 GAAAATTTGCATC 4477 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 420918865976732