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: Capsella_20rubella_20[refseq_20GCF_5F000375325.1_202013-04-23] 773 sequences; 133,063,876 total letters Query= NC_002593.1 Length=100999 Score E Sequences producing significant alignments: (Bits) Value seq5 116 2e-21 seq6 109 4e-19 seq4 86.0 4e-12 seq1 86.0 4e-12 >seq5 Length=13709650 Score = 116 bits (128), Expect = 2e-21 Identities = 158/215 (73%), Gaps = 4/215 (2%) Strand=Plus/Minus Query 34178 AGCACCAGGTGTAAAGTACTTTCTTTCTGTATGTTGTAGTCGGACAGCTGACGGTCGTCG 34237 |||||||| || | || ||| ||||| ||||||||||||| ||| ||| |||| Sbjct 13270583 AGCACCAGATGAAGCGTCGATTCCTTCTGGATGTTGTAGTCGGCCAGAGTGCGGCCGTCT 13270524 Query 34238 TCCAACTGCTTGCCTGCGAAAATGAGCCGCTGCTGGTC-GACGGGCACGCTCTCCTTGTC 34296 |||| |||||| || ||||| || | |||||||||||| | ||| | || |||||||| Sbjct 13270523 TCCAGCTGCTTCCCGGCGAATATCAACCGCTGCTGGTCCGGTGGGATCCCT-TCCTTGTC 13270465 Query 34297 GGCTATCTTTTGCTTT-AGATCGGCTATCGAATCGGTCGATTCGACGTCCACCGTGATGG 34355 ||||| ||||| | || | | |||| || | ||| || || || | || |||| Sbjct 13270464 TTGGATCTTC-GCTTTCACATTGTCGATCGTGTCTGACGACTCCACCTCTAGGGTTATGG 13270406 Query 34356 TTTTGCCGGTGAGAGTTTTCACAAAGATCTGCATC 34390 | || || || || |||||||| |||||||||||| Sbjct 13270405 TCTTCCCCGTTAGGGTTTTCACGAAGATCTGCATC 13270371 >seq6 Length=16577294 Score = 109 bits (120), Expect = 4e-19 Identities = 161/228 (71%), Gaps = 0/228 (0%) Strand=Plus/Minus Query 34163 CCGCCGCGCAGCCTCAGCACCAGGTGTAAAGTACTTTCTTTCTGTATGTTGTAGTCGGAC 34222 || || || ||||| || |||| ||| | || ||| ||||| ||||||||||| | | Sbjct 14990155 CCACCACGGAGCCTGAGGACCAAGTGGAGGGTGGATTCCTTCTGGATGTTGTAGTCAGCC 14990096 Query 34223 AGCTGACGGTCGTCGTCCAACTGCTTGCCTGCGAAAATGAGCCGCTGCTGGTCGACGGGC 34282 | |||| | || ||||||||||| || ||||| || |||| |||||| || ||| Sbjct 14990095 AAGGTACGGCCATCCTCCAACTGCTTTCCGGCGAAGATAAGCCTCTGCTGATCCGGGGGA 14990036 Query 34283 ACGCTCTCCTTGTCGGCTATCTTTTGCTTTAGATCGGCTATCGAATCGGTCGATTCGACG 34342 | || ||||||||| ||||| ||| | | | | || | || | ||| || Sbjct 14990035 ATGCCCTCCTTGTCCTGGATCTTGGCCTTAACGTTGTCGATTGTGTCAGAGCTTTCCACC 14989976 Query 34343 TCCACCGTGATGGTTTTGCCGGTGAGAGTTTTCACAAAGATCTGCATC 34390 || | ||||| || || ||||||||||| || || |||||||||||| Sbjct 14989975 TCGAGGGTGATAGTCTTTCCGGTGAGAGTCTTAACGAAGATCTGCATC 14989928 Score = 93.3 bits (102), Expect = 3e-14 Identities = 135/191 (71%), Gaps = 0/191 (0%) Strand=Plus/Minus Query 34199 TCTTTCTGTATGTTGTAGTCGGACAGCTGACGGTCGTCGTCCAACTGCTTGCCTGCGAAA 34258 || ||||| ||||||||||||| || ||| | || ||||||||||| || || || Sbjct 14990803 TCCTTCTGGATGTTGTAGTCGGCCAAGGTACGACCATCCTCCAACTGCTTTCCGGCAAAG 14990744 Query 34259 ATGAGCCGCTGCTGGTCGACGGGCACGCTCTCCTTGTCGGCTATCTTTTGCTTTAGATCG 34318 || | || ||||||||| || | | ||| ||||| ||||| ||| | | | Sbjct 14990743 ATCAACCTCTGCTGGTCCGGTGGGATACCCTCTTTGTCCTGGATCTTGGCCTTCACGTTG 14990684 Query 34319 GCTATCGAATCGGTCGATTCGACGTCCACCGTGATGGTTTTGCCGGTGAGAGTTTTCACA 34378 | || | || | ||| || |||| ||||| || || ||||||||||||||||| Sbjct 14990683 TCGATGGTGTCCGAGCTTTCAACTTCCAAGGTGATTGTCTTTCCGGTGAGAGTTTTCACG 14990624 Query 34379 AAGATCTGCAT 34389 ||||||||||| Sbjct 14990623 AAGATCTGCAT 14990613 Score = 91.5 bits (100), Expect = 1e-13 Identities = 138/193 (72%), Gaps = 4/193 (2%) Strand=Plus/Plus Query 34199 TCTTTCTGTATGTTGTAGTCGGACAGCTGACGGTCGTCGTCCAACTGCTTGCCTGCGAAA 34258 |||||||| ||||||||||| | || |||| | || || | |||||| || || || Sbjct 735373 TCTTTCTGGATGTTGTAGTCAGCTAGTGTACGGCCATCCTCTAGCTGCTTACCGGCAAAG 735432 Query 34259 ATGAGCCGCTGCTGGTC--GACGGGCACGCTCTCCTTGTCGGCTATCTTTTGCTTTAGAT 34316 || |||| ||| ||||| || || || || |||||||| |||||| ||| | | Sbjct 735433 ATAAGCCTCTGTTGGTCCGGAGGGATAC-CT-TCCTTGTCCTGGATCTTTGCCTTGACGT 735490 Query 34317 CGGCTATCGAATCGGTCGATTCGACGTCCACCGTGATGGTTTTGCCGGTGAGAGTTTTCA 34376 | | || | || | || || || | |||||||| |||||||||||||| || | Sbjct 735491 TGTCGATAGTGTCAGAGCTCTCAACCTCGAGGGTGATGGTCTTGCCGGTGAGAGTCTTGA 735550 Query 34377 CAAAGATCTGCAT 34389 ||||||||||||| Sbjct 735551 CAAAGATCTGCAT 735563 Score = 86.0 bits (94), Expect = 4e-12 Identities = 159/230 (69%), Gaps = 4/230 (2%) Strand=Plus/Plus Query 34163 CCGCCGCGCAGCCTCAGCACCAGGTGTAAAGTACTTTCTTTCTGTATGTTGTAGTCGGAC 34222 || || || ||||| || |||| ||| | || ||| ||||| ||||||||||| | | Sbjct 2563522 CCACCACGAAGCCTGAGGACCAAGTGGAGGGTGGATTCCTTCTGAATGTTGTAGTCAGCC 2563581 Query 34223 AGCTGACGGTCGTCGTCCAACTGCTTGCCTGCGAAAATGAGCCGCTGCTGGTC--GACGG 34280 | |||| | || || | |||||| || || || || |||| ||||| || || || Sbjct 2563582 AAGGTACGGCCATCTTCGAGCTGCTTTCCGGCAAAGATAAGCCTTTGCTGATCCGGAGGG 2563641 Query 34281 GCACGCTCTCCTTGTCGGCTATCTTTTGCTTTAGATCGGCTATCGAATCGGTCGATTCGA 34340 || || |||||||| ||||| ||| | | | | || | || | ||| | Sbjct 2563642 ATAC-CT-TCCTTGTCCTGGATCTTGGCCTTAACGTTGTCGATTGTGTCAGAGCTTTCCA 2563699 Query 34341 CGTCCACCGTGATGGTTTTGCCGGTGAGAGTTTTCACAAAGATCTGCATC 34390 | || | ||||| || || ||||||||||| || ||||||||||||||| Sbjct 2563700 CCTCGAGGGTGATAGTCTTCCCGGTGAGAGTCTTAACAAAGATCTGCATC 2563749 Score = 82.4 bits (90), Expect = 5e-11 Identities = 156/230 (68%), Gaps = 0/230 (0%) Strand=Plus/Plus Query 34160 AATCCGCCGCGCAGCCTCAGCACCAGGTGTAAAGTACTTTCTTTCTGTATGTTGTAGTCG 34219 || || || || || | || |||| ||| | || ||| ||||| ||||||||||| Sbjct 2562607 AAACCACCACGGAGACGGAGGACCAAGTGAAGGGTCGATTCCTTCTGAATGTTGTAGTCT 2562666 Query 34220 GACAGCTGACGGTCGTCGTCCAACTGCTTGCCTGCGAAAATGAGCCGCTGCTGGTCGACG 34279 | ||| || |||| || | |||||| || ||||| ||||| ||||||||||| Sbjct 2562667 GCCAGTGTGCGACCGTCCTCAAGCTGCTTTCCAGCGAAGATGAGACGCTGCTGGTCCGGA 2562726 Query 34280 GGCACGCTCTCCTTGTCGGCTATCTTTTGCTTTAGATCGGCTATCGAATCGGTCGATTCG 34339 || | || ||||| || ||||| ||| | | | | || | |||| || Sbjct 2562727 GGGATGCCTTCCTTATCCTGGATCTTGGCCTTCACGTTGTCAATGGTGTCGGAGCTCTCA 2562786 Query 34340 ACGTCCACCGTGATGGTTTTGCCGGTGAGAGTTTTCACAAAGATCTGCAT 34389 || || | |||||||| || ||||| | || |||||||| |||||||| Sbjct 2562787 ACCTCAAGGGTGATGGTCTTCCCGGTCAACGTCTTCACAAAAATCTGCAT 2562836 >seq4 Length=14994381 Score = 86.0 bits (94), Expect = 4e-12 Identities = 140/197 (71%), Gaps = 10/197 (5%) Strand=Plus/Minus Query 34199 TCTTTCTGTATGTTGTAGTCGGACAGCTGACGGTCGTC-GTCC---AACTGCTTGCCTGC 34254 || ||||| ||||||||||||| || | | ||||| |||| | |||||| || || Sbjct 14616788 TCCTTCTGGATGTTGTAGTCGG----CTAAGGTTCGTCCGTCCTCGAGCTGCTTTCCGGC 14616733 Query 34255 GAAAATGAGCCGCTGCTGGTC-GACGGGCACGCTCTCCTTGTCGGCTATCTTTTGCTTTA 34313 |||||| | ||||||||||| | |||| || |||||||| ||||| ||| | Sbjct 14616732 GAAAATCAATCGCTGCTGGTCCGGCGGGATTCCT-TCCTTGTCCTGGATCTTGGCCTTCA 14616674 Query 34314 GATCGGCTATCGAATCGGTCGATTCGACGTCCACCGTGATGGTTTTGCCGGTGAGAGTTT 34373 || | | || | || | || || || || | ||||| || || || || || |||| Sbjct 14616673 CATTGTCGATGGTGTCAGATGACTCTACCTCGAGGGTGATCGTCTTCCCCGTTAGGGTTT 14616614 Query 34374 TCACAAAGATCTGCATC 34390 |||| |||||||||||| Sbjct 14616613 TCACGAAGATCTGCATC 14616597 >seq1 Length=19566579 Score = 86.0 bits (94), Expect = 4e-12 Identities = 138/193 (72%), Gaps = 4/193 (2%) Strand=Plus/Minus Query 34199 TCTTTCTGTATGTTGTAGTCGGACAGCTGACGGTCGTCGTCCAACTGCTTGCCTGCGAAA 34258 |||||||| ||||||||||||| || | |||| |||| ||| || || ||||| Sbjct 8289936 TCTTTCTGGATGTTGTAGTCGGCGAGTGTTCTCCCGTCTTCCAGCTGTTTCCCGGCGAAG 8289877 Query 34259 ATGAGCCGCTGCTGGTC-GACGGGCACGCTCTCCTTGTCGGCTATCTTTTGCTTT-AGAT 34316 || || ||||||||||| | ||| | || |||||||| ||||| ||||| | || Sbjct 8289876 ATCAGACGCTGCTGGTCCGGTGGGATCCCT-TCCTTGTCTTGGATCTTC-GCTTTCACAT 8289819 Query 34317 CGGCTATCGAATCGGTCGATTCGACGTCCACCGTGATGGTTTTGCCGGTGAGAGTTTTCA 34376 | | |||| || | || || || || | || || || || || || | ||||||| Sbjct 8289818 TGTCGATCGTGTCTGATGACTCTACCTCTAGGGTTATTGTCTTCCCCGTTAAGGTTTTCA 8289759 Query 34377 CAAAGATCTGCAT 34389 ||||||||||||| Sbjct 8289758 CAAAGATCTGCAT 8289746 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 323068956358880