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_021312.1 Length=459984 Score E Sequences producing significant alignments: (Bits) Value seq1 125 2e-23 seq8 118 3e-21 seq6 111 5e-19 seq4 98.7 3e-15 seq5 95.1 4e-14 >seq1 Length=19566579 Score = 125 bits (138), Expect = 2e-23 Identities = 313/469 (67%), Gaps = 16/469 (3%) Strand=Plus/Plus Query 288889 ATATCGGCTCTGTTTGTTGCTGCCAATACAACAATAGATTCGGTTTGCTTAAATCCATCC 288948 || || |||||||| ||||| || | ||||| || | | | || ||| |||||| Sbjct 2023605 ATGTCTGCTCTGTTGGTTGCAGCAACTACAATAACACCAGTGTTACCCTCAAAACCATCC 2023664 Query 288949 ATACTTGTTAAAATTTGATTAAGTGTTTGTTCCCTTTCATCATTTGAACCTCTTGAATCA 289008 || || | || |||||||| || ||||| ||||||||||| ||||| || Sbjct 2023665 ATCTCAGTCAGAAGCTGATTAAGGGTCTGTTCTCTTTCATCATT---ACCTC------CA 2023715 Query 289009 CCCGAATC--GCTCCtttttt--tACCAACAGCATCAATTTCGTCAATGAAAATCACACA 289064 || | || | |||| ||| ||||||||||||| ||||| || | |||| | || Sbjct 2023716 CCA-ATTCCGGTTCCTCTTTGCCTACCAACAGCATCTATTTCATCCACAAAAACTATGCA 2023774 Query 289065 CGGAGAATTTTGTCTCGCAATTGCAAATAATTCTCTTACACGGGATGCTCCAAGACCAAC 289124 ||||| ||| | | | || || || | || | || | ||||| |||| |||||| Sbjct 2023775 CGGAGCATTCTCTTTTGCTTTTTTGAAAAGATCACGGACCCTTGATGCACCAACACCAAC 2023834 Query 289125 ATACATTTCTACAAATTCAGAAGCGGATACTTGAATGAATGTTACATTTGCTTCGCCTGC 289184 | |||| || ||||| |||||| | || | || ||| | |||| ||||| || || Sbjct 2023835 AAACATCTCAACAAACTCAGAACCCGAGATGGAAAAGAAGGGTACACCAGCTTCACCAGC 2023894 Query 289185 TACTGCCCTCGCCAGAAGTGTCTTACCTGTTCCAGGTGGTCCCTCTAA-TAGAACTCCCT 289243 | || | |||| || || ||||| || ||||| || ||| ||| ||||| |||| Sbjct 2023895 AATAGCTTTTGCCAACAGGGTTTTACCAGTACCAGGAGG-ACCTATAAGGAGAACACCCT 2023953 Query 289244 TTGGTACTTTTGCCCCAGCAGACTTATATTTCTCAGGGCTCTTTAAAAATTCTACAATTT 289303 | || | || ||| | | || | ||||||| |||| | ||| || || | || Sbjct 2023954 TGGGGATCCGGGCTCCAACCGCAGTAAACCTCTCAGGCTTCTTCAGAAACTCCACCACTT 2024013 Query 289304 CCTCAAGTTCATATTTTGCCTCATCACATCCTGCTACATCAGCAAAAGT 289352 || | || | || || |||||| ||| || |||||| ||||||| Sbjct 2024014 CCATGAAATCTTGCTTAGCTTCATCAACTCCAGCAACATCATCAAAAGT 2024062 Score = 93.3 bits (102), Expect = 1e-13 Identities = 277/416 (67%), Gaps = 16/416 (4%) Strand=Plus/Plus Query 288939 AAATCCATCCATACTTGTTAAAATTTGATTAAGTGTTTGTTCCCTTTCATCATTTGAACC 288998 |||||||||||| ||| || | ||||||| || ||||| || ||||||||| || Sbjct 17296151 AAATCCATCCATCTCTGTCAACAACTGATTAATGGTCTGTTCTCTCTCATCATTT---CC 17296207 Query 288999 TCTTGAATCACCCGAATCGCTCCttttt--ttACCAACAGCATCAATTTCGTCAATGAAA 289056 || | || || | |||||| | | | || ||||| ||||| || |||||||| Sbjct 17296208 TCCT--CCCATCCCA---GCTCCTCTCTGCCTCCCCACAGCGTCAATCTCATCAATGAAT 17296262 Query 289057 ATCACACACGGAGAATTTTGTC-TCGCAATTGCAAATAATTCTCTTACACGGGATGCTCC 289115 | | ||| || | ||| | | | || | | || || || || || | ||||| || Sbjct 17296263 ACAATACAAGG-GGCTTTCGACTTAGCCTTCTCGAACAAATCCCTAACTCTAGATGCACC 17296321 Query 289116 AAGACCAACATACATTTCTACAAATTCAGAAGCGGATACTTGA-ATGAATGTTACATTTG 289174 | ||| || | | || ||||| || || || | | || | ||| | ||| || Sbjct 17296322 CACACCCACGAAAAGCTCCACAAACTCTGAGGCCG-CGCAAGAGAAGAACGGTACTCCTG 17296380 Query 289175 CTTCGCCTGCTACTGCCCTCGCCAGAAGTGTCTTACCTGTTCCAGGTGGTCCCTCTAATA 289234 |||| || ||||| ||||| |||| || |||||||| || ||||| ||||| | || Sbjct 17296381 CTTCCCCAGCTACAGCCCTGGCCAAGAGGGTCTTACCCGTACCAGGCGGTCCAAC-AAGC 17296439 Query 289235 GAACTCCCTTTGGTACTTTTGCCCCAGCAGACT-TATATTTCTCAGGGCTCTTTAAAAAT 289293 ||| |||||| | | | ||| | | || || | || || ||||| |||| || || Sbjct 17296440 AAACACCCTTTAGGAATCTTGGCACCCAAGGCTGTGTACTTATCAGGATTCTTCAAGAAA 17296499 Query 289294 TCTACAATTTCCTCAAGTTCATATTTTGCCTCATCACATCCTGCTACATCAGCAAA 289349 || |||| ||||| | ||| || || | |||| || || ||||| ||||| Sbjct 17296500 TCCACAACTTCCTGTAATTCCAGCTTAGCTTGATCAGCCCCAGCAACATCTGCAAA 17296555 >seq8 Length=13324298 Score = 118 bits (130), Expect = 3e-21 Identities = 359/544 (66%), Gaps = 22/544 (4%) Strand=Plus/Plus Query 288817 CCAGATACATCAGGCAAACCCACCCGCACCCTCCTATCAAACCTACCAGAACGAGTTAAT 288876 |||| |||||||||| | | || || || ||||| ||||||| | ||| Sbjct 3555948 CCAGCTACATCAGGCCTATCTACTGTGACTTGTCTGTCAAATCTACCAGGTCTCAACAAT 3556007 Query 288877 GCTGGGTCTAATATATCGGCTCTGTTTGTTGCTGCCAATACAA---CAATAGATTCGGTT 288933 || | ||| | | ||| | ||| || ||||| ||||| |||| || ||| | | Sbjct 3556008 GCGGAGTCAAGAACATCAGGTCTATTGGTTGCAGCCAACACAATGACACCAGAAT---TA 3556064 Query 288934 TGCTTAAATCCATCCATACTTGTTAAAATTTGATTAAGTGTTTGTTCCCTTTCATCATTT 288993 |||||||||||| || |||| ||||||| || |||||||| ||||||||| Sbjct 3556065 CCAGAAAATCCATCCATCTCAGTCAAAAGCTGATTAATCGTCTGTTCCCTCTCATCATTT 3556124 Query 288994 GAACCTCTTGAATCACCCGAATCGCTCCttttt--ttACCAACAGCATCAATTTCGTCAA 289051 ||||| || || | |||||| ||| |||||||||||||||| || |||| Sbjct 3556125 CCACCTC-----CCATCCCA---GCTCCTCTTTGCCTACCAACAGCATCAATCTCATCAA 3556176 Query 289052 TGAAAATCACACACGGAGAATTTTGTC-TCGCAATTGCAAATAATTCTCTTACACGGGAT 289110 | || | | || |||| ||| | | |||| | |||| || || || || | || Sbjct 3556177 TAAACACAATGCAAGGAG-CTTTCGACTTCGCCTTCTCAAACAAATCCCTAACTCTAGAC 3556235 Query 289111 GCTCCAAGACCAACATACATTTCTACAAATTCAGAAGCGGATACTTG-AATGAATGTTAC 289169 || || | ||||||| | | || ||||| || ||||| | || | || ||| | || Sbjct 3556236 GCACCCACACCAACAAAAAGCTCAACAAACTCCGAAGCAG-CACAAGAAAAGAACGGCAC 3556294 Query 289170 ATTTGCTTCGCCTGCTACTGCCCTCGCCAGAAGTGTCTTACCTGTTCCAGGTGGTCCCTC 289229 ||||| || || || || || |||| ||| ||||| || || || ||||| || | Sbjct 3556295 TCCAGCTTCTCCAGCCACAGCTCTAGCCAAAAGCGTCTTCCCCGTACCCGGTGGACCAAC 3556354 Query 289230 TAATAGAACTCCCTTT-GGTACTTTTGCCCCAGCAGACTTATATTTCTCAGGGCTCTTTA 289288 || | ||| |||||| || | || || || || |||| || ||||| |||| | Sbjct 3556355 CAACA-AACACCCTTTAGGAATCTTAGCACCTAAAGCTGTATACTTATCAGGATTCTTCA 3556413 Query 289289 AAAATTCTACAATTTCCTCAAGTTCATATTTTGCCTCATCACATCCTGCTACATCAGCAA 289348 | || || |||| ||| | | ||| || || | |||| ||| || ||||| ||| Sbjct 3556414 AGAAATCAACAACTTCTTGTAACTCAAGCTTAGCTTGATCAGCTCCAGCAACATCTCCAA 3556473 Query 289349 AAGT 289352 | || Sbjct 3556474 ATGT 3556477 >seq6 Length=16577294 Score = 111 bits (122), Expect = 5e-19 Identities = 273/407 (67%), Gaps = 8/407 (2%) Strand=Plus/Plus Query 288938 TAAATCCATCCATACTTGTTAAAATTTGATTAAGTGTTTGTTCCCTTTCATCATTTGAAC 288997 |||| || ||||| ||||||||| || || || || ||||| | ||| || ||| | Sbjct 4987598 TAAACCCGTCCATTTCTGTTAAAATCTGGTTTAGCGTCTGTTCACGTTCGTCGTTTCCTC 4987657 Query 288998 CTCTTGAATCACCCGAATCGCTCCtttttttACCAACAGCATCAATTTCGTCAATGAAAA 289057 ||| ||| ||| || ||| | || | |||||||||||||| || |||||||| | Sbjct 4987658 CTCC--AATG--CCGGTTC-CTC-TCATTCTCCCAACAGCATCAATCTCATCAATGAACA 4987711 Query 289058 TCACACACGGAGAATTTTGTCTCGCAATTGCAAATAATTCTCTTACACGGGATGCTCCAA 289117 | ||| || ||||| | | || | || || ||||| || | || ||||| | Sbjct 4987712 CTAAACAAGGTGAATTCGCTTTTGCCTTGTTGAACAAGTCTCTAACCCTAGAAGCTCCTA 4987771 Query 289118 GACCAACATACATTTCTACAAATTCAGAAGCGGATACTTGAATGAATGTTACATTTGCTT 289177 ||||||| |||| |||| || || || | || | | || || | ||| |||| Sbjct 4987772 CACCAACAAACATCTCTATGAACTCCGAGCCTGACAATGAAAAAAACGGAACACCGGCTT 4987831 Query 289178 CGCCTGCTACTGCCCTCGCCAGAAGTGTCTTACCTGTTCCAGGTGGTCCCTCTAATAGAA 289237 | || |||| ||| | ||||| || ||||| || ||||| || ||||| || | | Sbjct 4987832 CTCCGGCTATAGCCTTAGCCAGCAGAGTCTTTCCAGTTCCCGGAGGTCCGGTCAACAAGA 4987891 Query 289238 CTCCCTTTGGTACTTTTGCCCCAGCAGACTTA-TATTTCTCAGGGCTCTTTAAAAATTCT 289296 | || || || | ||| ||||| || || | ||||||| || | ||| ||||| Sbjct 4987892 CGCCTTTCGGGATTTTAGCCCCCAAAG-CTGAGAATTTCTCTGGCGTTCGTAAGAATTCA 4987950 Query 289297 ACAATTTCCTCAAGTTCATATTTTGCCTCATCACATCCTGCTACATC 289343 || || || |||| || | ||| || || || ||||||||| || Sbjct 4987951 ACGATCTCTTCAAAGTCTTGTTTGGCTTCGTCTACTCCTGCTACGTC 4987997 >seq4 Length=14994381 Score = 98.7 bits (108), Expect = 3e-15 Identities = 166/237 (70%), Gaps = 4/237 (2%) Strand=Plus/Minus Query 156283 AACTTAATTGAGGTCGTGGTGTTCCAGCGTTGAATAGTGTAGGTGTTGCATGAATAAAAT 156342 |||||| |||||| | |||||||||||||||||| || ||||| | |||||| |||| Sbjct 294583 AACTTACTTGAGGCCTTGGTGTTCCAGCGTTGAAAAGAGTAGGAGACGCATGAGTAAACC 294524 Query 156343 ACTTATTAGACATATAATCGTATGTCTCCTTAATCTTCTCAAGATTAGACCCGTGAATAC 156402 | | | |||||| ||| |||||||| | |||| || | | |||||| | Sbjct 294523 ATCTCTGAGACATCAAATGGTATGTCTGGATTGCGGAATCAATATCATCCTTGTGAATGC 294464 Query 156403 AGATAGAGACCCTCATCCACATATGCTGAGGACGCTCTACAATCACTCCAT--CAATTCG 156460 | || ||||||||| ||| || ||||| | ||| |||| | ||| | | || Sbjct 294463 CAACAGCTACCCTCATCAGCATGTGTTGAGGCCTCTCAACAA-CTTTCCCTTGGACTTTT 294405 Query 156461 CAGAAGGTATGCGCGTTCCAGAGTTTTAAACCCGAAATAATCAAACAGAAAATCACG 156517 || ||||||| | || ||||||||||| ||||| ||||| | ||||||||| Sbjct 294404 AAG-AGGTATGATCTCTCAAGAGTTTTAAATCCGAAGAAATCATATTCAAAATCACG 294349 Score = 84.2 bits (92), Expect = 6e-11 Identities = 213/318 (67%), Gaps = 6/318 (2%) Strand=Plus/Plus Query 289029 ACCAACAGCATCAATTTCGTCAATGAAAATCACACACGGAGAATTTTGTCTCGCAATTGC 289088 ||||| |||||||| || || || || || | || ||| | | | ||| || | Sbjct 7055764 ACCAATTGCATCAATCTCATCTATAAATATAATACTCGGTGCAGATGCTCTAGCCTCTTG 7055823 Query 289089 AAATAATTCTCTTACACGGGATGCTCCAAGACCAACATACATTTCTACAAATTCAGAAGC 289148 || || | ||| || | || | |||| ||||||| |||| || | || || ||| | Sbjct 7055824 GAACAAATGTCTCACCCTCGAAGGCCCAACACCAACAAACATCTCCATGAAATCTGAACC 7055883 Query 289149 GGATACTTGAATGAAT-GTTACATTTGCTTCGCCTGCTACTGCCCTCGCCAGAAGTGTCT 289207 |||| | || ||| | ||| | ||| ||||| || | || | ||| |||| Sbjct 7055884 AGATA-TAGACAGAAACGGCACACCCGATTCCCCTGCAGTAGCTTTTGCTAAAAGGGTCT 7055942 Query 289208 TACCTGTTCCAGGTGGTCCCTCTAATAGAACTCCCTTTGGTACTTTTGCCCCAGCAGA-C 289266 | || ||||||||||| || |||| || | || || || | ||| ||||| || | | Sbjct 7055943 TCCCGGTTCCAGGTGGGCCTACTAAAAGCGCACCTTTCGGGATTTTAGCCCC--CAAATC 7056000 Query 289267 TT-ATATTTCTCAGGGCTCTTTAAAAATTCTACAATTTCCTCAAGTTCATATTTTGCCTC 289325 || ||| |||| ||| |||| | || | ||||| ||| || ||| | ||| ||||| Sbjct 7056001 TTCATACTTCTTTGGGTTCTTAAGGAAATGTACAAACTCCATAATTTCTTGTTTAGCCTC 7056060 Query 289326 ATCACATCCTGCTACATC 289343 |||||||| || ||||| Sbjct 7056061 TTCACATCCAGCAACATC 7056078 >seq5 Length=13709650 Score = 95.1 bits (104), Expect = 4e-14 Identities = 267/406 (66%), Gaps = 7/406 (2%) Strand=Plus/Minus Query 133232 GCGTTTTTTGCTGCGAGTGATGGTATTGTTCTTGAAAATTTAGGAACACGGTTTATGGGA 133291 || || || ||||| || || || ||| | || ||| | | | ||||| ||| Sbjct 2138611 GCTTTCTTCGCTGCATCCGACGGAATCGTTTTAGAGAATCTCGCTTCTCGGTTCATGTCC 2138552 Query 133292 GAAGTTCAACTGGCCGAAGCCCGTGCCTTTTATGGGCTACAGATTGCGATGGAAAATATC 133351 || || ||| | | || || ||||| || || || | ||||| ||||| || ||||| Sbjct 2138551 GATGTCCAAGTCTCGGAGGCGCGTGCTTTCTACGGTTTCCAGATCGCGATTGAGAATATT 2138492 Query 133352 CATTCTATCACATATTCTACTCTAATTGATACTTACATCAAAGATACCGTCCAGAAGCAC 133411 |||||| | ||| | ||| | ||||||||||||||||||| | ||| || Sbjct 2138491 CATTCTGAGATGTATAGTCTTCTTCTCGATACTTACATCAAAGATAACAAAGAGAGAGAC 2138432 Query 133412 AAACTATTCAACGCCATT-AG-CGAATTTCCTTGTATTAAAAAGAAATCTGACTGGGCTA 133469 | || ||| ||| ||| || ||| ||||||| | |||||| || | ||||| | Sbjct 2138431 CATCTCTTCCGCGCGATTGAGACGA--TTCCTTGCGTCGCGAAGAAAGCTCAGTGGGCGA 2138374 Query 133470 TTAAATGGATCCAGGACAAGCGTGCGAGTTTTGCTACTCGTCTCGTTGCTTTTGCTGTAG 133529 | ||||||||| ||| | || |||||| || |||||||||| ||| | Sbjct 2138373 TGAAATGGATC---GACGGATCTCAGACCTTTGCTGAACGAATCGTTGCTTTCGCTTGTG 2138317 Query 133530 TAGAGGGCAtttttttCAGTGGTGCGTTCTGCTCTATTTTTTGGCTTAAAAAGCGTGGTA 133589 | || || || || ||| || |||||||| || || |||||||| || || || Sbjct 2138316 TTGAAGGTATCTTCTTCTCCGGAAGCTTCTGCTCCATCTTCTGGCTTAAGAAACGAGGAC 2138257 Query 133590 TTCTACCTGGACTGTGTTTTTCTAACGAACTTATTTCAAGGGACGA 133635 | | ||||| | ||| || |||||| | || || | ||||| Sbjct 2138256 TCATGCCTGGGTTAACTTTCTCAAACGAATTGATCTCTCGAGACGA 2138211 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 1471803023026501