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: Trifolium_20pratense_20[genbank_20GCA_5F900079335.1_202016-04-15] 39,051 sequences; 345,990,850 total letters Query= NC_005839.2 Length=131680 Score E Sequences producing significant alignments: (Bits) Value seq9364 113 4e-20 seq28803 96.9 3e-15 seq1 95.1 1e-14 seq4 91.5 1e-13 seq28626 89.7 4e-13 seq3 87.8 2e-12 seq5139 82.4 6e-11 >seq9364 Length=1264 Score = 113 bits (124), Expect = 4e-20 Identities = 153/211 (73%), Gaps = 2/211 (1%) Strand=Plus/Plus Query 48518 ACTAAATGAAGTGTGCTCTCCTTTTGAATGTTGTAATCAGCCAATTGT-CGCTCGTCCTC 48576 || ||||| || ||| ||||||||| ||||||||||| | ||| || ||| ||||||| Sbjct 530 ACCAAATGGAGGGTGGACTCCTTTTGGATGTTGTAATC-GGCAAGGGTCCGCCCGTCCTC 588 Query 48577 CAGCTGCTTACCGCCGTAAATTAAACGCTGCTGATCCACCGGCACACTTTCCTTGTCCAT 48636 |||||| || || | |||| ||||||||||| ||| || | | |||||| || Sbjct 589 CAGCTGTTTTCCAGCAAAAATCAAACGCTGCTGGTCCGGTGGGATCCCTTCCTTATCTTG 648 Query 48637 AATTTTCTGCTTGATAGACGCTATGGTATCGGTAGACTCCGTCTCGACTGTTATGGTTTT 48696 |||||| ||| | | |||||||||||| | ||| || | || ||||| || Sbjct 649 AATTTTGGCCTTAACATTGTCTATGGTATCGGAACTCTCAACTTCAAGAGTAATGGTCTT 708 Query 48697 ACCGGTGAGAGTTTTCACAAAAATCTGCATC 48727 ||| ||||| || || ||||| || |||||| Sbjct 709 ACCAGTGAGGGTCTTGACAAAGATTTGCATC 739 >seq28803 Length=52646 Score = 96.9 bits (106), Expect = 3e-15 Identities = 150/212 (71%), Gaps = 2/212 (1%) Strand=Plus/Plus Query 48517 CACTAAATGAAGTGTGCTCTCCTTTTGAATGTTGTAATCAGCCAATTGT-CGCTCGTCCT 48575 ||| |||||||| || ||||||||| ||||||||||| | ||| || ||| |||||| Sbjct 33786 CACCAAATGAAGGGTTGACTCCTTTTGTATGTTGTAATC-GGCAAGGGTACGCCCGTCCT 33844 Query 48576 CCAGCTGCTTACCGCCGTAAATTAAACGCTGCTGATCCACCGGCACACTTTCCTTGTCCA 48635 |||||||||| || | |||| | ||||||||| ||| || | | |||||| || Sbjct 33845 CCAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCCGGTGGGATCCCTTCCTTATCTT 33904 Query 48636 TAATTTTCTGCTTGATAGACGCTATGGTATCGGTAGACTCCGTCTCGACTGTTATGGTTT 48695 ||| || ||| | | |||||||||| | | ||| || | || ||||| | Sbjct 33905 GAATCTTGGCCTTAACATTGTCTATGGTATCTGAACTCTCAACTTCAAGAGTGATGGTCT 33964 Query 48696 TACCGGTGAGAGTTTTCACAAAAATCTGCATC 48727 | || ||||| || || || || || |||||| Sbjct 33965 TGCCAGTGAGGGTCTTAACGAAGATTTGCATC 33996 >seq1 Length=28142018 Score = 95.1 bits (104), Expect = 1e-14 Identities = 163/232 (70%), Gaps = 6/232 (3%) Strand=Plus/Plus Query 48499 ACCTCCGCGCAACCTTAACACTAAATGAAGTGTGCTCTCCTTTTGAATGTTGTAATCAGC 48558 |||||| |||| | | || | |||||| ||| |||||| ||||| |||||||||| Sbjct 1587160 ACCTCCACGCAGACGGAGAACAAGATGAAGCGTGGACTCCTTCTGAATATTGTAATCAG- 1587218 Query 48559 CAATTGTCGCT-CGTCCTCCAGCTGCTTACCGCCGTAAATTAAACGCTGCTGATCCACCG 48617 ||| ||| | |||| |||| |||||| ||| || | || | ||| ||||| ||| | Sbjct 1587219 CAAGAGTCCTTCCGTCTTCCAACTGCTTTCCGGCGAAGATGAGACGTTGCTGGTCCGGAG 1587278 Query 48618 GCACACTTTCCTTGTCCATAATTTTCTGCTTGA--TAGACGCTATGGTATCGGTAGACTC 48675 | | | |||||||||| || || |||| | | || ||||| || | ||| Sbjct 1587279 GAATTCCTTCCTTGTCCTGGATCTTGGCTTTGACGTTGTCG--ATGGTGTCAGAGCTCTC 1587336 Query 48676 CGTCTCGACTGTTATGGTTTTACCGGTGAGAGTTTTCACAAAAATCTGCATC 48727 | ||| | || ||||| || |||||||| |||||||| || || |||||| Sbjct 1587337 CACCTCAAGGGTGATGGTCTTTCCGGTGAGTGTTTTCACGAAGATTTGCATC 1587388 Score = 91.5 bits (100), Expect = 1e-13 Identities = 161/232 (69%), Gaps = 2/232 (1%) Strand=Plus/Plus Query 48496 AAAACCTCCGCGCAACCTTAACACTAAATGAAGTGTGCTCTCCTTTTGAATGTTGTAATC 48555 |||||| || || | | | ||| | ||||| ||| |||||| ||||||||||| || Sbjct 1586179 AAAACCACCACGAAGACGGAGCACAAGGTGAAGGGTGGACTCCTTCTGAATGTTGTAGTC 1586238 Query 48556 AGCCAATTGTCGCTCG-TCCTCCAGCTGCTTACCGCCGTAAATTAAACGCTGCTGATCCA 48614 ||| || ||| || ||||||| ||| || || || | || | | ||||||||| Sbjct 1586239 AGC-AAGGGTCCTTCCATCCTCCAACTGTTTCCCTGCGAAGATCAGCCTCTGCTGATCAG 1586297 Query 48615 CCGGCACACTTTCCTTGTCCATAATTTTCTGCTTGATAGACGCTATGGTATCGGTAGACT 48674 || | || |||||| ||| |||||| ||| | | | |||||||| | || Sbjct 1586298 GTGGGATACCTTCCTTATCCTGAATTTTGGCCTTCACATTATCAATGGTATCTGAGCTCT 1586357 Query 48675 CCGTCTCGACTGTTATGGTTTTACCGGTGAGAGTTTTCACAAAAATCTGCAT 48726 || ||| | |||||||| ||||| || | || || |||||||||||||| Sbjct 1586358 CCACCTCCAAGGTTATGGTCTTACCAGTCAAGGTCTTGACAAAAATCTGCAT 1586409 >seq4 Length=28907061 Score = 91.5 bits (100), Expect = 1e-13 Identities = 149/212 (70%), Gaps = 2/212 (1%) Strand=Plus/Minus Query 48517 CACTAAATGAAGTGTGCTCTCCTTTTGAATGTTGTAATCAGCCAATTGT-CGCTCGTCCT 48575 ||| ||||| || || ||||||||| ||||||||||| || || || ||| |||||| Sbjct 27565208 CACCAAATGGAGGGTAGACTCCTTTTGGATGTTGTAATCGGC-AAGGGTACGCCCGTCCT 27565150 Query 48576 CCAGCTGCTTACCGCCGTAAATTAAACGCTGCTGATCCACCGGCACACTTTCCTTGTCCA 48635 |||||||||| || | |||| | ||||||||| ||| || | | |||||| || Sbjct 27565149 CCAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCCGGTGGGATCCCTTCCTTATCTT 27565090 Query 48636 TAATTTTCTGCTTGATAGACGCTATGGTATCGGTAGACTCCGTCTCGACTGTTATGGTTT 48695 ||| || ||| | | |||||||||| | | ||| || | || ||||| | Sbjct 27565089 GAATCTTGGCCTTAACATTGTCTATGGTATCTGAACTCTCAACTTCCAGAGTGATGGTCT 27565030 Query 48696 TACCGGTGAGAGTTTTCACAAAAATCTGCATC 48727 | || ||||| || || || || || |||||| Sbjct 27565029 TGCCAGTGAGGGTCTTAACGAAGATTTGCATC 27564998 Score = 84.2 bits (92), Expect = 2e-11 Identities = 141/204 (69%), Gaps = 0/204 (0%) Strand=Plus/Minus Query 48523 ATGAAGTGTGCTCTCCTTTTGAATGTTGTAATCAGCCAATTGTCGCTCGTCCTCCAGCTG 48582 |||||| ||| ||||| || ||||||||||| ||||| ||| | || || ||||| Sbjct 27565886 ATGAAGGGTGGATTCCTTCTGGATGTTGTAATCGGCCAAGGTTCGGCCATCTTCGAGCTG 27565827 Query 48583 CTTACCGCCGTAAATTAAACGCTGCTGATCCACCGGCACACTTTCCTTGTCCATAATTTT 48642 ||| || | |||| || | ||||||||| || | | ||||||||| || || Sbjct 27565826 CTTTCCAGCAAAAATCAACCTTTGCTGATCCGGGGGAATGCCCTCCTTGTCCTGTATCTT 27565767 Query 48643 CTGCTTGATAGACGCTATGGTATCGGTAGACTCCGTCTCGACTGTTATGGTTTTACCGGT 48702 ||| | | | || || || | ||| ||| | ||||| || ||||| || Sbjct 27565766 AGCCTTCACATTGTCAATTGTGTCTGAGCTCTCAACCTCCAAAGTTATTGTCTTACCAGT 27565707 Query 48703 GAGAGTTTTCACAAAAATCTGCAT 48726 ||||||||||||||||||||||| Sbjct 27565706 AAGAGTTTTCACAAAAATCTGCAT 27565683 >seq28626 Length=87040 Score = 89.7 bits (98), Expect = 4e-13 Identities = 163/234 (70%), Gaps = 6/234 (3%) Strand=Plus/Plus Query 48500 CCTCCGCGCAACCTTAACACTAAATGAAGTGTGCTCTCCTTTTGAATGTTGTAATCAGCC 48559 || ||||||||||| | || ||||| || || ||| || || || || ||||| || Sbjct 42365 CCACCGCGCAACCTAAGAACCAAATGTAGCGTAGACTCTTTCTGGATATTATAATCCGC- 42423 Query 48560 AATTGTCG-CTCGTCCTCCAGCTGCTTACCGCCGTAAATTAAACGCTGCTGATCCACCGG 48618 || ||| | | || |||| ||||| || | | || || ||||||||||| || Sbjct 42424 AAGAGTCCTCCCATCTTCCAATTGCTTCCCTGCAAAGATCAATCGCTGCTGATCAGGAGG 42483 Query 48619 CACACTTTCCTTGTCCATAATTTTCTGCTTGA--TAGACGCTATGGTATCGGTAGACTCC 48676 | | ||||||||| ||||| |||| | | || |||||||||| || || Sbjct 42484 AATTCCTTCCTTGTCTTGGATTTTGGCTTTGACGTTGTCG--ATGGTATCGGAGGATTCT 42541 Query 48677 GTCTCGACTGTTATGGTTTTACCGGTGAGAGTTTTCACAAAAATCTGCATCGTG 48730 ||| | ||||||||||| ||||| || |||||||| || |||||||| ||| Sbjct 42542 ACCTCTAGGGTTATGGTTTTGCCGGTTAGGGTTTTCACGAAGATCTGCATGGTG 42595 >seq3 Length=31061273 Score = 87.8 bits (96), Expect = 2e-12 Identities = 148/212 (70%), Gaps = 2/212 (1%) Strand=Plus/Minus Query 48517 CACTAAATGAAGTGTGCTCTCCTTTTGAATGTTGTAATCAGCCAATTGT-CGCTCGTCCT 48575 ||| ||||| || ||| ||||||||| |||||||||||||| || || ||| | |||| Sbjct 12366157 CACCAAATGGAGGGTGGACTCCTTTTGGATGTTGTAATCAGC-AAGGGTACGCCCATCCT 12366099 Query 48576 CCAGCTGCTTACCGCCGTAAATTAAACGCTGCTGATCCACCGGCACACTTTCCTTGTCCA 48635 |||||||||| || | |||| | ||||||||| || || | | |||||| || Sbjct 12366098 CCAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCTGATGGGATCCCTTCCTTATCTT 12366039 Query 48636 TAATTTTCTGCTTGATAGACGCTATGGTATCGGTAGACTCCGTCTCGACTGTTATGGTTT 48695 ||| || ||| | | |||||||||| | | ||| |||| || | ||| | Sbjct 12366038 GAATCTTGGCCTTAACATTGTCTATGGTATCTGAACTCTCAACTTCGAGAGTAACGGTCT 12365979 Query 48696 TACCGGTGAGAGTTTTCACAAAAATCTGCATC 48727 | || || || | || ||||| || |||||| Sbjct 12365978 TGCCTGTAAGCGCCTTAACAAAGATTTGCATC 12365947 Score = 84.2 bits (92), Expect = 2e-11 Identities = 149/214 (70%), Gaps = 4/214 (2%) Strand=Plus/Minus Query 48515 AACACTAAATGAAGTGTGCTCTCCTTTTGAATGTTGTAATCAGCCAATTGTCGCT--CGT 48572 || || | |||||| ||| ||||| || |||||||||||||| ||| ||| || | | Sbjct 12366387 AAGACAAGATGAAGGGTGGATTCCTTCTGGATGTTGTAATCAGCTAAT-GTC-CTGCCAT 12366330 Query 48573 CCTCCAGCTGCTTACCGCCGTAAATTAAACGCTGCTGATCCACCGGCACACTTTCCTTGT 48632 |||| ||||| || || | |||| | | ||||| || || | || |||||||| Sbjct 12366329 CCTCAAGCTGTTTTCCAGCAAAAATCAGCCTTTGCTGGTCTGGTGGAATACCTTCCTTGT 12366270 Query 48633 CCATAATTTTCTGCTTGATAGACGCTATGGTATCGGTAGACTCCGTCTCGACTGTTATGG 48692 | ||| || ||||| | |||| ||||| | | ||| ||| | || | || Sbjct 12366269 CTTGAATCTTGACCTTGACATTTTCTATCGTATCCGAACTCTCAACCTCAAGGGTGACGG 12366210 Query 48693 TTTTACCGGTGAGAGTTTTCACAAAAATCTGCAT 48726 | || ||||||||||| |||||||| || ||||| Sbjct 12366209 TCTTTCCGGTGAGAGTCTTCACAAAGATTTGCAT 12366176 >seq5139 Length=1344 Score = 82.4 bits (90), Expect = 6e-11 Identities = 147/212 (69%), Gaps = 2/212 (1%) Strand=Plus/Minus Query 48517 CACTAAATGAAGTGTGCTCTCCTTTTGAATGTTGTAATCAGCCAATTGT-CGCTCGTCCT 48575 ||| ||||| || ||| ||||||||| ||||||||||| || || || ||| | |||| Sbjct 1306 CACCAAATGGAGGGTGGACTCCTTTTGGATGTTGTAATCGGC-AAGGGTACGCCCATCCT 1248 Query 48576 CCAGCTGCTTACCGCCGTAAATTAAACGCTGCTGATCCACCGGCACACTTTCCTTGTCCA 48635 |||||||||| || | |||| | ||||||||| ||| || | |||||| || Sbjct 1247 CCAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCCGGTGGGTTCCCTTCCTTATCTT 1188 Query 48636 TAATTTTCTGCTTGATAGACGCTATGGTATCGGTAGACTCCGTCTCGACTGTTATGGTTT 48695 ||| || ||| | | |||||||||| | | ||| |||| | ||||| | Sbjct 1187 GAATCTTGGCCTTAACATTGTCTATGGTATCTGAACTCTCAACTTCGAGAGCGATGGTCT 1128 Query 48696 TACCGGTGAGAGTTTTCACAAAAATCTGCATC 48727 | || ||||| || || || || || || ||| Sbjct 1127 TGCCAGTGAGGGTCTTAACGAAGATTTGTATC 1096 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 421050712205051