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_20subterraneum_20[genbank_20GCA_5F001742945.1_202016-07- 20] 27,424 sequences; 471,834,188 total letters Query= NC_002331.1 Length=178733 Score E Sequences producing significant alignments: (Bits) Value seq1436 111 2e-19 seq1039 111 2e-19 seq1740 109 6e-19 seq37 100 3e-16 seq23 95.1 1e-14 seq147 84.2 3e-11 seq160 82.4 9e-11 >seq1436 Length=88924 Score = 111 bits (122), Expect = 2e-19 Identities = 149/205 (73%), Gaps = 2/205 (1%) Strand=Plus/Plus Query 42980 ATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCGTCATCTAGCTG 43039 ||| | |||| || ||||| || |||||||| || ||||| || |||| || || || Sbjct 7289 ATGGAGTGTGGATTCTTTTTGGATGTTGTAATCGGCAAGAGTGCGGCCGTCTTCAAGTTG 7348 Query 43040 CTTACCAGCGAATATGAGTCGCTGCTGGTCGGCCGGCACGCTCTCCTTGTCCATGATTTT 43099 || || ||||| ||||| ||||||||||| | || | | |||||||| |||||| Sbjct 7349 TTTTCCGGCGAAGATGAGACGCTGCTGGTCAGGTGGAATTCCTTCCTTGTCTTGGATTTT 7408 Query 43100 TTGTTTGAGCGTCG-CCACCGTGTCGCTCGATTCCACATCGACCGTGATGGTTTTGCCCG 43158 ||||| ||| | | | ||||| ||||| || || | || ||||||||||| | Sbjct 7409 GGCTTTGA-CGTTGTCGATGGTGTCAGAGGATTCTACCTCTAGGGTTATGGTTTTGCCGG 7467 Query 43159 TTAGCGTCTTTACAAAGATTTGCAT 43183 |||| || || |||||||| ||||| Sbjct 7468 TTAGGGTTTTCACAAAGATCTGCAT 7492 Score = 96.9 bits (106), Expect = 4e-15 Identities = 139/192 (72%), Gaps = 3/192 (2%) Strand=Plus/Plus Query 42993 TCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAAT 43052 || ||||| || |||||||| || ||||| || |||| || || || || || ||||| Sbjct 39029 TCTTTTTGGATGTTGTAATCGGCAAGAGTTCGGCCGTCTTCGAGTTGTTTTCCGGCGAAG 39088 Query 43053 ATGAGTCGCTGCTGGTCGGCCGGCACGCTCTCCTTGTCCATGATTTTTTGTTTGAGCGTC 43112 ||||| ||||| ||||| | || | | |||||||| |||||| ||||| ||| Sbjct 39089 ATGAGACGCTGTTGGTCTGGTGGAATTCCTTCCTTGTCTTGGATTTTGGCTTTGA-CGTT 39147 Query 43113 GCC-ACCGTGTCGCTCGATTCCACATCGACCGTGATGGTTTTGCCCGTTAGCGTCTTTAC 43171 | | | |||||| ||||| || || | || ||||||||| ||| ||| || || || Sbjct 39148 GTCGATGGTGTCGGAGGATTCTACCTCTAGGGTTATGGTTTTG-CCGGTAGGGTTTTCAC 39206 Query 43172 AAAGATTTGCAT 43183 ||||| ||||| Sbjct 39207 GAAGATCTGCAT 39218 Score = 93.3 bits (102), Expect = 5e-14 Identities = 159/228 (70%), Gaps = 2/228 (1%) Strand=Plus/Plus Query 42957 CCTCCTCTTAAACGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCC 43016 ||||| | || || | ||| ||||| | ||| ||| || || ||||| ||||| || Sbjct 38765 CCTCCACGCAACCGAAGCACTAAATGAAGCGTGGACTCTTTCTGGATATTATAATCCGCA 38824 Query 43017 AGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCCGGC 43076 ||||| | | | || || | ||||| || || || || | ||||||||| || | || Sbjct 38825 AGAGTTCTCCCATCTTCCAATTGCTTCCCTGCAAAGATCAATCGCTGCTGATCAGGAGGG 38884 Query 43077 ACGCTCTCCTTGTCCATGATTTTTTGTTTGAGCGTCGCC-ACCGTGTCGCTCGATTCCAC 43135 | | || || ||| ||| | || | | ||| | | | |||||| ||||| || Sbjct 38885 ATTCCTTCTTTATCC-TGAATCTTCGCCTTCACGTTGTCGATTGTGTCGGAGGATTCAAC 38943 Query 43136 ATCGACCGTGATGGTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 43183 |||| ||||||||||| || ||||| || || |||||||||||||| Sbjct 38944 TTCGAGTGTGATGGTTTTTCCAGTTAGGGTTTTGACAAAGATTTGCAT 38991 >seq1039 Length=240209 Score = 111 bits (122), Expect = 2e-19 Identities = 159/220 (72%), Gaps = 8/220 (4%) Strand=Plus/Plus Query 42968 ACGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTC 43027 ||| | ||||||||| | ||| ||||||||| |||||||||||||| || || ||| | Sbjct 129315 ACGGAGCACCAAATGGAGCGTGGACTCCTTTTGGATATTGTAATCAGCAAGGGTACGCCC 129374 Query 43028 GTCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCCGGCACGCTCTCCTT 43087 ||| || |||||||| ||||| || || || ||||||||||| | || | | ||||| Sbjct 129375 GTCCTCCAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCTGGTGGGATCCCTTCCTT 129434 Query 43088 GTCCATGATTTTTTGTTTGAGCGTCG-CCACCGTGTC---GCTCGATTCCACATCGACCG 43143 | | ||| | || | | | | | | | | || || ||| || || |||| | Sbjct 129435 AT-CTTGAATCTTGGCCTTAACATTGTCTATGGTATCTGAACTC---TCAACTTCGAGAG 129490 Query 43144 TGATGGTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 43183 ||||||| ||||| || || ||||| || ||||||||||| Sbjct 129491 TGATGGTCTTGCCGGTGAGGGTCTTAACGAAGATTTGCAT 129530 >seq1740 Length=56962 Score = 109 bits (120), Expect = 6e-19 Identities = 163/230 (71%), Gaps = 6/230 (3%) Strand=Plus/Minus Query 42957 CCTCCTCTTAAACGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCC 43016 ||||| || ||||| | || | ||| | ||| ||||| || || |||||||||||| Sbjct 22347 CCTCCCCTCAAACGAAGGACAAGATGAAGGGTGGATTCCTTCTGGATGTTGTAATCAGCC 22288 Query 43017 AGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCCGGC 43076 | || || | || || |||||||| |||||||| ||||||| ||||||||| | || Sbjct 22287 AAGGTACGGCCATCTTCAAGCTGCTTCCCAGCGAAAATGAGTCTCTGCTGGTCCGGAGGA 22228 Query 43077 ACGCTCTCCTTGTCCATGATTTTTTGTTTGAGCGTCGCCACCGTGTC---GCTCGATTCC 43133 | || |||||||||| ||| || ||| | | | | ||||| ||| || Sbjct 22227 ATGCCCTCCTTGTCCTGGATCTTAGCTTTTACATTGTCAATTGTGTCTGAACTC---TCA 22171 Query 43134 ACATCGACCGTGATGGTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 43183 || || | |||||||| || || || | ||||| |||||||||||||| Sbjct 22170 ACCTCCAAAGTGATGGTCTTCCCTGTCAAGGTCTTCACAAAGATTTGCAT 22121 Score = 102 bits (112), Expect = 9e-17 Identities = 157/220 (71%), Gaps = 8/220 (4%) Strand=Plus/Minus Query 42968 ACGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTC 43027 ||| | ||||||||| | ||| ||||||||| || ||||||||||| || || ||| | Sbjct 21652 ACGGAGCACCAAATGGAGGGTGGACTCCTTTTGGATGTTGTAATCAGCAAGGGTACGCCC 21593 Query 43028 GTCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCCGGCACGCTCTCCTT 43087 || || | |||||| ||||| || || || ||||||||||| | || | | ||||| Sbjct 21592 ATCCTCCAACTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCTGGTGGGATCCCTTCCTT 21533 Query 43088 GTCCATGATTTTTTGTTTGAGCGTCG-CCACCGTGTC---GCTCGATTCCACATCGACCG 43143 | | ||| | || | || | | | | | | || || ||| || || |||| | Sbjct 21532 AT-CTTGAATCTTGGCTTTAACATTGTCTATGGTATCAGAACTC---TCAACTTCGAGAG 21477 Query 43144 TGATGGTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 43183 | |||||||| || || || ||||| |||||||||||||| Sbjct 21476 TAATGGTTTTACCAGTGAGGGTCTTGACAAAGATTTGCAT 21437 Score = 89.7 bits (98), Expect = 6e-13 Identities = 82/104 (79%), Gaps = 0/104 (0%) Strand=Plus/Plus Query 42968 ACGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTC 43027 ||| || |||||||| | ||| ||||||||| || ||||||||||| || || || | Sbjct 43799 ACGGAAAACCAAATGGAGGGTGGACTCCTTTTGGATGTTGTAATCAGCAAGGGTACGACC 43858 Query 43028 GTCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGG 43071 || || |||||||| ||||| || || || ||||||||||||| Sbjct 43859 ATCCTCCAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCGG 43902 Score = 82.4 bits (90), Expect = 9e-11 Identities = 157/230 (68%), Gaps = 6/230 (3%) Strand=Plus/Plus Query 42957 CCTCCTCTTAAACGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCC 43016 ||||| || ||||| | || | ||| | || ||||| || || |||||||||||| Sbjct 42771 CCTCCCCTCAAACGAAGGACAAGATGAAGGGTAGATTCCTTCTGGATGTTGTAATCAGCC 42830 Query 43017 AGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCCGGC 43076 | || || | || || |||||||| ||||| || || | | |||||||| | || Sbjct 42831 AATGTTCGGCCATCTTCAAGCTGCTTTCCAGCAAAAATCAACCTTTGCTGGTCCGGAGGA 42890 Query 43077 ACGCTCTCCTTGTCCATGATTTTTTGTTTGAGCGTCGCCACCGTGTC---GCTCGATTCC 43133 | || |||||||||| ||| || ||| | | | | |||||| ||| || Sbjct 42891 ATGCCCTCCTTGTCCTGGATCTTAGCTTTTACATTGTCAATCGTGTCTGAACTC---TCA 42947 Query 43134 ACATCGACCGTGATGGTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 43183 || || | || |||||||| || || | ||||||||||| || ||||| Sbjct 42948 ACCTCCAAAGTAATGGTTTTCCCTGTCAATGTCTTTACAAAAATCTGCAT 42997 >seq37 Length=1182629 Score = 100 bits (110), Expect = 3e-16 Identities = 142/196 (72%), Gaps = 8/196 (4%) Strand=Plus/Plus Query 42992 CTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAA 43051 |||||| || || ||||||||||| ||||||| |||| || | |||||| || ||||| Sbjct 292938 CTCCTTCTGGATGTTGTAATCAGCAAGAGTCCTTCCGTCTTCCAACTGCTTTCCGGCGAA 292997 Query 43052 TATGAGTCGCTGCTGGTCGGCCGGCACGCTCTCCTTGTCCATGATTTTTTGTTTGAGCGT 43111 ||||| || ||||| || | || | | ||||||||| ||| || ||||| ||| Sbjct 292998 GATGAGACGTTGCTGATCCGGAGGAATTCCTTCCTTGTCCTGGATCTTGGCTTTGA-CGT 293056 Query 43112 CG-CCACCGTGTC---GCTCGATTCCACATCGACCGTGATGGTTTTGCCCGTTAGCGTCT 43167 | | | ||||| ||| |||||| || | |||||||| || || || || || | Sbjct 293057 TGTCGATGGTGTCAGAGCT---TTCCACCTCAAGGGTGATGGTCTTTCCGGTGAGAGTTT 293113 Query 43168 TTACAAAGATTTGCAT 43183 | || ||||||||||| Sbjct 293114 TCACGAAGATTTGCAT 293129 >seq23 Length=202804 Score = 95.1 bits (104), Expect = 1e-14 Identities = 140/193 (73%), Gaps = 4/193 (2%) Strand=Plus/Minus Query 42993 TCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAAT 43052 || ||||| || |||||||| || ||||| || | || || || || || || ||||| Sbjct 5450 TCTTTTTGGATGTTGTAATCGGCAAGAGTACGGCCATCTTCGAGTTGTTTTCCGGCGAAG 5391 Query 43053 ATGAGTCGCTGCTGGTCGGCCGGCACGCTCTCCTTGTCCATGATTTTTTG-TTTGAGCGT 43111 ||||| || || || || | || | | |||||||| ||| |||| | ||||| ||| Sbjct 5390 ATGAGACGTTGTTGATCTGGTGGAATTCCTTCCTTGTCT-TGAATTTTGGCTTTGA-CGT 5333 Query 43112 CGCC-ACCGTGTCGCTCGATTCCACATCGACCGTGATGGTTTTGCCCGTTAGCGTCTTTA 43170 | | | |||||| ||||| || || | || ||||||||||| ||||| || || | Sbjct 5332 TGTCGATGGTGTCGGAGGATTCTACCTCTAGGGTTATGGTTTTGCCGGTTAGGGTTTTCA 5273 Query 43171 CAAAGATTTGCAT 43183 | ||||||||||| Sbjct 5272 CGAAGATTTGCAT 5260 Score = 91.5 bits (100), Expect = 2e-13 Identities = 137/192 (71%), Gaps = 2/192 (1%) Strand=Plus/Minus Query 42993 TCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAAT 43052 || || |||||||| |||||||| ||||||| | || || ||||| |||||||| || Sbjct 5678 TCTTTCTGAATATTATAATCAGCAAGAGTCCTTCCATCCTCAAGCTGTTTACCAGCAAAG 5619 Query 43053 ATGAGTCGCTGCTGGTCGGCCGGCACGCTCTCCTTGTCCATGATTTTTTGTTTGAGCGTC 43112 || | ||| ||||| || | || | | ||||| || ||| | || | | ||| Sbjct 5618 ATCAATCGTTGCTGATCAGGTGGAATCCCTTCCTTATCT-TGAATCTTCGCCTTCACGTT 5560 Query 43113 GCC-ACCGTGTCGCTCGATTCCACATCGACCGTGATGGTTTTGCCCGTTAGCGTCTTTAC 43171 | | | ||||| ||||| || |||| ||||||||||| || ||||| || || || Sbjct 5559 GTCGATTGTGTCTGATGATTCGACTTCGAGTGTGATGGTTTTTCCGGTTAGGGTTTTGAC 5500 Query 43172 AAAGATTTGCAT 43183 ||||||||||| Sbjct 5499 GAAGATTTGCAT 5488 >seq147 Length=403342 Score = 84.2 bits (92), Expect = 3e-11 Identities = 137/195 (70%), Gaps = 2/195 (1%) Strand=Plus/Plus Query 42993 TCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAAT 43052 ||||| || |||||||| || || |||| || ||||| || ||||| || || ||||| Sbjct 352330 TCCTTCTGGATATTGTAGTCGGCAAGAGCCCTGTCGTCTTCAAGCTGTTTTCCCGCGAAG 352389 Query 43053 ATGAGTCGCTGCTGGTCGGCCGGCACGCTCTCCTTGTCCATGATTTTTTGTTTGAGCGTC 43112 |||||| | || || || | || | | ||||||| |||||| | |||| ||| Sbjct 352390 ATGAGTTGTTGTTGATCCGGTGGAATTCCTTCCTTGTATTGGATTTTGTCCTTGA-CGTT 352448 Query 43113 GCC-ACCGTGTCGCTCGATTCCACATCGACCGTGATGGTTTTGCCCGTTAGCGTCTTTAC 43171 | | | || || ||| | || |||| || || || || |||||||| || || || Sbjct 352449 GTCGATGGTATCAGAAGATCCAACCTCGAGGGTTATCGTCTTACCCGTTAGGGTTTTGAC 352508 Query 43172 AAAGATTTGCATTTT 43186 ||||||||||| || Sbjct 352509 GAAGATTTGCATCTT 352523 >seq160 Length=609282 Score = 82.4 bits (90), Expect = 9e-11 Identities = 63/75 (84%), Gaps = 0/75 (0%) Strand=Plus/Plus Query 60057 AAAAATTTTCTCCTCGGCAGGGAATCGAACCCTGGTCTCCCGCGTGACAGGCGGACATAC 60116 |||||| ||| || || ||| ||||||||| |||| |||||||||||||||| |||| Sbjct 259393 AAAAATATTCGCCGTTGCCGGGGATCGAACCCGGGTCACCCGCGTGACAGGCGGGAATAC 259452 Query 60117 TCACCACTATACTAC 60131 | ||||||||||||| Sbjct 259453 TTACCACTATACTAC 259467 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 571621580926720