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_010240.1 Length=169794 Score E Sequences producing significant alignments: (Bits) Value seq1 114 1e-20 seq3 102 9e-17 seq28803 98.7 1e-15 seq9364 98.7 1e-15 seq4 98.7 1e-15 seq28626 93.3 5e-14 seq5139 89.7 6e-13 >seq1 Length=28142018 Score = 114 bits (126), Expect = 1e-20 Identities = 167/232 (72%), Gaps = 8/232 (3%) Strand=Plus/Plus Query 41981 ACCTCCTCTTAAACGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGC 42040 |||||| | | ||| | || | ||| | ||| |||||| ||||||||||||||||| Sbjct 1587160 ACCTCCACGCAGACGGAGAACAAGATGAAGCGTGGACTCCTTCTGAATATTGTAATCAGC 1587219 Query 42041 CAGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCTGG 42100 ||||||| |||| || | |||||| || ||||| ||||| || |||||||| | || Sbjct 1587220 AAGAGTCCTTCCGTCTTCCAACTGCTTTCCGGCGAAGATGAGACGTTGCTGGTCCGGAGG 1587279 Query 42101 CACGCTCTCCTTGTCCATGATTTTTTGTTTGAGCGTCG-CCACCGTGTC---GCTCGATT 42156 | | ||||||||| ||| || ||||| ||| | | | ||||| |||| | Sbjct 1587280 AATTCCTTCCTTGTCCTGGATCTTGGCTTTGA-CGTTGTCGATGGTGTCAGAGCTC---T 1587335 Query 42157 CCACATCGACCGTGATGGTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 42208 |||| || | |||||||| || || || || || || || ||||||||||| Sbjct 1587336 CCACCTCAAGGGTGATGGTCTTTCCGGTGAGTGTTTTCACGAAGATTTGCAT 1587387 Score = 89.7 bits (98), Expect = 6e-13 Identities = 154/220 (70%), Gaps = 8/220 (4%) Strand=Plus/Plus Query 41993 ACGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTC 42052 ||||||||| | || | || |||||| || ||||||||||| |||| ||| || | Sbjct 1586944 ACGCAACACAAGGTGGAGGGTTGACTCCTTCTGGATATTGTAATCGGCCAAAGTACGGCC 1587003 Query 42053 GTCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCTGGCACGCTCTCCTT 42112 ||| || |||||||| || || || || | | ||||||||| | || | | ||||| Sbjct 1587004 GTCCTCAAGCTGCTTTCCGGCAAAGATCAACCTCTGCTGGTCTGGGGGGATTCCTTCCTT 1587063 Query 42113 GTCCATGATTTTTTGTTTGAGCGTCG-CCACCGTGTC---GCTCGATTCCACATCGACCG 42168 |||| ||| || |||| ||| | | | ||||| ||| ||| || || | | Sbjct 1587064 GTCCTGGATCTTGGCCTTGA-CGTTGTCGATGGTGTCAGAGCT---TTCAACCTCAAGGG 1587119 Query 42169 TGATGGTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 42208 ||||||| || || || || ||||| || ||||| ||||| Sbjct 1587120 TGATGGTCTTTCCTGTGAGAGTCTTGACGAAGATCTGCAT 1587159 >seq3 Length=31061273 Score = 102 bits (112), Expect = 9e-17 Identities = 157/220 (71%), Gaps = 8/220 (4%) Strand=Plus/Minus Query 41993 ACGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTC 42052 ||| | ||||||||| | ||| ||||||||| || ||||||||||| || || ||| | Sbjct 12366163 ACGGAGCACCAAATGGAGGGTGGACTCCTTTTGGATGTTGTAATCAGCAAGGGTACGCCC 12366104 Query 42053 GTCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCTGGCACGCTCTCCTT 42112 || || |||||||| ||||| || || || ||||||||||| | ||| | | ||||| Sbjct 12366103 ATCCTCCAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCTGATGGGATCCCTTCCTT 12366044 Query 42113 GTCCATGATTTTTTGTTTGAGCGTCG-CCACCGTGTC---GCTCGATTCCACATCGACCG 42168 | | ||| | || | | | | | | | | || || ||| || || |||| | Sbjct 12366043 AT-CTTGAATCTTGGCCTTAACATTGTCTATGGTATCTGAACTC---TCAACTTCGAGAG 12365988 Query 42169 TGATGGTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 42208 | | ||| ||||| || |||| ||| |||||||||||||| Sbjct 12365987 TAACGGTCTTGCCTGTAAGCGCCTTAACAAAGATTTGCAT 12365948 Score = 82.4 bits (90), Expect = 8e-11 Identities = 147/215 (68%), Gaps = 0/215 (0%) Strand=Plus/Minus Query 41994 CGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCG 42053 ||||| || | ||| | || |||||| ||||| ||||| ||||| ||||||| | Sbjct 12367530 CGCAAAACAAGATGAAGAGTAGACTCCTTCTGAATGTTGTAGTCAGCAAGAGTCCTTCCA 12367471 Query 42054 TCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCTGGCACGCTCTCCTTG 42113 || || | ||||| ||||| || || | | |||||| || | ||| | | |||||| Sbjct 12367470 TCCTCCAATTGCTTCCCAGCAAAGATCAACCTCTGCTGATCTGGTGGGATTCCCTCCTTA 12367411 Query 42114 TCCATGATTTTTTGTTTGAGCGTCGCCACCGTGTCGCTCGATTCCACATCGACCGTGATG 42173 ||| |||||| || | | | | ||||| ||| || || | || ||| Sbjct 12367410 TCCTGTATTTTTGCCTTCACGTTATCAATTGTGTCTGAACTTTCTACCTCCAAGGTAATG 12367351 Query 42174 GTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 42208 || || || || |||||||| |||||||||||||| Sbjct 12367350 GTCTTTCCGGTCAGCGTCTTCACAAAGATTTGCAT 12367316 >seq28803 Length=52646 Score = 98.7 bits (108), Expect = 1e-15 Identities = 156/220 (71%), Gaps = 8/220 (4%) Strand=Plus/Plus Query 41993 ACGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTC 42052 ||| | ||||||||| | || ||||||||| || |||||||| || || || ||| | Sbjct 33780 ACGGAGCACCAAATGAAGGGTTGACTCCTTTTGTATGTTGTAATCGGCAAGGGTACGCCC 33839 Query 42053 GTCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCTGGCACGCTCTCCTT 42112 ||| || |||||||| ||||| || || || ||||||||||| | ||| | | ||||| Sbjct 33840 GTCCTCCAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCCGGTGGGATCCCTTCCTT 33899 Query 42113 GTCCATGATTTTTTGTTTGAGCGTCG-CCACCGTGTC---GCTCGATTCCACATCGACCG 42168 | | ||| | || | | | | | | | | || || ||| || || || | | Sbjct 33900 AT-CTTGAATCTTGGCCTTAACATTGTCTATGGTATCTGAACTC---TCAACTTCAAGAG 33955 Query 42169 TGATGGTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 42208 ||||||| ||||| || || ||||| || ||||||||||| Sbjct 33956 TGATGGTCTTGCCAGTGAGGGTCTTAACGAAGATTTGCAT 33995 >seq9364 Length=1264 Score = 98.7 bits (108), Expect = 1e-15 Identities = 152/213 (71%), Gaps = 8/213 (4%) Strand=Plus/Plus Query 42000 ACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCGTCATCT 42059 |||||||| | ||| ||||||||| || |||||||| || || |||||| |||| || Sbjct 530 ACCAAATGGAGGGTGGACTCCTTTTGGATGTTGTAATCGGCAAGGGTCCGCCCGTCCTCC 589 Query 42060 AGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCTGGCACGCTCTCCTTGTCCATG 42119 ||||| || ||||| || || | ||||||||||| | ||| | | ||||| | | || Sbjct 590 AGCTGTTTTCCAGCAAAAATCAAACGCTGCTGGTCCGGTGGGATCCCTTCCTTAT-CTTG 648 Query 42120 ATTTTTTGTTTGAGCGTCG-CCACCGTGTCG---CTCGATTCCACATCGACCGTGATGGT 42175 | |||| | | | | | | | | || ||| ||| || || || | || ||||| Sbjct 649 AATTTTGGCCTTAACATTGTCTATGGTATCGGAACTC---TCAACTTCAAGAGTAATGGT 705 Query 42176 TTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 42208 || || || || ||||| |||||||||||||| Sbjct 706 CTTACCAGTGAGGGTCTTGACAAAGATTTGCAT 738 >seq4 Length=28907061 Score = 98.7 bits (108), Expect = 1e-15 Identities = 156/220 (71%), Gaps = 8/220 (4%) Strand=Plus/Minus Query 41993 ACGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTC 42052 ||| | ||||||||| | || ||||||||| || |||||||| || || || ||| | Sbjct 27565214 ACGGAGCACCAAATGGAGGGTAGACTCCTTTTGGATGTTGTAATCGGCAAGGGTACGCCC 27565155 Query 42053 GTCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCTGGCACGCTCTCCTT 42112 ||| || |||||||| ||||| || || || ||||||||||| | ||| | | ||||| Sbjct 27565154 GTCCTCCAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCCGGTGGGATCCCTTCCTT 27565095 Query 42113 GTCCATGATTTTTTGTTTGAGCGTCG-CCACCGTGTC---GCTCGATTCCACATCGACCG 42168 | | ||| | || | | | | | | | | || || ||| || || || | | Sbjct 27565094 AT-CTTGAATCTTGGCCTTAACATTGTCTATGGTATCTGAACTC---TCAACTTCCAGAG 27565039 Query 42169 TGATGGTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 42208 ||||||| ||||| || || ||||| || ||||||||||| Sbjct 27565038 TGATGGTCTTGCCAGTGAGGGTCTTAACGAAGATTTGCAT 27564999 >seq28626 Length=87040 Score = 93.3 bits (102), Expect = 5e-14 Identities = 148/210 (70%), Gaps = 2/210 (1%) Strand=Plus/Plus Query 42000 ACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCGTCATCT 42059 |||||||| | || ||| || || ||||| ||||| || ||||||| | | || || Sbjct 42383 ACCAAATGTAGCGTAGACTCTTTCTGGATATTATAATCCGCAAGAGTCCTCCCATCTTCC 42442 Query 42060 AGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCTGGCACGCTCTCCTTGTCCATG 42119 | ||||| || || || || | ||||||||| || | || | | |||||||| | Sbjct 42443 AATTGCTTCCCTGCAAAGATCAATCGCTGCTGATCAGGAGGAATTCCTTCCTTGTCTTGG 42502 Query 42120 ATTTTTTGTTTGAGCGTCGCC-ACCGTGTCGCTCGATTCCACATCGACCGTGATGGTTTT 42178 ||||| ||||| ||| | | | || ||| ||||| || || | || |||||||| Sbjct 42503 ATTTTGGCTTTGA-CGTTGTCGATGGTATCGGAGGATTCTACCTCTAGGGTTATGGTTTT 42561 Query 42179 GCCCGTTAGCGTCTTTACAAAGATTTGCAT 42208 ||| ||||| || || || ||||| ||||| Sbjct 42562 GCCGGTTAGGGTTTTCACGAAGATCTGCAT 42591 >seq5139 Length=1344 Score = 89.7 bits (98), Expect = 6e-13 Identities = 154/220 (70%), Gaps = 8/220 (4%) Strand=Plus/Minus Query 41993 ACGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTC 42052 ||| | ||||||||| | ||| ||||||||| || |||||||| || || || ||| | Sbjct 1312 ACGGAGCACCAAATGGAGGGTGGACTCCTTTTGGATGTTGTAATCGGCAAGGGTACGCCC 1253 Query 42053 GTCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCTGGCACGCTCTCCTT 42112 || || |||||||| ||||| || || || ||||||||||| | ||| | ||||| Sbjct 1252 ATCCTCCAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCCGGTGGGTTCCCTTCCTT 1193 Query 42113 GTCCATGATTTTTTGTTTGAGCGTCG-CCACCGTGTC---GCTCGATTCCACATCGACCG 42168 | | ||| | || | | | | | | | | || || ||| || || |||| | Sbjct 1192 AT-CTTGAATCTTGGCCTTAACATTGTCTATGGTATCTGAACTC---TCAACTTCGAGAG 1137 Query 42169 TGATGGTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 42208 |||||| ||||| || || ||||| || |||||||| || Sbjct 1136 CGATGGTCTTGCCAGTGAGGGTCTTAACGAAGATTTGTAT 1097 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 542947637461840