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_002331.1 Length=178733 Score E Sequences producing significant alignments: (Bits) Value seq1 113 5e-20 seq3 98.7 1e-15 seq9364 95.1 1e-14 seq28803 93.3 5e-14 seq28626 93.3 5e-14 seq4 93.3 5e-14 seq5139 87.8 2e-12 >seq1 Length=28142018 Score = 113 bits (124), Expect = 5e-20 Identities = 145/196 (74%), Gaps = 8/196 (4%) Strand=Plus/Plus Query 42992 CTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCGTCATCTAGCTGCTTACCAGCGAA 43051 |||||| ||||||||||||||||| ||||||| |||| || | |||||| || ||||| Sbjct 1587196 CTCCTTCTGAATATTGTAATCAGCAAGAGTCCTTCCGTCTTCCAACTGCTTTCCGGCGAA 1587255 Query 43052 TATGAGTCGCTGCTGGTCGGCCGGCACGCTCTCCTTGTCCATGATTTTTTGTTTGAGCGT 43111 ||||| || |||||||| | || | | ||||||||| ||| || ||||| ||| Sbjct 1587256 GATGAGACGTTGCTGGTCCGGAGGAATTCCTTCCTTGTCCTGGATCTTGGCTTTGA-CGT 1587314 Query 43112 CG-CCACCGTGTC---GCTCGATTCCACATCGACCGTGATGGTTTTGCCCGTTAGCGTCT 43167 | | | ||||| |||| ||||| || | |||||||| || || || || || | Sbjct 1587315 TGTCGATGGTGTCAGAGCTC---TCCACCTCAAGGGTGATGGTCTTTCCGGTGAGTGTTT 1587371 Query 43168 TTACAAAGATTTGCAT 43183 | || ||||||||||| Sbjct 1587372 TCACGAAGATTTGCAT 1587387 Score = 89.7 bits (98), Expect = 6e-13 Identities = 154/220 (70%), Gaps = 8/220 (4%) Strand=Plus/Plus Query 42968 ACGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTC 43027 ||||||||| | || | || |||||| || ||||||||||| |||| ||| || | Sbjct 1586944 ACGCAACACAAGGTGGAGGGTTGACTCCTTCTGGATATTGTAATCGGCCAAAGTACGGCC 1587003 Query 43028 GTCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCCGGCACGCTCTCCTT 43087 ||| || |||||||| || || || || | | ||||||||| | || | | ||||| Sbjct 1587004 GTCCTCAAGCTGCTTTCCGGCAAAGATCAACCTCTGCTGGTCTGGGGGGATTCCTTCCTT 1587063 Query 43088 GTCCATGATTTTTTGTTTGAGCGTCG-CCACCGTGTC---GCTCGATTCCACATCGACCG 43143 |||| ||| || |||| ||| | | | ||||| ||| ||| || || | | Sbjct 1587064 GTCCTGGATCTTGGCCTTGA-CGTTGTCGATGGTGTCAGAGCT---TTCAACCTCAAGGG 1587119 Query 43144 TGATGGTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 43183 ||||||| || || || || ||||| || ||||| ||||| Sbjct 1587120 TGATGGTCTTTCCTGTGAGAGTCTTGACGAAGATCTGCAT 1587159 >seq3 Length=31061273 Score = 98.7 bits (108), Expect = 1e-15 Identities = 156/220 (71%), Gaps = 8/220 (4%) Strand=Plus/Minus Query 42968 ACGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTC 43027 ||| | ||||||||| | ||| ||||||||| || ||||||||||| || || ||| | Sbjct 12366163 ACGGAGCACCAAATGGAGGGTGGACTCCTTTTGGATGTTGTAATCAGCAAGGGTACGCCC 12366104 Query 43028 GTCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCCGGCACGCTCTCCTT 43087 || || |||||||| ||||| || || || ||||||||||| | || | | ||||| Sbjct 12366103 ATCCTCCAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCTGATGGGATCCCTTCCTT 12366044 Query 43088 GTCCATGATTTTTTGTTTGAGCGTCG-CCACCGTGTC---GCTCGATTCCACATCGACCG 43143 | | ||| | || | | | | | | | | || || ||| || || |||| | Sbjct 12366043 AT-CTTGAATCTTGGCCTTAACATTGTCTATGGTATCTGAACTC---TCAACTTCGAGAG 12365988 Query 43144 TGATGGTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 43183 | | ||| ||||| || |||| ||| |||||||||||||| Sbjct 12365987 TAACGGTCTTGCCTGTAAGCGCCTTAACAAAGATTTGCAT 12365948 >seq9364 Length=1264 Score = 95.1 bits (104), Expect = 1e-14 Identities = 151/213 (71%), Gaps = 8/213 (4%) Strand=Plus/Plus Query 42975 ACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCGTCATCT 43034 |||||||| | ||| ||||||||| || |||||||| || || |||||| |||| || Sbjct 530 ACCAAATGGAGGGTGGACTCCTTTTGGATGTTGTAATCGGCAAGGGTCCGCCCGTCCTCC 589 Query 43035 AGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCCGGCACGCTCTCCTTGTCCATG 43094 ||||| || ||||| || || | ||||||||||| | || | | ||||| | | || Sbjct 590 AGCTGTTTTCCAGCAAAAATCAAACGCTGCTGGTCCGGTGGGATCCCTTCCTTAT-CTTG 648 Query 43095 ATTTTTTGTTTGAGCGTCG-CCACCGTGTCG---CTCGATTCCACATCGACCGTGATGGT 43150 | |||| | | | | | | | | || ||| ||| || || || | || ||||| Sbjct 649 AATTTTGGCCTTAACATTGTCTATGGTATCGGAACTC---TCAACTTCAAGAGTAATGGT 705 Query 43151 TTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 43183 || || || || ||||| |||||||||||||| Sbjct 706 CTTACCAGTGAGGGTCTTGACAAAGATTTGCAT 738 >seq28803 Length=52646 Score = 93.3 bits (102), Expect = 5e-14 Identities = 155/220 (70%), Gaps = 8/220 (4%) Strand=Plus/Plus Query 42968 ACGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTC 43027 ||| | ||||||||| | || ||||||||| || |||||||| || || || ||| | Sbjct 33780 ACGGAGCACCAAATGAAGGGTTGACTCCTTTTGTATGTTGTAATCGGCAAGGGTACGCCC 33839 Query 43028 GTCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCCGGCACGCTCTCCTT 43087 ||| || |||||||| ||||| || || || ||||||||||| | || | | ||||| Sbjct 33840 GTCCTCCAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCCGGTGGGATCCCTTCCTT 33899 Query 43088 GTCCATGATTTTTTGTTTGAGCGTCG-CCACCGTGTC---GCTCGATTCCACATCGACCG 43143 | | ||| | || | | | | | | | | || || ||| || || || | | Sbjct 33900 AT-CTTGAATCTTGGCCTTAACATTGTCTATGGTATCTGAACTC---TCAACTTCAAGAG 33955 Query 43144 TGATGGTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 43183 ||||||| ||||| || || ||||| || ||||||||||| Sbjct 33956 TGATGGTCTTGCCAGTGAGGGTCTTAACGAAGATTTGCAT 33995 >seq28626 Length=87040 Score = 93.3 bits (102), Expect = 5e-14 Identities = 148/210 (70%), Gaps = 2/210 (1%) Strand=Plus/Plus Query 42975 ACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTCGTCATCT 43034 |||||||| | || ||| || || ||||| ||||| || ||||||| | | || || Sbjct 42383 ACCAAATGTAGCGTAGACTCTTTCTGGATATTATAATCCGCAAGAGTCCTCCCATCTTCC 42442 Query 43035 AGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCCGGCACGCTCTCCTTGTCCATG 43094 | ||||| || || || || | ||||||||| || | || | | |||||||| | Sbjct 42443 AATTGCTTCCCTGCAAAGATCAATCGCTGCTGATCAGGAGGAATTCCTTCCTTGTCTTGG 42502 Query 43095 ATTTTTTGTTTGAGCGTCGCC-ACCGTGTCGCTCGATTCCACATCGACCGTGATGGTTTT 43153 ||||| ||||| ||| | | | || ||| ||||| || || | || |||||||| Sbjct 42503 ATTTTGGCTTTGA-CGTTGTCGATGGTATCGGAGGATTCTACCTCTAGGGTTATGGTTTT 42561 Query 43154 GCCCGTTAGCGTCTTTACAAAGATTTGCAT 43183 ||| ||||| || || || ||||| ||||| Sbjct 42562 GCCGGTTAGGGTTTTCACGAAGATCTGCAT 42591 >seq4 Length=28907061 Score = 93.3 bits (102), Expect = 5e-14 Identities = 155/220 (70%), Gaps = 8/220 (4%) Strand=Plus/Minus Query 42968 ACGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTC 43027 ||| | ||||||||| | || ||||||||| || |||||||| || || || ||| | Sbjct 27565214 ACGGAGCACCAAATGGAGGGTAGACTCCTTTTGGATGTTGTAATCGGCAAGGGTACGCCC 27565155 Query 43028 GTCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGTCGGCCGGCACGCTCTCCTT 43087 ||| || |||||||| ||||| || || || ||||||||||| | || | | ||||| Sbjct 27565154 GTCCTCCAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCCGGTGGGATCCCTTCCTT 27565095 Query 43088 GTCCATGATTTTTTGTTTGAGCGTCG-CCACCGTGTC---GCTCGATTCCACATCGACCG 43143 | | ||| | || | | | | | | | | || || ||| || || || | | Sbjct 27565094 AT-CTTGAATCTTGGCCTTAACATTGTCTATGGTATCTGAACTC---TCAACTTCCAGAG 27565039 Query 43144 TGATGGTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 43183 ||||||| ||||| || || ||||| || ||||||||||| Sbjct 27565038 TGATGGTCTTGCCAGTGAGGGTCTTAACGAAGATTTGCAT 27564999 >seq5139 Length=1344 Score = 87.8 bits (96), Expect = 2e-12 Identities = 156/221 (71%), Gaps = 10/221 (5%) Strand=Plus/Minus Query 42968 ACGCAACACCAAATGCAATGTGCTCTCCTTTTGAATATTGTAATCAGCCAGAGTCCGCTC 43027 ||| | ||||||||| | ||| ||||||||| || |||||||| || || || ||| | Sbjct 1312 ACGGAGCACCAAATGGAGGGTGGACTCCTTTTGGATGTTGTAATCGGCAAGGGTACGCCC 1253 Query 43028 GTCATCTAGCTGCTTACCAGCGAATATGAGTCGCTGCTGGT-CGGCCGGCACGCTCTCCT 43086 || || |||||||| ||||| || || || |||||||||| ||| || | || |||| Sbjct 1252 ATCCTCCAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCCGGTGGGTTCCCT-TCCT 1194 Query 43087 TGTCCATGATTTTTTGTTTGAGCGTCG-CCACCGTGTC---GCTCGATTCCACATCGACC 43142 | | | ||| | || | | | | | | | | || || ||| || || |||| Sbjct 1193 TAT-CTTGAATCTTGGCCTTAACATTGTCTATGGTATCTGAACTC---TCAACTTCGAGA 1138 Query 43143 GTGATGGTTTTGCCCGTTAGCGTCTTTACAAAGATTTGCAT 43183 | |||||| ||||| || || ||||| || |||||||| || Sbjct 1137 GCGATGGTCTTGCCAGTGAGGGTCTTAACGAAGATTTGTAT 1097 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 571538474386280