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_033780.1 Length=144510 Score E Sequences producing significant alignments: (Bits) Value seq3 109 5e-19 seq4 98.7 9e-16 seq28803 95.1 1e-14 seq9364 95.1 1e-14 seq1 95.1 1e-14 seq28674 89.7 5e-13 seq28626 82.4 7e-11 >seq3 Length=31061273 Score = 109 bits (120), Expect = 5e-19 Identities = 165/231 (71%), Gaps = 8/231 (3%) Strand=Plus/Minus Query 41636 CCGCCGCGTAGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAG 41695 || || || || || || || ||||| || ||| |||||||| ||||| || |||| Sbjct 12366630 CCACCACGAAGTCGCAAGACAAGATGAAGGGTGGATTCCTTCTGGATGTTGTAATCGGCC 12366571 Query 41696 AGGGTGCGCTCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCCGCGGGA 41755 | ||| || | || || |||||||| || || || ||||| | || ||||| | |||| Sbjct 12366570 AAGGTTCGGCCATCTTCCAGCTGCTTTCCAGCAAAAATCAGCCTTTGCTGGTCTGGGGGA 12366511 Query 41756 ACGCTCTCCTTGTCCATGATTTTTTGCTTCAACGACGACAC-AGTGTC---GCTCGACTC 41811 | | ||||||||| ||| | || || | ||| | || ||| || |||| || Sbjct 12366510 ATACCCTCCTTGTCT-TGAATCTTGGCCTTAACATTGTCAATAGTATCTGAGCTC---TC 12366455 Query 41812 CACCTCCACCGTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCAT 41862 ||||||| || |||||||| || || |||||||| || ||||||||||| Sbjct 12366454 AACCTCCAAAGTAATCGTTTTGCCTGTAAGCGTCTTAACAAAAATCTGCAT 12366404 Score = 87.8 bits (96), Expect = 2e-12 Identities = 155/222 (70%), Gaps = 8/222 (4%) Strand=Plus/Minus Query 41645 AGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAGAGGGTGCGC 41704 ||||| | || || || |||||| ||| |||||||||||||| || | | || || Sbjct 12367305 AGACGAAGGACAAGGTGAAGCGTGGACTCTTTCTGAATGTTATAATCAGCCAAAGTCCGG 12367246 Query 41705 TCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCCGCGGGAACGCTCTCC 41764 | || || |||||||| || || ||||||| | || ||||| | ||||| | || Sbjct 12367245 CCATCTTCAAGCTGCTTTCCAGCAAATATCAACCTTTGCTGGTCTGGGGGAATACCTTCT 12367186 Query 41765 TTGTCCATGATTTTTTGCTTCAACGACGAC-ACAGTGTC---GCTCGACTCCACCTCCAC 41820 |||||| || || |||| || | | | |||||| ||| ||| ||||||| Sbjct 12367185 TTGTCCTGTATCTTGGTCTTC-ACATTGTCAATAGTGTCTGAGCT---CTCTACCTCCAA 12367130 Query 41821 CGTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCAT 41862 || || || || || || || ||||| |||||||||||||| Sbjct 12367129 GGTAATAGTCTTTCCGGTAAGAGTCTTCACGAAAATCTGCAT 12367088 >seq4 Length=28907061 Score = 98.7 bits (108), Expect = 9e-16 Identities = 157/221 (71%), Gaps = 6/221 (3%) Strand=Plus/Minus Query 41645 AGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAGAGGGTGCGC 41704 ||||| | || ||||| || ||| |||||||| ||||| || |||| | ||| || Sbjct 27565900 AGACGAAGGACAAGATGAAGGGTGGATTCCTTCTGGATGTTGTAATCGGCCAAGGTTCGG 27565841 Query 41705 TCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCCGCGGGAACGCTCTCC 41764 | || ||||||||||| || || || |||| | || || |||| ||||| || |||| Sbjct 27565840 CCATCTTCGAGCTGCTTTCCAGCAAAAATCAACCTTTGCTGATCCGGGGGAATGCCCTCC 27565781 Query 41765 TTGTCCATGATTTTTTGCTTCAACGACGACACAGTGTCGCTCGA---CTCCACCTCCACC 41821 |||||| || | || || | || | || | ||| || || ||| ||||||| Sbjct 27565780 TTGTCC-TGTATCTTAGCCTTCACATTGTCA-ATTGTGTCT-GAGCTCTCAACCTCCAAA 27565724 Query 41822 GTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCAT 41862 ||||| || ||||| || || || || || ||||||||||| Sbjct 27565723 GTTATTGTCTTACCAGTAAGAGTTTTCACAAAAATCTGCAT 27565683 >seq28803 Length=52646 Score = 95.1 bits (104), Expect = 1e-14 Identities = 151/213 (71%), Gaps = 8/213 (4%) Strand=Plus/Plus Query 41654 ACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAGAGGGTGCGCTCGTCGTCG 41713 || ||||| || ||| |||||||| ||||| || |||| | || ||| | || ||| Sbjct 33331 ACAAGATGAAGGGTGGATTCCTTCTGGATGTTGTAATCGGCCAAAGTTCGCCCATCTTCG 33390 Query 41714 AGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCCGCGGGAACGCTCTCCTTGTCCATG 41773 |||||||| || || || |||| | || ||||| | ||| | | |||||||| | || Sbjct 33391 AGCTGCTTTCCAGCAAAGATCAACCTTTGCTGGTCTGGGGGGATACCCTCCTTGT-CTTG 33449 Query 41774 ATTTTTTGCTTCAACGACGAC-ACAGTGTC---GCTCGACTCCACCTCCACCGTTATCGT 41829 | | || || | ||| | | | |||||| ||| ||| ||||||| ||||| || Sbjct 33450 AATCTTAGCCTTAACATTGTCAATAGTGTCTGAGCT---CTCAACCTCCAAAGTTATTGT 33506 Query 41830 TTTACCCGTCAGCGTCTTTACGAAAATCTGCAT 41862 || || || || ||||| || ||||||||||| Sbjct 33507 CTTGCCAGTAAGAGTCTTCACAAAAATCTGCAT 33539 Score = 93.3 bits (102), Expect = 4e-14 Identities = 156/222 (70%), Gaps = 8/222 (4%) Strand=Plus/Minus Query 41645 AGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAGAGGGTGCGC 41704 ||||| | || ||||| || ||| |||||||| ||||| || || | | ||| || Sbjct 13178 AGACGAAGGACAAGATGAAGGGTGGATTCCTTCTGGATGTTGTAATCAGCTAAGGTTCGG 13119 Query 41705 TCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCCGCGGGAACGCTCTCC 41764 | || |||||||||| || || || |||| | || || |||| ||||| || || | Sbjct 13118 CCATCTACGAGCTGCTTTCCAGCAAAAATCAACCTTTGCTGATCCGAGGGAATGCCCTTC 13059 Query 41765 TTGTCCATGATTTTTTGCTTCAACGACGACACA-GTGTC---GCTCGACTCCACCTCCAC 41820 |||||| || || ||||| | | || ||||| |||| || ||||||| Sbjct 13058 TTGTCCTGTATCTTAGCCTTCA-CATTGTCAATCGTGTCTGAGCTC---TCAACCTCCAA 13003 Query 41821 CGTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCAT 41862 |||||||| ||||| || || || || |||||||||||||| Sbjct 13002 AGTTATCGTCTTACCAGTAAGAGTTTTGACGAAAATCTGCAT 12961 >seq9364 Length=1264 Score = 95.1 bits (104), Expect = 1e-14 Identities = 151/213 (71%), Gaps = 8/213 (4%) Strand=Plus/Plus Query 41654 ACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAGAGGGTGCGCTCGTCGTCG 41713 || ||||| || ||| |||||||| ||||| || |||| | || ||| | || ||| Sbjct 74 ACAAGATGAAGGGTGGATTCCTTCTGGATGTTGTAATCGGCCAAAGTTCGCCCATCTTCG 133 Query 41714 AGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCCGCGGGAACGCTCTCCTTGTCCATG 41773 |||||||| || || || |||| | || ||||| | ||| | | |||||||||| || Sbjct 134 AGCTGCTTTCCAGCAAAGATCAACCTTTGCTGGTCTGGGGGGATACCCTCCTTGTCC-TG 192 Query 41774 ATTTTTTGCTTCAACGACGAC-ACAGTGTC---GCTCGACTCCACCTCCACCGTTATCGT 41829 | | || |||| || | | | |||||| ||| ||| ||||||| || || || Sbjct 193 AATCTTAGCTTTCACATTGTCAATAGTGTCTGAGCT---CTCAACCTCCAAAGTAATAGT 249 Query 41830 TTTACCCGTCAGCGTCTTTACGAAAATCTGCAT 41862 || || || || ||||| || ||||||||||| Sbjct 250 CTTGCCAGTAAGGGTCTTCACAAAAATCTGCAT 282 >seq1 Length=28142018 Score = 95.1 bits (104), Expect = 1e-14 Identities = 164/232 (71%), Gaps = 10/232 (4%) Strand=Plus/Plus Query 41636 CCGCCGCGTAGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAG 41695 || || || ||||| | ||| || || || ||| ||||||||||||||| ||||| | Sbjct 1586183 CCACCACGAAGACGGAGCACAAGGTGAAGGGTGGACTCCTTCTGAATGTTGTAGTCAGCA 1586242 Query 41696 AGGGTGCGCTCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCCGCGGGA 41755 ||||| | | || || | ||| || || ||||| ||||| | ||| || || | || Sbjct 1586243 AGGGTCCTTCCATCCTCCAACTGTTTCCCTGCGAAGATCAGCCTCTGCTGATCAGGTGGG 1586302 Query 41756 ACGCTCTCCTTGTCCATGATTTTTTG-CTTCA-ACGACGACACAGTGTC---GCTCGACT 41810 | | ||||| ||| ||| |||| | ||||| | | | | || || ||| || Sbjct 1586303 ATACCTTCCTTATCC-TGAATTTTGGCCTTCACATTATCA-ATGGTATCTGAGCT---CT 1586357 Query 41811 CCACCTCCACCGTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCAT 41862 ||||||||| ||||| || ||||| |||| ||||| || ||||||||||| Sbjct 1586358 CCACCTCCAAGGTTATGGTCTTACCAGTCAAGGTCTTGACAAAAATCTGCAT 1586409 Score = 95.1 bits (104), Expect = 1e-14 Identities = 162/231 (70%), Gaps = 8/231 (3%) Strand=Plus/Plus Query 41636 CCGCCGCGTAGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGAG 41695 || || || ||||| | || ||||| |||||| |||||||||||| || || || | Sbjct 1587161 CCTCCACGCAGACGGAGAACAAGATGAAGCGTGGACTCCTTCTGAATATTGTAATCAGCA 1587220 Query 41696 AGGGTGCGCTCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCCGCGGGA 41755 || || | |||| || | |||||| |||||||| || || || || ||||||| ||| Sbjct 1587221 AGAGTCCTTCCGTCTTCCAACTGCTTTCCGGCGAAGATGAGACGTTGCTGGTCCGGAGGA 1587280 Query 41756 ACGCTCTCCTTGTCCATGATTTTTTGCTTCAACGACGAC-ACAGTGTC---GCTCGACTC 41811 | | ||||||||| || | || |||| ||| | | | ||||| ||| ||| Sbjct 1587281 ATTCCTTCCTTGTCC-TGGATCTTGGCTTTGACGTTGTCGATGGTGTCAGAGCT---CTC 1587336 Query 41812 CACCTCCACCGTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCAT 41862 |||||| | || || || || || || || || || ||||| || ||||| Sbjct 1587337 CACCTCAAGGGTGATGGTCTTTCCGGTGAGTGTTTTCACGAAGATTTGCAT 1587387 >seq28674 Length=75340 Score = 89.7 bits (98), Expect = 5e-13 Identities = 159/230 (69%), Gaps = 6/230 (3%) Strand=Plus/Minus Query 41635 GCCGCCGCGTAGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTTATAGTCGGA 41694 ||||||||| ||||| | || ||||| ||||| || || || |||||||| Sbjct 20815 GCCGCCGCGGAGACGGAGAACGAGATGGAGCGTTGATTCTTTTTGGATGTTATAANNNNN 20756 Query 41695 GAGGGTGCGCTCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTGGTCCGCGGG 41754 | || |||| ||||| || || |||||||| || || ||||||||||| | || Sbjct 20755 NNNCG---GC-CGTCTTCGAGTTGTTTTCCGGCGAAGATGAGACGCTGTTGGTCTGGTGG 20700 Query 41755 AACGCTCTCCTTGTCCATGATTTTTTGCTTCAACGACGAC-ACAGTGTCGCTCGACTCCA 41813 || | ||||| | | || |||| |||| ||| | | | |||||| || || | Sbjct 20699 AATTCCTTCCTTAT-CTTGGATTTTGGCTTTGACGTTGTCGATGGTGTCGGAGGATTCAA 20641 Query 41814 CCTCCACCGTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCATG 41863 |||| | ||||| ||||| || || || || || ||||| ||||||||| Sbjct 20640 CCTCTAGGGTTATGGTTTTGCCGGTTAGGGTTTTCACGAAGATCTGCATG 20591 Score = 84.2 bits (92), Expect = 2e-11 Identities = 165/239 (69%), Gaps = 4/239 (2%) Strand=Plus/Minus Query 41626 TACATCACCGCCGCCGCGTAGACGTAACACCAGATGCAGCGTGCTCTCCTTCTGAATGTT 41685 ||||| ||||| || || || | | || || || ||||| || |||||||| || Sbjct 21280 TACATTGCCGCCACCACGGAGCCTGAGAACAAGGTGAAGCGTAGATTCTTTCTGAATATT 21221 Query 41686 ATAGTCGGAGAGGGTGCGCTCGTCGTCGAGCTGCTTGCCGGCGAATATCAGGCGCTGTTG 41745 ||| || | || || | | || || ||||| || || || || |||| ||||| || Sbjct 21220 ATAATCAGCAAGAGTCCTTCCATCTTCAAGCTGTTTACCAGCAAAGATCAATCGCTGCTG 21161 Query 41746 GTCCGCGGGAACGCTCTCCTTGTCCATGATTTTTTGC-TTCA-ACGACGACACAGTGTCG 41803 || | |||| | |||||| ||| ||| | || || |||| | | | | ||| || Sbjct 21160 ATCAGGTGGAATCCCCTCCTTATCC-TGAATCTTCGCCTTCACATTATCA-ATAGTATCA 21103 Query 41804 CTCGACTCCACCTCCACCGTTATCGTTTTACCCGTCAGCGTCTTTACGAAAATCTGCAT 41862 ||||||||||| || ||||| || ||||||| |||||| || ||||||||||| Sbjct 21102 GAACTCTCCACCTCCAAAGTAATCGTCTTTCCCGTCAACGTCTTCACAAAAATCTGCAT 21044 >seq28626 Length=87040 Score = 82.4 bits (90), Expect = 7e-11 Identities = 137/193 (71%), Gaps = 4/193 (2%) Strand=Plus/Plus Query 41672 TCCTTCTGAATGTTATAGTCGGAGAGGGTGCGCTCGTCGTCGAGCTGCTTGCCGGCGAAT 41731 || |||||||| ||||| || | || || | | || || ||||| || ||||| || Sbjct 42173 TCTTTCTGAATATTATAATCAGCAAGAGTTCATCCATCCTCAAGCTGTTTACCGGCAAAG 42232 Query 41732 ATCAGGCGCTGTTGGTCCGCGGGAACGCTCTCCTTGTCCATGATTTTTTGC-TTCA-ACG 41789 |||| |||||||| || | |||| | |||||| ||| ||| | || || |||| | Sbjct 42233 ATCAATCGCTGTTGATCAGGTGGAATCCCCTCCTTATCC-TGAATCTTGGCCTTCACATT 42291 Query 41790 ACGACACAGTGTCGCTCGACTCCACCTCCACCGTTATCGTTTTACCCGTCAGCGTCTTTA 41849 | | | ||| || ||||||||| | || ||||| || ||||||| |||||| | Sbjct 42292 ATCA-ATAGTATCAGAACTCTCCACCTCAAGAGTAATCGTCTTCCCCGTCAACGTCTTCA 42350 Query 41850 CGAAAATCTGCAT 41862 | ||||||||||| Sbjct 42351 CAAAAATCTGCAT 42363 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 462078332081200