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_004778.3 Length=129593 Score E Sequences producing significant alignments: (Bits) Value seq322 113 4e-20 seq1436 89.7 4e-13 seq933 87.8 1e-12 seq1740 86.0 5e-12 >seq322 Length=397916 Score = 113 bits (124), Expect = 4e-20 Identities = 163/230 (71%), Gaps = 0/230 (0%) Strand=Plus/Plus Query 18813 TTCCTCCTCGCAACCTTAACACCATGTGCAACGTAGACTCCTTTTGAATATTGTAATCCG 18872 |||| |||| ||| || | |||| || | ||||| ||||| || || |||||||| | Sbjct 312073 TTCCACCTCTCAATCTAAGTACCAAATGAAGGGTAGATTCCTTCTGTATGTTGTAATCAG 312132 Query 18873 CCATTGTTTTGGCGTCCTCCAGCTGTTTACCCGCATAAATAAGTCTCTGCTGATCCACGG 18932 | | ||| | | ||||| |||||||| || ||| | ||||| ||||||||||| | Sbjct 312133 CTAGGGTTCTTCCATCCTCAAGCTGTTTCCCTGCAAAGATAAGCCTCTGCTGATCTGGAG 312192 Query 18933 GCACGCCCTCTTTGTCGGCAATTTTCTGTTTTACCTGGCCGACAGTATCGCCAGGCTCCG 18992 | | |||||||| || ||| || ||| || | ||| |||||| | ||| Sbjct 312193 GGATTCCCTCTTTATCCTGAATCTTAGCTTTCACATTATCGATAGTATCTGAACTCTCAA 312252 Query 18993 TTTCGACGGTAATGGTTTTACCTGTTAAAGTTTTGACAAAAATTTGCATT 19042 || | ||||| ||||| ||||| ||||| || ||||||||||||||| Sbjct 312253 CCTCCAAAGTAATAGTTTTTCCTGTCAAAGTCTTAACAAAAATTTGCATT 312302 Score = 100 bits (110), Expect = 2e-16 Identities = 160/230 (70%), Gaps = 0/230 (0%) Strand=Plus/Plus Query 18813 TTCCTCCTCGCAACCTTAACACCATGTGCAACGTAGACTCCTTTTGAATATTGTAATCCG 18872 |||| |||| ||| || | ||||| || | ||||| ||||| || || |||||||| | Sbjct 312301 TTCCACCTCTCAATCTAAGCACCAAATGAAGGGTAGATTCCTTCTGTATGTTGTAATCTG 312360 Query 18873 CCATTGTTTTGGCGTCCTCCAGCTGTTTACCCGCATAAATAAGTCTCTGCTGATCCACGG 18932 | | ||| | | ||||| || ||||| || ||| | ||||| ||||||||||| | Sbjct 312361 CTAGGGTTCTTCCATCCTCAAGTTGTTTCCCTGCAAAGATAAGCCTCTGCTGATCTGGAG 312420 Query 18933 GCACGCCCTCTTTGTCGGCAATTTTCTGTTTTACCTGGCCGACAGTATCGCCAGGCTCCG 18992 | | || || || || ||| || ||| || | ||| |||||| | ||| Sbjct 312421 GGATTCCTTCCTTATCCTGAATCTTAGCTTTCACATTATCGATAGTATCTGAACTCTCAA 312480 Query 18993 TTTCGACGGTAATGGTTTTACCTGTTAAAGTTTTGACAAAAATTTGCATT 19042 || | ||||| || || ||||||||||| || |||||||| |||||| Sbjct 312481 CCTCTAAAGTAATAGTCTTTCCTGTTAAAGTCTTCACAAAAATCTGCATT 312530 Score = 95.1 bits (104), Expect = 1e-14 Identities = 157/227 (69%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 18815 CCTCCTCGCAACCTTAACACCATGTGCAACGTAGACTCCTTTTGAATATTGTAATCCGCC 18874 || || || | ||| || |||| ||| | ||||| ||||| || ||||| ||||| ||| Sbjct 333183 CCACCACGAAGCCTCAAAACCAGGTGGAGAGTAGATTCCTTCTGGATATTATAATCAGCC 333242 Query 18875 ATTGTTTTGGCGTCCTCCAGCTGTTTACCCGCATAAATAAGTCTCTGCTGATCCACGGGC 18934 | || | || |||| ||| || || ||| |||| || |||||||| |||| || Sbjct 333243 AGAGTACAACCATCTTCCAACTGCTTGCCGGCAAAAATTAGCCTCTGCTGGTCCAGAGGA 333302 Query 18935 ACGCCCTCTTTGTCGGCAATTTTCTGTTTTACCTGGCCGACAGTATCGCCAGGCTCCGTT 18994 | |||||||| || |||||| ||| || | | | | ||||||| | ||| Sbjct 333303 ATACCCTCTTTATCCTGAATTTTTGCTTTCACATTGTCAATAGTATCGAAACTCTCAACC 333362 Query 18995 TCGACGGTAATGGTTTTACCTGTTAAAGTTTTGACAAAAATTTGCAT 19041 || | || ||||| || || || | || || |||||||||||||| Sbjct 333363 TCCAAAGTTATGGTCTTTCCAGTAAGGGTCTTAACAAAAATTTGCAT 333409 Score = 89.7 bits (98), Expect = 4e-13 Identities = 140/199 (70%), Gaps = 1/199 (1%) Strand=Plus/Plus Query 18845 GTAGACTCCTTTTGAATATTGTAATCCGCCATTGTTTTGGCGTCCTCCAGCTGTTTACCC 18904 || || |||||||| || || ||||| || | ||| | | ||||| || ||||| || Sbjct 333441 GTGGATTCCTTTTGGATGTTATAATCAGCAAGGGTTCTTCCATCCTCAAGTTGTTTCCCT 333500 Query 18905 GCATAAATAAGTCTCTGCTGATCCACGGGCACGCCCTCTTTGTCGGCAATTTTCTGTTTT 18964 ||| | ||||| ||||||||||| ||| | ||||| || || ||| || ||| Sbjct 333501 GCAAAGATAAGCCTCTGCTGATCTGGGGGGATTCCCTCCTTATCCTGAATCTTAGCTTTC 333560 Query 18965 ACCTGGCCGACAGTATCGCCAGGCTCCGTTTCGACGGT-AATGGTTTTACCTGTTAAAGT 19023 || | ||| |||||| | ||| || | || ||| || || ||||||||||| Sbjct 333561 ACATTATCGATAGTATCTGAACTCTCAACCTCTAAAGTAAATAGTCTTTCCTGTTAAAGT 333620 Query 19024 TTTGACAAAAATTTGCATT 19042 ||||||||||| |||||| Sbjct 333621 CTTGACAAAAATCTGCATT 333639 Score = 87.8 bits (96), Expect = 1e-12 Identities = 138/198 (70%), Gaps = 0/198 (0%) Strand=Plus/Plus Query 18845 GTAGACTCCTTTTGAATATTGTAATCCGCCATTGTTTTGGCGTCCTCCAGCTGTTTACCC 18904 || || |||||||| || || ||||| || | ||| | | ||||| || || ||||| Sbjct 311877 GTGGATTCCTTTTGGATGTTATAATCAGCAAGGGTTCTTCCATCCTCAAGTTGCTTACCA 311936 Query 18905 GCATAAATAAGTCTCTGCTGATCCACGGGCACGCCCTCTTTGTCGGCAATTTTCTGTTTT 18964 ||| | ||||| ||||||||||| || | ||||| || || ||| || ||| Sbjct 311937 GCAAAGATAAGCCTCTGCTGATCTGGAGGGATACCCTCCTTATCCTGAATCTTAGCTTTC 311996 Query 18965 ACCTGGCCGACAGTATCGCCAGGCTCCGTTTCGACGGTAATGGTTTTACCTGTTAAAGTT 19024 || | | | |||||| | ||| || | ||||| ||||| ||||| ||||| Sbjct 311997 ACATTATCAATAGTATCTGAACTCTCAACCTCTAAAGTAATAGTTTTTCCTGTCAAAGTC 312056 Query 19025 TTGACAAAAATTTGCATT 19042 || ||||||||||||||| Sbjct 312057 TTAACAAAAATTTGCATT 312074 Score = 87.8 bits (96), Expect = 1e-12 Identities = 150/218 (69%), Gaps = 0/218 (0%) Strand=Plus/Plus Query 18824 AACCTTAACACCATGTGCAACGTAGACTCCTTTTGAATATTGTAATCCGCCATTGTTTTG 18883 |||| | ||| | ||| | || ||||||||||| || ||||||||||| | || | Sbjct 312768 AACCGCAGCACAAGGTGAAGGGTGGACTCCTTTTGGATGTTGTAATCCGCAAGGGTGCGG 312827 Query 18884 GCGTCCTCCAGCTGTTTACCCGCATAAATAAGTCTCTGCTGATCCACGGGCACGCCCTCT 18943 | || || | |||||||| ||| | ||||| || |||||||| || | || || Sbjct 312828 CCATCTTCTAATTGTTTACCGGCAAAGATAAGCCTTTGCTGATCAGGTGGAATCCCTTCC 312887 Query 18944 TTGTCGGCAATTTTCTGTTTTACCTGGCCGACAGTATCGCCAGGCTCCGTTTCGACGGTA 19003 ||||| || || ||| || | | | | ||||| | |||| || | ||| Sbjct 312888 TTGTCTTGGATCTTAGCTTTAACATTGTCTATGGTATCAGAAATCTCCACCTCAAGGGTG 312947 Query 19004 ATGGTTTTACCTGTTAAAGTTTTGACAAAAATTTGCAT 19041 ||||||||||| || || ||||| || ||||||||||| Sbjct 312948 ATGGTTTTACCGGTCAATGTTTTCACGAAAATTTGCAT 312985 Score = 86.0 bits (94), Expect = 5e-12 Identities = 155/227 (68%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 18815 CCTCCTCGCAACCTTAACACCATGTGCAACGTAGACTCCTTTTGAATATTGTAATCCGCC 18874 || |||| |||| ||||| | ||| | || ||||||||||| || |||||||| || Sbjct 333868 CCACCTCTTAACCGCAACACAAGGTGAAGGGTGGACTCCTTTTGGATGTTGTAATCTGCA 333927 Query 18875 ATTGTTTTGGCGTCCTCCAGCTGTTTACCCGCATAAATAAGTCTCTGCTGATCCACGGGC 18934 | || | | || || | |||||||| || | ||||| || |||||||| || Sbjct 333928 AGGGTGCGGCCATCTTCTAATTGTTTACCGGCGAAGATAAGCCTTTGCTGATCAGGTGGA 333987 Query 18935 ACGCCCTCTTTGTCGGCAATTTTCTGTTTTACCTGGCCGACAGTATCGCCAGGCTCCGTT 18994 | || || ||||| || || ||| || | | | | ||||| | ||||| Sbjct 333988 ATCCCTTCCTTGTCTTGGATCTTAGCTTTAACGTTGTCTATGGTATCAGAACTCTCCGCC 334047 Query 18995 TCGACGGTAATGGTTTTACCTGTTAAAGTTTTGACAAAAATTTGCAT 19041 || | ||| ||||||||||| | || ||||| || ||||||||||| Sbjct 334048 TCAAGGGTGATGGTTTTACCCATCAATGTTTTCACGAAAATTTGCAT 334094 Score = 84.2 bits (92), Expect = 2e-11 Identities = 100/136 (74%), Gaps = 0/136 (0%) Strand=Plus/Plus Query 18813 TTCCTCCTCGCAACCTTAACACCATGTGCAACGTAGACTCCTTTTGAATATTGTAATCCG 18872 |||| |||| ||| || | ||||| || | ||||| ||||| || || |||||||| | Sbjct 312529 TTCCACCTCTCAATCTAAGCACCAAATGAAGGGTAGATTCCTTCTGGATGTTGTAATCAG 312588 Query 18873 CCATTGTTTTGGCGTCCTCCAGCTGTTTACCCGCATAAATAAGTCTCTGCTGATCCACGG 18932 | | ||| | | ||||| || || || || ||| | ||||| ||||||||||| | Sbjct 312589 CTAGGGTTCTTCCATCCTCAAGTTGCTTCCCTGCAAAGATAAGCCTCTGCTGATCAGGAG 312648 Query 18933 GCACGCCCTCTTTGTC 18948 | | |||||||||||| Sbjct 312649 GGATGCCCTCTTTGTC 312664 >seq1436 Length=88924 Score = 89.7 bits (98), Expect = 4e-13 Identities = 156/227 (69%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 18815 CCTCCTCGCAACCTTAACACCATGTGCAACGTAGACTCCTTTTGAATATTGTAATCCGCC 18874 ||||| ||||||| | ||| | || | ||| ||||| || || ||||| |||||||| Sbjct 38765 CCTCCACGCAACCGAAGCACTAAATGAAGCGTGGACTCTTTCTGGATATTATAATCCGCA 38824 Query 18875 ATTGTTTTGGCGTCCTCCAGCTGTTTACCCGCATAAATAAGTCTCTGCTGATCCACGGGC 18934 | ||| | | || |||| || || || ||| | || | || ||||||||| || Sbjct 38825 AGAGTTCTCCCATCTTCCAATTGCTTCCCTGCAAAGATCAATCGCTGCTGATCAGGAGGG 38884 Query 18935 ACGCCCTCTTTGTCGGCAATTTTCTGTTTTACCTGGCCGACAGTATCGCCAGGCTCCGTT 18994 | || ||||| || ||| ||| || || | | ||| || ||| | || | Sbjct 38885 ATTCCTTCTTTATCCTGAATCTTCGCCTTCACGTTGTCGATTGTGTCGGAGGATTCAACT 38944 Query 18995 TCGACGGTAATGGTTTTACCTGTTAAAGTTTTGACAAAAATTTGCAT 19041 |||| || |||||||| || |||| ||||||||||| |||||||| Sbjct 38945 TCGAGTGTGATGGTTTTTCCAGTTAGGGTTTTGACAAAGATTTGCAT 38991 >seq933 Length=173040 Score = 87.8 bits (96), Expect = 1e-12 Identities = 150/218 (69%), Gaps = 0/218 (0%) Strand=Plus/Minus Query 18824 AACCTTAACACCATGTGCAACGTAGACTCCTTTTGAATATTGTAATCCGCCATTGTTTTG 18883 |||| | ||| | ||| | || ||||||||||| || ||||||||||| | || | Sbjct 29230 AACCGCAGCACAAGGTGAAGGGTGGACTCCTTTTGGATGTTGTAATCCGCAAGGGTGCGG 29171 Query 18884 GCGTCCTCCAGCTGTTTACCCGCATAAATAAGTCTCTGCTGATCCACGGGCACGCCCTCT 18943 | || |||| |||||||| ||| | ||||| || |||||||| || | || || Sbjct 29170 CCATCTTCCAATTGTTTACCAGCAAAGATAAGCCTTTGCTGATCTGGTGGAATCCCTTCC 29111 Query 18944 TTGTCGGCAATTTTCTGTTTTACCTGGCCGACAGTATCGCCAGGCTCCGTTTCGACGGTA 19003 ||||| || || ||| || | | | | ||||| | |||| || | ||| Sbjct 29110 TTGTCTTGGATCTTAGCTTTAACGTTGTCTATGGTATCAGAACTCTCCACCTCAAGGGTG 29051 Query 19004 ATGGTTTTACCTGTTAAAGTTTTGACAAAAATTTGCAT 19041 |||||||| || || || ||||| || ||||||||||| Sbjct 29050 ATGGTTTTGCCAGTCAATGTTTTCACGAAAATTTGCAT 29013 Score = 86.0 bits (94), Expect = 5e-12 Identities = 155/227 (68%), Gaps = 0/227 (0%) Strand=Plus/Minus Query 18815 CCTCCTCGCAACCTTAACACCATGTGCAACGTAGACTCCTTTTGAATATTGTAATCCGCC 18874 || || || | ||| || |||| |||||| ||||| ||||| || ||||| ||||| ||| Sbjct 30151 CCACCACGAAGCCTCAAAACCAAGTGCAAAGTAGATTCCTTCTGGATATTATAATCAGCC 30092 Query 18875 ATTGTTTTGGCGTCCTCCAGCTGTTTACCCGCATAAATAAGTCTCTGCTGATCCACGGGC 18934 | || | || |||| ||| || || ||| |||| || |||||||| || || Sbjct 30091 AGAGTACGACCATCTTCCAACTGCTTCCCGGCAAAAATTAGCCTCTGCTGGTCTGGAGGA 30032 Query 18935 ACGCCCTCTTTGTCGGCAATTTTCTGTTTTACCTGGCCGACAGTATCGCCAGGCTCCGTT 18994 | |||||||| || |||||| || || | | | | |||||| | ||| Sbjct 30031 ATACCCTCTTTATCCTGAATTTTTGCCTTCACATTGTCAATTGTATCGGAACTCTCAACC 29972 Query 18995 TCGACGGTAATGGTTTTACCTGTTAAAGTTTTGACAAAAATTTGCAT 19041 || | || ||||| || || || | || || |||||||||||||| Sbjct 29971 TCCAATGTTATGGTCTTTCCAGTAAGGGTCTTAACAAAAATTTGCAT 29925 Score = 84.2 bits (92), Expect = 2e-11 Identities = 100/136 (74%), Gaps = 0/136 (0%) Strand=Plus/Minus Query 18813 TTCCTCCTCGCAACCTTAACACCATGTGCAACGTAGACTCCTTTTGAATATTGTAATCCG 18872 |||| |||| ||| || | ||||| || | ||||| ||||| || || |||||||| | Sbjct 29469 TTCCACCTCTCAATCTAAGCACCAAATGAAGGGTAGATTCCTTCTGGATGTTGTAATCAG 29410 Query 18873 CCATTGTTTTGGCGTCCTCCAGCTGTTTACCCGCATAAATAAGTCTCTGCTGATCCACGG 18932 | | ||| | | ||||| || || || || ||| | ||||| ||||||||||| | Sbjct 29409 CTAGGGTTCTTCCATCCTCAAGTTGCTTCCCTGCAAAGATAAGCCTCTGCTGATCAGGAG 29350 Query 18933 GCACGCCCTCTTTGTC 18948 | | |||||||||||| Sbjct 29349 GGATGCCCTCTTTGTC 29334 >seq1740 Length=56962 Score = 86.0 bits (94), Expect = 5e-12 Identities = 137/197 (70%), Gaps = 0/197 (0%) Strand=Plus/Plus Query 18845 GTAGACTCCTTTTGAATATTGTAATCCGCCATTGTTTTGGCGTCCTCCAGCTGTTTACCC 18904 ||||| ||||| || || |||||||| |||| |||| | | || || ||||| || || Sbjct 42801 GTAGATTCCTTCTGGATGTTGTAATCAGCCAATGTTCGGCCATCTTCAAGCTGCTTTCCA 42860 Query 18905 GCATAAATAAGTCTCTGCTGATCCACGGGCACGCCCTCTTTGTCGGCAATTTTCTGTTTT 18964 ||| |||| | || ||||| ||| || | |||||| ||||| || || |||| Sbjct 42861 GCAAAAATCAACCTTTGCTGGTCCGGAGGAATGCCCTCCTTGTCCTGGATCTTAGCTTTT 42920 Query 18965 ACCTGGCCGACAGTATCGCCAGGCTCCGTTTCGACGGTAATGGTTTTACCTGTTAAAGTT 19024 || | | | | || || | ||| || | ||||||||||| ||||| || || Sbjct 42921 ACATTGTCAATCGTGTCTGAACTCTCAACCTCCAAAGTAATGGTTTTCCCTGTCAATGTC 42980 Query 19025 TTGACAAAAATTTGCAT 19041 || |||||||| ||||| Sbjct 42981 TTTACAAAAATCTGCAT 42997 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 414434237333056