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_001875.2 Length=131995 Score E Sequences producing significant alignments: (Bits) Value seq9364 104 2e-17 seq4 104 2e-17 seq28803 98.7 8e-16 seq3 98.7 8e-16 seq1 95.1 1e-14 seq5139 86.0 5e-12 seq28613 84.2 2e-11 >seq9364 Length=1264 Score = 104 bits (114), Expect = 2e-17 Identities = 159/227 (70%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 20949 CCCCCTCGCAGCCTGAGCACCATATGCAAAGTGGACTCCTTTTGAATGTTATAGTCCGCC 21008 || || || || | ||| |||| ||| | |||||||||||||| ||||| || || || Sbjct 512 CCACCACGGAGACGGAGAACCAAATGGAGGGTGGACTCCTTTTGGATGTTGTAATCGGCA 571 Query 21009 AGGGTTTGGGCGTCCTCCAGCTGTTTGCCCGCATAAATAAGTCTCTGCTGGTCCACGGGC 21068 ||||| | |||||||||||||||| || ||| |||| | | |||||||||| || Sbjct 572 AGGGTCCGCCCGTCCTCCAGCTGTTTTCCAGCAAAAATCAAACGCTGCTGGTCCGGTGGG 631 Query 21069 ACGCCTTCCTTGTCGGCGATCTTTTGTTTCACCTGGCCGACAGTATCACCGGGCTCCGTT 21128 | |||||||| || || || || || | | | | ||||| ||| | Sbjct 632 ATCCCTTCCTTATCTTGAATTTTGGCCTTAACATTGTCTATGGTATCGGAACTCTCAACT 691 Query 21129 TCCACGGTAATGGTCTTGCCGGTTAACGTTTTGACAAATATTTGCAT 21175 || | ||||||||||| || || | || |||||||| |||||||| Sbjct 692 TCAAGAGTAATGGTCTTACCAGTGAGGGTCTTGACAAAGATTTGCAT 738 >seq4 Length=28907061 Score = 104 bits (114), Expect = 2e-17 Identities = 159/227 (70%), Gaps = 0/227 (0%) Strand=Plus/Minus Query 20949 CCCCCTCGCAGCCTGAGCACCATATGCAAAGTGGACTCCTTTTGAATGTTATAGTCCGCC 21008 || || || || | |||||||| ||| | || ||||||||||| ||||| || || || Sbjct 27565225 CCACCACGGAGACGGAGCACCAAATGGAGGGTAGACTCCTTTTGGATGTTGTAATCGGCA 27565166 Query 21009 AGGGTTTGGGCGTCCTCCAGCTGTTTGCCCGCATAAATAAGTCTCTGCTGGTCCACGGGC 21068 ||||| | ||||||||||||| || || ||| |||| || | |||||||||| || Sbjct 27565165 AGGGTACGCCCGTCCTCCAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCCGGTGGG 27565106 Query 21069 ACGCCTTCCTTGTCGGCGATCTTTTGTTTCACCTGGCCGACAGTATCACCGGGCTCCGTT 21128 | |||||||| || ||||| || || | | | | ||||| ||| | Sbjct 27565105 ATCCCTTCCTTATCTTGAATCTTGGCCTTAACATTGTCTATGGTATCTGAACTCTCAACT 27565046 Query 21129 TCCACGGTAATGGTCTTGCCGGTTAACGTTTTGACAAATATTTGCAT 21175 |||| || ||||||||||| || | || || || || |||||||| Sbjct 27565045 TCCAGAGTGATGGTCTTGCCAGTGAGGGTCTTAACGAAGATTTGCAT 27564999 >seq28803 Length=52646 Score = 98.7 bits (108), Expect = 8e-16 Identities = 158/227 (70%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 20949 CCCCCTCGCAGCCTGAGCACCATATGCAAAGTGGACTCCTTTTGAATGTTATAGTCCGCC 21008 || || || || | |||||||| ||| | || ||||||||||| ||||| || || || Sbjct 33769 CCACCACGGAGACGGAGCACCAAATGAAGGGTTGACTCCTTTTGTATGTTGTAATCGGCA 33828 Query 21009 AGGGTTTGGGCGTCCTCCAGCTGTTTGCCCGCATAAATAAGTCTCTGCTGGTCCACGGGC 21068 ||||| | ||||||||||||| || || ||| |||| || | |||||||||| || Sbjct 33829 AGGGTACGCCCGTCCTCCAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCCGGTGGG 33888 Query 21069 ACGCCTTCCTTGTCGGCGATCTTTTGTTTCACCTGGCCGACAGTATCACCGGGCTCCGTT 21128 | |||||||| || ||||| || || | | | | ||||| ||| | Sbjct 33889 ATCCCTTCCTTATCTTGAATCTTGGCCTTAACATTGTCTATGGTATCTGAACTCTCAACT 33948 Query 21129 TCCACGGTAATGGTCTTGCCGGTTAACGTTTTGACAAATATTTGCAT 21175 || | || ||||||||||| || | || || || || |||||||| Sbjct 33949 TCAAGAGTGATGGTCTTGCCAGTGAGGGTCTTAACGAAGATTTGCAT 33995 >seq3 Length=31061273 Score = 98.7 bits (108), Expect = 8e-16 Identities = 158/227 (70%), Gaps = 0/227 (0%) Strand=Plus/Minus Query 20949 CCCCCTCGCAGCCTGAGCACCATATGCAAAGTGGACTCCTTTTGAATGTTATAGTCCGCC 21008 || || || || | |||||||| ||| | |||||||||||||| ||||| || || || Sbjct 12366174 CCACCACGAAGACGGAGCACCAAATGGAGGGTGGACTCCTTTTGGATGTTGTAATCAGCA 12366115 Query 21009 AGGGTTTGGGCGTCCTCCAGCTGTTTGCCCGCATAAATAAGTCTCTGCTGGTCCACGGGC 21068 ||||| | | ||||||||||| || || ||| |||| || | ||||||||| || Sbjct 12366114 AGGGTACGCCCATCCTCCAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCTGATGGG 12366055 Query 21069 ACGCCTTCCTTGTCGGCGATCTTTTGTTTCACCTGGCCGACAGTATCACCGGGCTCCGTT 21128 | |||||||| || ||||| || || | | | | ||||| ||| | Sbjct 12366054 ATCCCTTCCTTATCTTGAATCTTGGCCTTAACATTGTCTATGGTATCTGAACTCTCAACT 12365995 Query 21129 TCCACGGTAATGGTCTTGCCGGTTAACGTTTTGACAAATATTTGCAT 21175 || | |||| ||||||||| || | || || ||||| |||||||| Sbjct 12365994 TCGAGAGTAACGGTCTTGCCTGTAAGCGCCTTAACAAAGATTTGCAT 12365948 Score = 87.8 bits (96), Expect = 2e-12 Identities = 138/198 (70%), Gaps = 0/198 (0%) Strand=Plus/Minus Query 20978 AGTGGACTCCTTTTGAATGTTATAGTCCGCCAGGGTTTGGGCGTCCTCCAGCTGTTTGCC 21037 ||| ||||| || || ||||||||||| || || ||| | | || || ||||| || || Sbjct 12367057 AGTTGACTCTTTCTGGATGTTATAGTCAGCAAGAGTTCTGCCATCTTCAAGCTGCTTTCC 12366998 Query 21038 CGCATAAATAAGTCTCTGCTGGTCCACGGGCACGCCTTCCTTGTCGGCGATCTTTTGTTT 21097 ||| |||| || ||||||||||| || | || || ||||| ||||| || Sbjct 12366997 AGCAAAAATGAGCCTCTGCTGGTCTGGAGGGATACCCTCTTTGTCTTGTATCTTAGCCTT 12366938 Query 21098 CACCTGGCCGACAGTATCACCGGGCTCCGTTTCCACGGTAATGGTCTTGCCGGTTAACGT 21157 ||| | | | | || || | ||| |||| |||||||||||||| || || || Sbjct 12366937 CACATTGTCAATTGTGTCTGAGCTCTCTACCTCCAAAGTAATGGTCTTGCCTGTCAATGT 12366878 Query 21158 TTTGACAAATATTTGCAT 21175 || ||||| |||||||| Sbjct 12366877 CTTTACAAAGATTTGCAT 12366860 >seq1 Length=28142018 Score = 95.1 bits (104), Expect = 1e-14 Identities = 148/212 (70%), Gaps = 0/212 (0%) Strand=Plus/Plus Query 20964 AGCACCATATGCAAAGTGGACTCCTTTTGAATGTTATAGTCCGCCAGGGTTTGGGCGTCC 21023 ||||| | || | |||||||||||| || || || || ||||| ||||| | || Sbjct 1586426 AGCACAAGGTGAAGAGTGGACTCCTTCTGGATATTGTAATCCGCAAGGGTCCTTCCATCT 1586485 Query 21024 TCCAGCTGTTTGCCCGCATAAATAAGTCTCTGCTGGTCCACGGGCACGCCTTCCTTGTCG 21083 |||| |||||||| ||| | || | |||||||| || ||| | |||||||| || Sbjct 1586486 TCCAATTGTTTGCCTGCAAAGATCAACCTCTGCTGATCTGGGGGAATACCTTCCTTATCC 1586545 Query 21084 GCGATCTTTTGTTTCACCTGGCCGACAGTATCACCGGGCTCCGTTTCCACGGTAATGGTC 21143 |||||| || || | | | | || || | |||| |||| ||| |||||| Sbjct 1586546 TGGATCTTAGCCTTGACATTGTCAATGGTGTCTGAGCTCTCCACCTCCAAGGTTATGGTC 1586605 Query 21144 TTGCCGGTTAACGTTTTGACAAATATTTGCAT 21175 || ||||| || || ||||||||||| ||||| Sbjct 1586606 TTACCGGTCAAAGTCTTGACAAATATCTGCAT 1586637 Score = 95.1 bits (104), Expect = 1e-14 Identities = 157/227 (69%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 20949 CCCCCTCGCAGCCTGAGCACCATATGCAAAGTGGACTCCTTTTGAATGTTATAGTCCGCC 21008 || || ||||| | ||| || | ||| | ||||||||||| ||||| || || || || Sbjct 1587161 CCTCCACGCAGACGGAGAACAAGATGAAGCGTGGACTCCTTCTGAATATTGTAATCAGCA 1587220 Query 21009 AGGGTTTGGGCGTCCTCCAGCTGTTTGCCCGCATAAATAAGTCTCTGCTGGTCCACGGGC 21068 || || |||| |||| ||| || || || | || || | ||||||||| || Sbjct 1587221 AGAGTCCTTCCGTCTTCCAACTGCTTTCCGGCGAAGATGAGACGTTGCTGGTCCGGAGGA 1587280 Query 21069 ACGCCTTCCTTGTCGGCGATCTTTTGTTTCACCTGGCCGACAGTATCACCGGGCTCCGTT 21128 | ||||||||||| |||||| ||| || | | ||| || ||| | |||| Sbjct 1587281 ATTCCTTCCTTGTCCTGGATCTTGGCTTTGACGTTGTCGATGGTGTCAGAGCTCTCCACC 1587340 Query 21129 TCCACGGTAATGGTCTTGCCGGTTAACGTTTTGACAAATATTTGCAT 21175 || | ||| |||||||| ||||| | ||||| || || |||||||| Sbjct 1587341 TCAAGGGTGATGGTCTTTCCGGTGAGTGTTTTCACGAAGATTTGCAT 1587387 Score = 89.7 bits (98), Expect = 4e-13 Identities = 156/227 (69%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 20949 CCCCCTCGCAGCCTGAGCACCATATGCAAAGTGGACTCCTTTTGAATGTTATAGTCCGCC 21008 || || || || | |||||| | || | ||||||||||| |||||||| ||||| || Sbjct 1586183 CCACCACGAAGACGGAGCACAAGGTGAAGGGTGGACTCCTTCTGAATGTTGTAGTCAGCA 1586242 Query 21009 AGGGTTTGGGCGTCCTCCAGCTGTTTGCCCGCATAAATAAGTCTCTGCTGGTCCACGGGC 21068 ||||| | ||||||| |||||| || || | || || |||||||| || || Sbjct 1586243 AGGGTCCTTCCATCCTCCAACTGTTTCCCTGCGAAGATCAGCCTCTGCTGATCAGGTGGG 1586302 Query 21069 ACGCCTTCCTTGTCGGCGATCTTTTGTTTCACCTGGCCGACAGTATCACCGGGCTCCGTT 21128 | |||||||| || || || ||||| | | | ||||| | |||| Sbjct 1586303 ATACCTTCCTTATCCTGAATTTTGGCCTTCACATTATCAATGGTATCTGAGCTCTCCACC 1586362 Query 21129 TCCACGGTAATGGTCTTGCCGGTTAACGTTTTGACAAATATTTGCAT 21175 |||| ||| |||||||| || || || || |||||||| || ||||| Sbjct 1586363 TCCAAGGTTATGGTCTTACCAGTCAAGGTCTTGACAAAAATCTGCAT 1586409 >seq5139 Length=1344 Score = 86.0 bits (94), Expect = 5e-12 Identities = 79/100 (79%), Gaps = 0/100 (0%) Strand=Plus/Minus Query 20963 GAGCACCATATGCAAAGTGGACTCCTTTTGAATGTTATAGTCCGCCAGGGTTTGGGCGTC 21022 |||||||| ||| | |||||||||||||| ||||| || || || ||||| | | || Sbjct 1309 GAGCACCAAATGGAGGGTGGACTCCTTTTGGATGTTGTAATCGGCAAGGGTACGCCCATC 1250 Query 21023 CTCCAGCTGTTTGCCCGCATAAATAAGTCTCTGCTGGTCC 21062 ||||||||| || || ||| |||| || | |||||||||| Sbjct 1249 CTCCAGCTGCTTTCCAGCAAAAATCAGACGCTGCTGGTCC 1210 >seq28613 Length=6376 Score = 84.2 bits (92), Expect = 2e-11 Identities = 100/136 (74%), Gaps = 0/136 (0%) Strand=Plus/Minus Query 20947 TTCCCCCTCGCAGCCTGAGCACCATATGCAAAGTGGACTCCTTTTGAATGTTATAGTCCG 21006 |||| || | ||||| || |||| || | || || ||||||||||||||||| || | Sbjct 5603 TTCCTCCCCTGAGCCTTAGGACCAAGTGAAGCGTTGATTCCTTTTGAATGTTATAATCAG 5544 Query 21007 CCAGGGTTTGGGCGTCCTCCAGCTGTTTGCCCGCATAAATAAGTCTCTGCTGGTCCACGG 21066 | || || || | || |||||||| || || ||| |||| | ||||||||||| | Sbjct 5543 CAAGAGTGCGGCCATCTTCCAGCTGCTTACCAGCAAAAATCAACCTCTGCTGGTCAGGAG 5484 Query 21067 GCACGCCTTCCTTGTC 21082 | | ||||||||||| Sbjct 5483 GGATACCTTCCTTGTC 5468 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 422058232463516