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_021247.1 Length=228750 Score E Sequences producing significant alignments: (Bits) Value seq2 150 3e-31 seq28674 140 5e-28 seq28226 114 2e-20 seq4 114 2e-20 seq28626 98.7 1e-15 seq9364 98.7 1e-15 seq28803 95.1 2e-14 >seq2 Length=32560536 Score = 150 bits (166), Expect = 3e-31 Identities = 240/345 (70%), Gaps = 3/345 (1%) Strand=Plus/Minus Query 18147 AATATAATAAACACGCAAAATCAGTGTGTAAACCTTCATCTCTGGATATTAATTCGTTAC 18206 |||| | |||||| || |||||| || | |||||| || | || || | ||||| Sbjct 19587409 AATAAAGTAAACAAGCGAAATCACAATGAAGACCTTCGTCACGTGAAATAAGCTCGTTTG 19587350 Query 18207 TAAACGTTAACCCGGGCATTATACCTCttttttttAGCCAAAATATCGATGCGAAACTAC 18266 ||| ||||| || ||||||| ||| | |||||| ||||| || || | ||||| | Sbjct 19587349 AAAAAGTTAAACCAGGCATTAAACCACGTTTTTTAAGCCAGAAAATTGCACAAAAACTTC 19587290 Query 18267 TAGAAAAGAATATACCCTCAACGCACGCGAACGCTATTAATCTTTCAGCAAAACTGTATT 18326 |||||| |||||||| ||||| || || || || | | |||||||||||| || || Sbjct 19587289 CAGAAAAAAATATACCTTCAACACAAGCAAAAGCAACGATTCTTTCAGCAAA--TGAATC 19587232 Query 18327 TATTGCTCAGTATCCATTTTTGTGCCCATTCTCCTTNNNNNNNNATACACGGTATACTCT 18386 || | |||||||| ||||| || ||| |||||||| || ||| Sbjct 19587231 AGATGAATCG-ATCCATTTCATAGCCCAATCAGCTTTCTTCGCGATACACGGAATCGTCT 19587173 Query 18387 CTATAGCATTAAACAAATCATCTTTTTCTTTGGAATCTTTTATATAAGTGTCGATTAACA 18446 | || |||| ||||||| || || || | ||||| || |||||||| || || || | Sbjct 19587172 CAATTGCATGAAACAAACGATTCTTCTCAATAGAATCATTGATATAAGTTTCAATCAAGA 19587113 Query 18447 AAGAATACATTTCAGAATGTATGCTTTCCATAGCTATCTGAAAAC 18491 | |||||| |||||||| || |||| || || ||||| |||| Sbjct 19587112 GACTATACATCTCAGAATGAATATTTTCGATCGCGATCTGGAAAC 19587068 >seq28674 Length=75340 Score = 140 bits (154), Expect = 5e-28 Identities = 167/227 (74%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 155823 ATGCAAATATTTATTAAAACATTGACTGGAAAAACTATTACATTAGAAGTCGAAGATTCT 155882 |||||||| || | ||||| | ||||| ||||| || ||| | ||||||||| |||| Sbjct 20816 ATGCAAATCTTCGTCAAAACCCTAACTGGCAAAACCATCACACTCGAAGTCGAATCTTCT 20875 Query 155883 GATAATATTTTAAACGTGAAAAATAAAATACAAGATAAAGAAGGCATACCTCCAGAACAA 155942 || | || |||||||| || || |||||||||||||| || ||||| || ||| Sbjct 20876 GACACAATCGACAACGTGAAGGCAAAGATTCAAGATAAAGAAGGAATTCCTCCTGATCAA 20935 Query 155943 CAAAGATTGATTTATGCCGGTAAGCAGCTCGAAGATACCAGAACTTTATCAGATTATAAT 156002 ||| ||||||| | ||| || ||||| | |||||| |||||| | | ||||||||| Sbjct 20936 CAACGATTGATCTTTGCAGGAAAGCAATTGGAAGATGGTAGAACTCTTGCTGATTATAAT 20995 Query 156003 ATATCCAAAGAGGCGACGCTTCATTTAGTGTTAAGATTAAGAGGCGG 156049 || |||||| | ||||||||||| || | || ||| | || || Sbjct 20996 ATCCAGAAAGAGTCTACGCTTCATTTGGTTCTTAGGTTACGTGGTGG 21042 Score = 107 bits (118), Expect = 3e-18 Identities = 146/204 (72%), Gaps = 0/204 (0%) Strand=Plus/Plus Query 155822 AATGCAAATATTTATTAAAACATTGACTGGAAAAACTATTACATTAGAAGTCGAAGATTC 155881 |||||| || ||| | || || ||||| ||||| || ||||| || || || || ||| Sbjct 21043 AATGCAGATTTTTGTGAAGACGTTGACGGGAAAGACGATTACTTTGGAGGTGGAGAGTTC 21102 Query 155882 TGATAATATTTTAAACGTGAAAAATAAAATACAAGATAAAGAAGGCATACCTCCAGAACA 155941 ||||| |||| || ||||| || || || ||||| || || || || || || || Sbjct 21103 TGATACTATTGATAATGTGAAGGCGAAGATTCAGGATAAGGAGGGGATTCCACCTGATCA 21162 Query 155942 ACAAAGATTGATTTATGCCGGTAAGCAGCTCGAAGATACCAGAACTTTATCAGATTATAA 156001 || ||||||| | ||| ||||| ||||| |||||| || ||| | | |||||||| Sbjct 21163 GCAGCGATTGATCTTTGCTGGTAAACAGCTTGAAGATGGAAGGACTCTTGCTGATTATAA 21222 Query 156002 TATATCCAAAGAGGCGACGCTTCA 156025 ||| ||||| | |||||||| Sbjct 21223 TATTCAGAAAGAATCTACGCTTCA 21246 >seq28226 Length=90112 Score = 114 bits (126), Expect = 2e-20 Identities = 231/343 (67%), Gaps = 3/343 (1%) Strand=Plus/Minus Query 18147 AATATAATAAACACGCAAAATCAGTGTGTAAACCTTCATCTCTGGATATTAATTCGTTAC 18206 |||| | ||||| |||||||| || | ||||| || | || || | || || Sbjct 34805 AATAAATCAAACAGGCAAAATCGCAATGAAGTCCTTCGTCGCGTGAAATAAGCTCATTTG 34746 Query 18207 TAAACGTTAACCCGGGCATTATACCTCttttttttAGCCAAAATATCGATGCGAAACTAC 18266 ||| ||||| || ||||||| ||| | |||||| |||||||| || | |||||| | Sbjct 34745 AAAAAGTTAAACCAGGCATTAAACCACGTTTTTTAAGCCAAAAAATTGCACAGAAACTTC 34686 Query 18267 TAGAAAAGAATATACCCTCAACGCACGCGAACGCTATTAATCTTTCAGCAAAACTGTATT 18326 ||| || |||||||| ||||| || || || || | | ||||||||||| || || Sbjct 34685 CAGAGAAAAATATACCTTCAACACAAGCAAAAGCAACGATCCTTTCAGCAAA--TGAATC 34628 Query 18327 TATTGCTCAGTATCCATTTTTGTGCCCATTCTCCTTNNNNNNNNATACACGGTATACTCT 18386 || | |||||||| ||||| || ||| ||||| || ||| ||| Sbjct 34627 AGATGAATCG-ATCCATTTCATAGCCCAATCAGCTTTCTTTGTAATACAAGGAATAGTCT 34569 Query 18387 CTATAGCATTAAACAAATCATCTTTTTCTTTGGAATCTTTTATATAAGTGTCGATTAACA 18446 | || || | ||||||| || || || ||||| | |||||||| || || || | Sbjct 34568 CAATCGCGTGAAACAAACGATTCTTCTCAACAGAATCATGGATATAAGTTTCAATCAAGA 34509 Query 18447 AAGAATACATTTCAGAATGTATGCTTTCCATAGCTATCTGAAA 18489 | |||||| |||||||| || | || || || ||||| || Sbjct 34508 GACTATACATCTCAGAATGAATATTCTCGATCGCAATCTGGAA 34466 >seq4 Length=28907061 Score = 114 bits (126), Expect = 2e-20 Identities = 147/203 (72%), Gaps = 0/203 (0%) Strand=Plus/Plus Query 155823 ATGCAAATATTTATTAAAACATTGACTGGAAAAACTATTACATTAGAAGTCGAAGATTCT 155882 ||||| || ||| |||| || | |||||||| || || || | || || || |||| Sbjct 27565455 ATGCAGATCTTTGTTAAGACCCTCACTGGAAAGACCATCACCCTTGAGGTGGAGAGTTCT 27565514 Query 155883 GATAATATTTTAAACGTGAAAAATAAAATACAAGATAAAGAAGGCATACCTCCAGAACAA 155942 || | || || || || || ||||||||||||||||| || || ||||| || Sbjct 27565515 GACACCATAGACAATGTCAAGGCCAAGATACAAGATAAAGAAGGTATTCCCCCAGATCAG 27565574 Query 155943 CAAAGATTGATTTATGCCGGTAAGCAGCTCGAAGATACCAGAACTTTATCAGATTATAAT 156002 || || ||||||| |||||| ||||||||||||||| |||||| | | |||||||| Sbjct 27565575 CAGAGGTTGATTTTTGCCGGAAAGCAGCTCGAAGATGGCAGAACCCTGGCTGATTATAAC 27565634 Query 156003 ATATCCAAAGAGGCGACGCTTCA 156025 || |||||| | || ||||| Sbjct 27565635 ATCCAGAAAGAGTCAACTCTTCA 27565657 Score = 100 bits (110), Expect = 4e-16 Identities = 144/203 (71%), Gaps = 0/203 (0%) Strand=Plus/Plus Query 155823 ATGCAAATATTTATTAAAACATTGACTGGAAAAACTATTACATTAGAAGTCGAAGATTCT 155882 |||||||||||| |||| || | || ||||| || || || | || || || ||| Sbjct 27565227 ATGCAAATATTTGTTAAGACCCTCACCGGAAAGACAATCACCCTTGAGGTGGAGAGCTCT 27565286 Query 155883 GATAATATTTTAAACGTGAAAAATAAAATACAAGATAAAGAAGGCATACCTCCAGAACAA 155942 |||| ||| || || || || || ||||| ||||| || || || ||||| || Sbjct 27565287 GATACCATTGACAATGTCAAGGCCAAGATTCAAGACAAAGAGGGAATCCCACCAGACCAG 27565346 Query 155943 CAAAGATTGATTTATGCCGGTAAGCAGCTCGAAGATACCAGAACTTTATCAGATTATAAT 156002 ||||| ||||||| ||| || ||||||||||||||| | | || ||| | ||||| || Sbjct 27565347 CAAAGGTTGATTTTTGCTGGAAAGCAGCTCGAAGATGGCCGGACCTTAGCTGATTACAAC 27565406 Query 156003 ATATCCAAAGAGGCGACGCTTCA 156025 || ||||| | || ||||| Sbjct 27565407 ATCCAGAAAGAATCCACTCTTCA 27565429 Score = 89.7 bits (98), Expect = 8e-13 Identities = 129/182 (71%), Gaps = 0/182 (0%) Strand=Plus/Plus Query 155823 ATGCAAATATTTATTAAAACATTGACTGGAAAAACTATTACATTAGAAGTCGAAGATTCT 155882 ||||| || ||| | ||||| | ||||| || || || || || || || || || Sbjct 27565683 ATGCAGATTTTTGTGAAAACTCTTACTGGTAAGACAATAACTTTGGAGGTTGAGAGCTCA 27565742 Query 155883 GATAATATTTTAAACGTGAAAAATAAAATACAAGATAAAGAAGGCATACCTCCAGAACAA 155942 || | ||| || ||||| ||| ||||| || || || ||||| || || || || Sbjct 27565743 GACACAATTGACAATGTGAAGGCTAAGATACAGGACAAGGAGGGCATTCCCCCGGATCAG 27565802 Query 155943 CAAAGATTGATTTATGCCGGTAAGCAGCTCGAAGATACCAGAACTTTATCAGATTATAAT 156002 ||||| ||||||| ||| || ||||||||||||||| | |||| || | ||||| || Sbjct 27565803 CAAAGGTTGATTTTTGCTGGAAAGCAGCTCGAAGATGGCCGAACCTTGGCCGATTACAAC 27565862 Query 156003 AT 156004 || Sbjct 27565863 AT 27565864 Score = 84.2 bits (92), Expect = 3e-11 Identities = 106/146 (73%), Gaps = 0/146 (0%) Strand=Plus/Plus Query 155823 ATGCAAATATTTATTAAAACATTGACTGGAAAAACTATTACATTAGAAGTCGAAGATTCT 155882 ||||| || ||| | || || ||||||||||| || |||||||| || || ||| ||| Sbjct 27565911 ATGCAGATCTTTGTGAAGACTTTGACTGGAAAGACCATTACATTGGAGGTAGAAAGTTCA 27565970 Query 155883 GATAATATTTTAAACGTGAAAAATAAAATACAAGATAAAGAAGGCATACCTCCAGAACAA 155942 |||| || || || || ||||||||||| || || || || || ||||| || Sbjct 27565971 GATACGATCGATAATGTCAAGGCAAAAATACAAGACAAGGAGGGAATCCCACCAGATCAG 27566030 Query 155943 CAAAGATTGATTTATGCCGGTAAGCA 155968 || || ||||| | ||| || ||||| Sbjct 27566031 CAGAGGTTGATCTTTGCTGGCAAGCA 27566056 >seq28626 Length=87040 Score = 98.7 bits (108), Expect = 1e-15 Identities = 144/204 (71%), Gaps = 0/204 (0%) Strand=Plus/Minus Query 155822 AATGCAAATATTTATTAAAACATTGACTGGAAAAACTATTACATTAGAAGTCGAAGATTC 155881 |||||| || ||| | || || ||||| || || || ||||| | || || || ||| Sbjct 42364 AATGCAGATTTTTGTGAAGACGTTGACGGGGAAGACGATTACTCTTGAGGTGGAGAGTTC 42305 Query 155882 TGATAATATTTTAAACGTGAAAAATAAAATACAAGATAAAGAAGGCATACCTCCAGAACA 155941 ||||| |||| || ||||| || || || ||||| || || || || || || || Sbjct 42304 TGATACTATTGATAATGTGAAGGCCAAGATTCAGGATAAGGAGGGGATTCCACCTGATCA 42245 Query 155942 ACAAAGATTGATTTATGCCGGTAAGCAGCTCGAAGATACCAGAACTTTATCAGATTATAA 156001 ||| ||||||| | ||||||||| ||||| || ||| ||||| | | |||||||| Sbjct 42244 ACAGCGATTGATCTTTGCCGGTAAACAGCTTGAGGATGGATGAACTCTTGCTGATTATAA 42185 Query 156002 TATATCCAAAGAGGCGACGCTTCA 156025 ||| ||||| | || ||||| Sbjct 42184 TATTCAGAAAGAATCTACACTTCA 42161 Score = 93.3 bits (102), Expect = 6e-14 Identities = 146/209 (70%), Gaps = 0/209 (0%) Strand=Plus/Minus Query 155823 ATGCAAATATTTATTAAAACATTGACTGGAAAAACTATTACATTAGAAGTCGAAGATTCT 155882 ||||| || || | ||||| | || || ||||| || || |||| || ||| || Sbjct 42591 ATGCAGATCTTCGTGAAAACCCTAACCGGCAAAACCATAACCCTAGAGGTAGAATCCTCC 42532 Query 155883 GATAATATTTTAAACGTGAAAAATAAAATACAAGATAAAGAAGGCATACCTCCAGAACAA 155942 |||| || ||||| ||| ||||| ||||| || ||||| || ||||| || || Sbjct 42531 GATACCATCGACAACGTCAAAGCCAAAATCCAAGACAAGGAAGGAATTCCTCCTGATCAG 42472 Query 155943 CAAAGATTGATTTATGCCGGTAAGCAGCTCGAAGATACCAGAACTTTATCAGATTATAAT 156002 || ||||||| | ||| || ||||| | |||||| || ||| | | ||||||||| Sbjct 42471 CAGCGATTGATCTTTGCAGGGAAGCAATTGGAAGATGGGAGGACTCTTGCGGATTATAAT 42412 Query 156003 ATATCCAAAGAGGCGACGCTTCATTTAGT 156031 || |||||| | ||||| ||||| || Sbjct 42411 ATCCAGAAAGAGTCTACGCTACATTTGGT 42383 >seq9364 Length=1264 Score = 98.7 bits (108), Expect = 1e-15 Identities = 149/212 (70%), Gaps = 0/212 (0%) Strand=Plus/Minus Query 155823 ATGCAAATATTTATTAAAACATTGACTGGAAAAACTATTACATTAGAAGTCGAAGATTCT 155882 |||||||| ||| | || || | |||||||| || || || | || || || |||| Sbjct 510 ATGCAAATCTTTGTGAAGACTCTCACTGGAAAGACCATCACCCTCGAGGTGGAGAGTTCT 451 Query 155883 GATAATATTTTAAACGTGAAAAATAAAATACAAGATAAAGAAGGCATACCTCCAGAACAA 155942 || | || || || || || || ||||| ||||| || || || ||||| || Sbjct 450 GACACCATAGACAATGTCAAGGCCAAGATTCAAGACAAAGAGGGAATCCCACCAGACCAG 391 Query 155943 CAAAGATTGATTTATGCCGGTAAGCAGCTCGAAGATACCAGAACTTTATCAGATTATAAT 156002 ||||| ||||||| ||| || ||||||||||||||| ||| || ||| | ||||| || Sbjct 390 CAAAGGTTGATTTTTGCTGGAAAGCAGCTCGAAGATGGCAGGACCTTAGCTGATTACAAC 331 Query 156003 ATATCCAAAGAGGCGACGCTTCATTTAGTGTT 156034 || ||||| | || |||||| | || || Sbjct 330 ATCCAGAAAGAATCCACTCTTCATCTTGTCTT 299 Score = 95.1 bits (104), Expect = 2e-14 Identities = 130/182 (71%), Gaps = 0/182 (0%) Strand=Plus/Minus Query 155823 ATGCAAATATTTATTAAAACATTGACTGGAAAAACTATTACATTAGAAGTCGAAGATTCT 155882 ||||| || ||| | || || | ||||| || |||||||| || || || || || Sbjct 282 ATGCAGATTTTTGTGAAGACCCTTACTGGCAAGACTATTACTTTGGAGGTTGAGAGCTCA 223 Query 155883 GATAATATTTTAAACGTGAAAAATAAAATACAAGATAAAGAAGGCATACCTCCAGAACAA 155942 || | |||| || |||||| ||| || || || || || || || || ||||| || Sbjct 222 GACACTATTGACAATGTGAAAGCTAAGATTCAGGACAAGGAGGGTATCCCCCCAGACCAG 163 Query 155943 CAAAGATTGATTTATGCCGGTAAGCAGCTCGAAGATACCAGAACTTTATCAGATTATAAT 156002 ||||| ||||| | ||| || ||||||||||||||| ||||||| | ||||| || Sbjct 162 CAAAGGTTGATCTTTGCTGGAAAGCAGCTCGAAGATGGGCGAACTTTGGCCGATTACAAC 103 Query 156003 AT 156004 || Sbjct 102 AT 101 >seq28803 Length=52646 Score = 95.1 bits (104), Expect = 2e-14 Identities = 148/212 (70%), Gaps = 0/212 (0%) Strand=Plus/Minus Query 155823 ATGCAAATATTTATTAAAACATTGACTGGAAAAACTATTACATTAGAAGTCGAAGATTCT 155882 ||||| || ||| |||| || | || ||||| || || || | || || || |||| Sbjct 33767 ATGCAGATCTTTGTTAAGACCCTCACCGGAAAGACCATCACCCTTGAGGTGGAGAGTTCT 33708 Query 155883 GATAATATTTTAAACGTGAAAAATAAAATACAAGATAAAGAAGGCATACCTCCAGAACAA 155942 || | || || || || || || ||||| ||||| || || || ||||| || Sbjct 33707 GACACCATAGACAATGTCAAGGCCAAGATTCAAGACAAAGAGGGAATCCCACCAGACCAG 33648 Query 155943 CAAAGATTGATTTATGCCGGTAAGCAGCTCGAAGATACCAGAACTTTATCAGATTATAAT 156002 ||||| ||||||| ||| || ||||||||||||||| ||| || ||| | ||||| || Sbjct 33647 CAAAGGTTGATTTTTGCTGGAAAGCAGCTCGAAGATGGCAGGACCTTAGCTGATTACAAC 33588 Query 156003 ATATCCAAAGAGGCGACGCTTCATTTAGTGTT 156034 || ||||| | || |||||| | || || Sbjct 33587 ATCCAGAAAGAATCCACTCTTCATCTTGTCTT 33556 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 731514745831600