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: Raphanus_20raphanistrum_20subsp._20raphanistrum_20[genbank_20GCA_5F0 00769845.1_202014-10-28] 64,732 sequences; 253,833,977 total letters Query= NC_026928.1 Length=189418 Score E Sequences producing significant alignments: (Bits) Value seq6139 482 3e-131 seq43812 370 1e-97 seq18917 223 4e-53 seq12239 158 1e-33 seq4821 107 2e-18 seq10427 104 3e-17 seq10249 89.7 6e-13 >seq6139 Length=10899 Score = 482 bits (534), Expect = 3e-131 Identities = 709/1001 (71%), Gaps = 2/1001 (0%) Strand=Plus/Plus Query 179233 TGGACGACTGGGTTAAACGGGATCGCTTTGTCTTTGTGGGTTGGTCTGGACTCCTACTTC 179292 |||| |||||| | |||| ||||| || ||||| ||||||||||| || | || Sbjct 5086 TGGATGACTGGTTACGGAGGGACCGCTTCGTTTTTGTAGGTTGGTCTGGTCTATTGCTCT 5145 Query 179293 TTCCCACTGCTTATCTTGCCATTGGCGGTTGGCTTACTGGGACAGCTTTTGTTACGAGTT 179352 |||| ||| ||| | || | || |||||| | || || ||| | ||||| || | Sbjct 5146 TTCCTTGTGCCTATTTCGCTTTGGGGGGTTGGTTCACAGGTACAACCTTTGTAACTTCAT 5205 Query 179353 GGTACACCCACGGTCTTGCTAGTTCCTATCTTGAGGGTGCTAACTTTCTTACGGCAGCTG 179412 |||| || || || | |||||||||||| | || ||| || ||| | || || || | Sbjct 5206 GGTATACTCATGGATTGGCTAGTTCCTATTTAGAAGGTTGCAATTTTTTAACCGCTGCAG 5265 Query 179413 TCTCGACGCCTGCTGATGCTATGGGTCATTCTCTTCTTCTACTTTGGGGTCCTGAGTCTC 179472 | || || |||||| || | | | |||||| | | |||| ||||||||||| | | Sbjct 5266 TTTCTACTCCTGCTAATAGTTTAGCGCATTCTTTGTTGTTACTGTGGGGTCCTGAAGCAC 5325 Query 179473 AGGGGAATTTCCAGCGGTGGTGCCAACTTGGGGGACTCTGGAATTTCGTGGCTCTCCACG 179532 | || |||| || ||||| ||| | || || || ||| ||| || |||||||||| Sbjct 5326 AAGGAGATTTTACTCGTTGGTGTCAATTAGGCGGTCTGTGGGCTTTTGTTGCTCTCCACG 5385 Query 179533 GTGCCTTCGCTCTCATTGGTTTCATGCTTAGGCAATTTGAACTTGCTCGC-CTGATTGGT 179591 |||| ||||| | || ||||| ||| | | ||||||||||||||||| ||| | | Sbjct 5386 GTGCTTTCGCATTAATAGGTTTTATGTTACGTCAATTTGAACTTGCTCGATCTGTTCAAT 5445 Query 179592 ATCAGACCTTACAATGCGATTGCTTTTTCTGGTCCTATTGCTGTATTCGTCAGTGTTTTC 179651 | ||||||| ||||| || || || |||||||| |||||||| || || ||| || Sbjct 5446 TGC-GACCTTATAATGCAATCGCATTCTCTGGTCCAATTGCTGTTTTTGTTTCTGTCTTT 5504 Query 179652 CTCATCTATCCTTTGGGACAGTCCTCTTGGTTTTTCGCGCCGTCCTTTGGTGTCGCGGCG 179711 || || ||||| | || || || |||||| || ||||| |||||||| ||||| Sbjct 5505 CTAATTTATCCACTAGGTCAATCGGGTTGGTTCTTTGCGCCTAGTTTTGGTGTAGCGGCT 5564 Query 179712 ATCTTCAGGTTCTTGCTGTTCCTTCAGGGTTTCCACAACTGGACGCTCAACCCCTTCCAT 179771 || || | ||| | || || | || || || || || ||||| | ||||| || ||| Sbjct 5565 ATATTTCGATTCATCCTCTTTTTCCAAGGGTTTCATAATTGGACATTGAACCCATTTCAT 5624 Query 179772 ATGATGGGAGTTGCTGGTATACTAGGAGGAGCACTGCTCAGTGCTATCCATGGAGTTACT 179831 ||||||||||| |||||| |||| || | || ||| | | ||||| ||||| | |||| Sbjct 5625 ATGATGGGAGTCGCTGGTGTACTGGGCGCGGCTCTGTTATGCGCTATTCATGGTGCTACT 5684 Query 179832 GTAGAGAATACATTGTATGAAGATGGAGAACAAGCAAATACCTTTAAGGCGTTTGATTCG 179891 ||||| ||||| || | ||||||||| || |||||||| || || ||| | | Sbjct 5685 GTAGAAAATACTTTATTTGAAGATGGTGATGGTGCAAATACATTCCGTGCTTTTAACCCA 5744 Query 179892 ACACAGGAAGAAGAGACTTATTCTATGGTCACTGCAAACCGCTTCTGGTCGCAGATCTTC 179951 || || | ||||| |||||||| |||||||| || |||||||| ||||| || ||||| Sbjct 5745 ACTCAAGCCGAAGAAACTTATTCAATGGTCACCGCTAACCGCTTTTGGTCACAAATCTTT 5804 Query 179952 GGTATTGCATTTTCTAACAAGCGGTGGCTTCATTTTTTCATGTTGTTTGTGCCTGTTATG 180011 || |||| ||||| || || || ||| | ||||| || ||||| ||||| || || | Sbjct 5805 GGGGTTGCTTTTTCCAATAAACGTTGGTTACATTTCTTTATGTTATTTGTACCAGTAACT 5864 Query 180012 GGTCTATGGACATCCTCTATTGGCATTATTGGTCTTGCTCTCAACCTTCGTGCTTACGAT 180071 ||| |||||| || |||| | | ||||| ||| | ||||| ||||| || || Sbjct 5865 GGTTTATGGATGAGTGCTCTTGGAGTAGTCGGTCTAGCTTTGAACCTACGTGCCTATGAC 5924 Query 180072 TTCGTAAGTCAGGAGATCAGAGCAGCAGAAGATCCCGAGTTTGAGACCTTCTACACCAAG 180131 ||||| ||||| ||| | ||||| |||||||| || |||||||| ||||| || || Sbjct 5925 TTCGTTTCCCAGGAAATCCGTGCAGCGGAAGATCCGGAATTTGAGACTTTCTATACTAAA 5984 Query 180132 AACATTCTTCTCAATGAAGGACTACGTGCATGGTTGGCACCAGTTGATCAACCACATGAG 180191 || |||||| | || ||||| | || || ||| |||| | ||||| || ||||| Sbjct 5985 AATATTCTTTTAAACGAAGGTATTCGCGCTTGGATGGCGGCTCAAGATCAGCCTCATGAA 6044 Query 180192 TCATTCGTATTCCCAGAAGAAGTTCTGCCAAGAGGTAATGC 180232 | ||||||| || || ||||| ||| | || || || Sbjct 6045 AACCTTATATTCCCTGAGGAGGTTCTACCACGTGGAAACGC 6085 >seq43812 Length=736 Score = 370 bits (410), Expect = 1e-97 Identities = 427/575 (74%), Gaps = 0/575 (0%) Strand=Plus/Plus Query 178269 GTATTCCTGGTCTATCCTTTCGGTCAAGGTTCATTTTCTGACGCAATGCCACTTGGCATC 178328 || ||| || |||| || | |||||||| |||||||| | ||||| || || ||| Sbjct 3 GTTTTCTTGATCTACCCAATTGGTCAAGGAAGTTTTTCTGATGGTATGCCTCTAGGAATC 62 Query 178329 TCTGGTACATTCAACTACATGCTTGTTTTCCAAGCAGAACACAACATTCTGATGCACCCC 178388 |||||||| ||||||| ||| |||| ||||| || || ||||||||||| |||||||| Sbjct 63 TCTGGTACTTTCAACTTTATGATTGTATTCCAGGCTGAGCACAACATTCTTATGCACCCA 122 Query 178389 TTCCACATGTTGGGTGTCGCAGGTGTATTCGGTGGTTCACTGTTCAGTGCAATGCACGGT 178448 || |||||||| ||||| || ||||||||||| || || || || ||||| ||||| ||| Sbjct 123 TTTCACATGTTAGGTGTAGCTGGTGTATTCGGCGGCTCCCTATTTAGTGCTATGCATGGT 182 Query 178449 TCTTTGGTTACATCTTCACTCGTTCGTGAAACGACTGAAACAGAATCACAGAACTATGGT 178508 |||||||| || ||| | | | ||||| || |||| ||||| || | || Sbjct 183 TCTTTGGTAACTTCTAGTTTGATCAGGGAAACCACAGAAAATGAATCTGCTAATGAAGGG 242 Query 178509 TATAAGTTCGGACAAGAAGAAGAGACATACAACATCGTTGCAGCACATGGCTACTTCGGT 178568 || | ||||| ||||||||||| || |||||||| || || || || || || || || Sbjct 243 TACAGATTCGGTCAAGAAGAAGAAACTTACAACATTGTAGCTGCTCACGGTTATTTTGGC 302 Query 178569 CGTTTGATCTTCCAATATGCTTCATTCAACAACTCACGTTCACTGCACTTCTTCCTCGCA 178628 || |||||||||||||||||| |||||||| || ||||| | || |||||| | || Sbjct 303 CGATTGATCTTCCAATATGCTAGTTTCAACAATTCTCGTTCTTTACATTTCTTCTTAGCG 362 Query 178629 GCATGGCCTGTAGTTGGAATCTGGTTCACCGCACTGGGCGTAAGCACCATGGCATTTAAC 178688 || ||||| ||||| || || ||||| || || | || | || || ||||| || ||| Sbjct 363 GCTTGGCCGGTAGTAGGTATTTGGTTTACTGCTTTAGGTATTAGTACTATGGCTTTCAAC 422 Query 178689 CTCAATGGATTCAACTTCAACCAGTCCATCCTCGACGGACAAGGACGTGTCCTCAACACA 178748 || ||||| ||||| |||||||| || | | || | ||||||||||| | || || Sbjct 423 CTAAATGGTTTCAATTTCAACCAATCAGTAGTTGATAGTCAAGGACGTGTTATTAATACT 482 Query 178749 TGGGCAGACGTGCTCAACCGTGCCGGTCTCGGCATGGAAGTCATGCACGAGCGCAACGCG 178808 ||||| || | | |||||||| || || |||||||| ||||| || || || || Sbjct 483 TGGGCTGATATTATTAACCGTGCTAACCTTGGTATGGAAGTTATGCATGAACGTAATGCT 542 Query 178809 CACAACTTCCCGCTTGATCTTGCAGCAGCTGAGTC 178843 ||||||||||| || || || || || | |||||| Sbjct 543 CACAACTTCCCTCTAGACCTAGCTGCTGTTGAGTC 577 >seq18917 Length=3610 Score = 223 bits (246), Expect = 4e-53 Identities = 297/413 (72%), Gaps = 0/413 (0%) Strand=Plus/Plus Query 177849 TTCTGCGAGTGGGTAACTTCTACCAATAACCGCCTCTATGTCGGTTGGTTCGGCGTACTG 177908 ||||| | ||| ||||| |||| | ||||| || || | || ||||| || || || Sbjct 3193 TTCTGTAACTGGATAACTAGTACCGAAAACCGTCTTTACATTGGATGGTTTGGTGTTTTG 3252 Query 177909 ATGATTCCAACTCTGTTGGCAGCAACTATCTGTTTCATCGTCGCCTTCGTCGCTGCTCCC 177968 |||||||| || | ||| | |||||| | ||| || |||| ||| | |||||||| Sbjct 3253 ATGATTCCTACCTTATTGACCGCAACTTCCGTTTTTATTATCGCATTCATTGCTGCTCCT 3312 Query 177969 CCTGTGGACATCGACGGCATCCGTGAACCCGTCGCTGGTTCACTCATGTATGGCAACAAC 178028 || || || || || || || |||||||| || |||| || || | || || ||||| Sbjct 3313 CCAGTAGATATTGATGGTATTCGTGAACCTGTTTCTGGATCTCTTCTTTACGGAAACAAT 3372 Query 178029 ATCATCTCTGGTGCAGTTGTTCCATCTTCCAACGCAATTGGTCTTCACTTCTATCCCATC 178088 || || || ||||| || |||| |||| || |||||| | || || ||||| ||| Sbjct 3373 ATTATTTCAGGTGCCATTATTCCTACTTCTGCAGCTATTGGTTTGCATTTTTATCCGATC 3432 Query 178089 TGGGAAGCCGCATCACTTGATGAGTGGCTGTATAACGGTGGTCCTTTCCAACTCGTAGTA 178148 |||||||| ||||| ||||||| ||||| || ||||||||||||| |||| | || Sbjct 3433 TGGGAAGCTGCATCCGTTGATGAATGGCTATACAACGGTGGTCCTTATGAACTAATTGTT 3492 Query 178149 TTTCACTTCCTCATTGGTATCTATGCATACATGGGACGTGAGTGGGAACTTTCATACCGT 178208 | ||||| | ||||| | | || ||||| ||||||||||||||| | |||| Sbjct 3493 CTACACTTTTTACTTGGTGTAGCTTGTTATATGGGTCGTGAGTGGGAACTTAGTTTCCGT 3552 Query 178209 TTAGGTATGCGCCCCTGGATCTGTGTAGCATACTCTGCTCCAGTAGCAGCAGC 178261 | |||||||| || ||||| ||| ||||| || ||||| || ||||| || Sbjct 3553 CTGGGTATGCGTCCTTGGATTGCTGTTGCATATTCAGCTCCTGTTGCAGCTGC 3605 >seq12239 Length=6102 Score = 158 bits (174), Expect = 1e-33 Identities = 359/532 (67%), Gaps = 6/532 (1%) Strand=Plus/Minus Query 179251 GGGATCGCTTTGTCTTTGTGGGTTGGTCTGGACTCCTACTTCTTCCCACTGCTTATCTTG 179310 |||| ||||| || ||||| ||||||||||| || | || |||| ||| ||| | | Sbjct 595 GGGACCGCTTCGTTTTTGTAGGTTGGTCTGGTCTATTGCTCTTTCCTTGTGCCTATTTCG 536 Query 179311 CCATTGGCGGTTGGCTTACTGGGACAGCTTTTGTTACGAGTTGGTACACCCACGGTCTTG 179370 | | || |||||| | || || ||| | ||||| || ||||| | || || | | Sbjct 535 CTTTGGGGGGTTGGTTCACAGGTACAACCTTTGTAACTTCATGGTATATTCATGGATTGG 476 Query 179371 CTAGTTCCTATCTTG-AGGGTGCTAACTTTCTTACGGCAGCTGTCTCGACGCCTGCTGAT 179429 |||||| |||| | | ||| ||| |||| | || | || || || || |||||| || Sbjct 475 CTAGTTTCTATTTAGAAGGTTGCAGTCTTT-TAACCGATGCAGTTTCTACTCCTGCTAAT 417 Query 179430 GCTATGGGTCATTCTCTTCTTCTACTTTGGGGTCCTGAGTCTCAGGGGAATTTCCAGCGG 179489 | | | |||||| | | |||| | ||||| ||| | || || |||| || Sbjct 416 AGTTTAGCGCATTCTTTGTTATTACTGT-GGGTCATGAAGCACAAGGAGATTTTAGTCGT 358 Query 179490 TGGTGCCAACTTGGGGGACTCTGGAATTTCGTGGCTCTCCACGGTGCCTTCGCTCTCATT 179549 ||||| ||| | || || ||| ||| || |||||||| |||| ||||| | || Sbjct 357 TGGTGTCAATTAAACGGCCTGTGGGTTTTTGTTTCTCTCCACAGTGCTTTCGCATTAATA 298 Query 179550 GGTTTCATGCTTAGGCAATTTGAACTTGCTCG-CCTGATTGGTATCAGACCTTACAATGC 179608 ||||| ||| | | ||||||||||||||||| ||| || | ||||||| ||||| Sbjct 297 GGTTTTATGTTACGTCAATTTGAACTTGCTCGATCTG-TTCAATTGTGACCTTATAATGC 239 Query 179609 GATTGCTTTTTCTGGTCCTATTGCTGTATTCGTCAGTGTTTTCCTCATCTATCCTTTGGG 179668 || || || |||||||| ||||||| || | || || || || ||||| | || Sbjct 238 AATCGCATTCTCTGGTCCAATTGCTGGTTTTATTCCTGCCTTTCTAATTTATCC-TCAGG 180 Query 179669 ACAGTCCTCTTGGTTTTTCGCGCCGTCCTTTGGTGTCGCGGCGATCTTCAGGTTCTTGCT 179728 || || |||||| || || || |||||||| |||| || || ||||| | || Sbjct 179 TCAATCTGGTTGGTTCTTTGCACCTAGTTTTGGTGTAGCGGTTATATTTCGGTTCATCCT 120 Query 179729 GTTCCTTCAGGGTTTCCACAACTGGACGCTCAACCCCTTCCATATGATGGGA 179780 || | || | || | || ||||| | |||| | |||||||||||| Sbjct 119 CTTTTTCCAAGAGTTTTATAATTGGACATTGAACCATCTACATATGATGGGA 68 >seq4821 Length=12785 Score = 107 bits (118), Expect = 2e-18 Identities = 133/182 (73%), Gaps = 0/182 (0%) Strand=Plus/Minus Query 176350 TCCTTGACGCTGCTGAAGAAGCAGGTGTAGATATCAATTACTCTTGTCGTGCTGGTGCTT 176409 |||| ||||||||||| |||||||| | || | ||||||||| ||||||||| ||| Sbjct 11178 TCCTCGACGCTGCTGAGGAAGCAGGAATTGACTTGCCTTACTCTTGCCGTGCTGGTTCTT 11119 Query 176410 GTTCATCTTGTGCTGGCAAACTAGAGAGTGGTTCTGTTGATCAGAGTGATCAGTCTTTCC 176469 | || ||||| || ||| | | | ||| |||||||| ||| ||| ||| ||||| Sbjct 11118 GCTCGAGCTGTGCCGGTAAAGTTGTGTCTGGATCTGTTGACCAGTCTGACCAGAGTTTCC 11059 Query 176470 TGGATGATGATCAAATTGAATCTGGTTTTATTCTGACTTGCGTATCTTATCCTACTAGTG 176529 | |||||||| || |||| || || |||| ||||| | ||||||||||| || Sbjct 11058 TCGATGATGACCAGATTGCTGAAGGATTCGTTCTCACTTGTGCGGCTTATCCTACTTCTG 10999 Query 176530 AT 176531 || Sbjct 10998 AT 10997 >seq10427 Length=7142 Score = 104 bits (114), Expect = 3e-17 Identities = 132/182 (73%), Gaps = 0/182 (0%) Strand=Plus/Minus Query 176350 TCCTTGACGCTGCTGAAGAAGCAGGTGTAGATATCAATTACTCTTGTCGTGCTGGTGCTT 176409 |||| ||||||||||| |||||||| | || | ||||||||| ||||||||| ||| Sbjct 1514 TCCTCGACGCTGCTGAGGAAGCAGGAATCGACTTGCCTTACTCTTGCCGTGCTGGTTCTT 1455 Query 176410 GTTCATCTTGTGCTGGCAAACTAGAGAGTGGTTCTGTTGATCAGAGTGATCAGTCTTTCC 176469 | || ||||| || ||| | | | ||| || ||||| ||| ||| ||| ||||| Sbjct 1454 GCTCGAGCTGTGCCGGTAAAGTTGTGTCTGGATCAGTTGACCAGTCTGACCAGAGTTTCC 1395 Query 176470 TGGATGATGATCAAATTGAATCTGGTTTTATTCTGACTTGCGTATCTTATCCTACTAGTG 176529 | |||||||| || |||| || || |||| ||||| | ||||||||||| || Sbjct 1394 TCGATGATGACCAGATTGCTGAAGGATTCGTTCTCACTTGTGCGGCTTATCCTACTTCTG 1335 Query 176530 AT 176531 || Sbjct 1334 AT 1333 >seq10249 Length=7246 Score = 89.7 bits (98), Expect = 6e-13 Identities = 129/182 (71%), Gaps = 0/182 (0%) Strand=Plus/Plus Query 176350 TCCTTGACGCTGCTGAAGAAGCAGGTGTAGATATCAATTACTCTTGTCGTGCTGGTGCTT 176409 |||| |||||||| || |||||||| | || | ||||||||| ||||| ||| ||| Sbjct 5642 TCCTCGACGCTGCGGAGGAAGCAGGGATCGACTTGCCTTACTCTTGCCGTGCCGGTTCTT 5701 Query 176410 GTTCATCTTGTGCTGGCAAACTAGAGAGTGGTTCTGTTGATCAGAGTGATCAGTCTTTCC 176469 | || || || || ||| | | | |||| | ||||| ||| ||| ||| ||||| Sbjct 5702 GCTCGAGCTGCGCAGGTAAAGTTGTGTCTGGTACCGTTGACCAGTCTGACCAGAGTTTCC 5761 Query 176470 TGGATGATGATCAAATTGAATCTGGTTTTATTCTGACTTGCGTATCTTATCCTACTAGTG 176529 | |||||||| || |||| || || |||| ||||| | ||||||||||| || Sbjct 5762 TCGATGATGACCAGATTGCTGAAGGATTCGTTCTCACTTGTGCGGCTTATCCTACTTCTG 5821 Query 176530 AT 176531 || Sbjct 5822 AT 5823 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 605519247332160