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: Gossypium_20raimondii_20[refseq_20GCF_5F000327365.1_202012-12-20] 1,034 sequences; 761,565,430 total letters Query= NC_004105.1 Length=209771 Score E Sequences producing significant alignments: (Bits) Value seq11 158 2e-33 seq1 138 2e-27 seq3 96.9 5e-15 seq2 91.5 2e-13 >seq11 Length=62681010 Score = 158 bits (174), Expect = 2e-33 Identities = 390/587 (66%), Gaps = 6/587 (1%) Strand=Plus/Minus Query 42057 ACATCAAACATGCGAAATCGCAGTGCAGACCCTCATCTCTACTAATTAATTCGTTGGAAA 42116 ||| ||| || |||||||||||||| ||||| ||||||| ||||| ||||| || | Sbjct 8942328 ACAGCAAGCAAGCGAAATCGCAGTGGAGACCTTCATCTCGTGAGATTAACTCGTTTGAGA 8942269 Query 42117 ACGTGAGTCCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATAGACGCA-AATGATCCA 42175 | || | ||||||||||| || | |||||| | ||||||||| | | || || ||| Sbjct 8942268 AAGTTAATCCGGGCATTAACCCCCTCTTTTTTAACCAAAATAT-GGCACAGAAACTTCCG 8942210 Query 42176 GAAAAGAAGATTCCTTCTACTGCCGCAAAGGCAATAAGTCTCTCTCCATAACCGGCACTG 42235 || || ||||| |||||||| ||||| || || | | || | || | | | Sbjct 8942209 GAGAAAAAGATCCCTTCTACGCAAGCAAAAGCGATTAACCGTTCGGCGAAAGTTTCTCCG 8942150 Query 42236 TCATGTATCCACTTTTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATCGTTTCTATG 42295 | | ||||| || |||||| ||||| || || ||||| |||| ||| || ||| Sbjct 8942149 CCGTCGATCCATTTCATAGCCCACTCGGCTTTTTTAGCCACACACGGCACCGTCTCGATG 8942090 Query 42296 GCATTAAAGAGATAGtttttttCATTACTATCTTTAACATATGTATCGATCAAAAGACTA 42355 || || ||| ||| ||||||| |||||| | || || |||| | ||||| Sbjct 8942089 GCGCGGAAAAGACGGTTCTTTTCATCGGAATCTTTTATGTAAGTCTCGAGAAGGAGACTG 8942030 Query 42356 TACATTTCTGAATGAATGTTTTCAATGGCCATCTGAAATCCGTAGAAACATCTGGCCTCG 42415 ||||| || || || || ||||| || || || || || || || ||| | |||||| Sbjct 8942029 TACATCTCGGAGTGGATATTTTCGATAGCGATTTGGAAACCATAAAAAGCACGCGCCTCG 8941970 Query 42416 GTAACCTGTACTTCTGTACAAAATCGTTCAGCTAAATTTTCGTTCACTATTCCGTCACTG 42475 | | ||| || ||| | || || |||| | || || ||||| || || | Sbjct 8941969 GAGATCTGGACCTCTTTCATGAACCGAACAGCAAGGTTCTCAAGGACTATGCCATCGGAG 8941910 Query 42476 GCTGCAAAAAACGCCAATACATGTTTTATAAAATATTTTTCGTC--CGGTGTTAATTTAT 42533 || || ||||| || | || || | || || | | || || ||||| | || | Sbjct 8941909 GCGGCGAAAAAGGCGAGAACGTGACTAATGAAGTGGTGCTCATCGGCGGTGAGAGTT--T 8941852 Query 42534 TCCAATCATTGATATCTTTAGATATATCTACTTCTTCTACCGTCCAAAATGATGCTTCTG 42593 ||| | | | ||| ||| | ||| ||||| ||| | |||||||| || ||||| | Sbjct 8941851 CCCAGTGACGAAGATCGGAAGACAGATCGACTTCCTCTGCGGTCCAAAACGACGCTTCGG 8941792 Query 42594 CCTTTTTATACATATTCCAGATATCATGATATTGAATTGGGAAAATA 42640 | || || ||||| | ||| | || | ||||| || || || ||| Sbjct 8941791 CTTTCTTGTACATTTCCCATACTTCTGGGTATTGGATCGGAAACATA 8941745 >seq1 Length=55868233 Score = 138 bits (152), Expect = 2e-27 Identities = 386/586 (66%), Gaps = 6/586 (1%) Strand=Plus/Minus Query 42057 ACATCAAACATGCGAAATCGCAGTGCAGACCCTCATCTCTACTAATTAATTCGTTGGAAA 42116 ||| ||| || || || ||||| || ||||| ||||||| | || || | ||| || | Sbjct 54862753 ACAGCAAGCAAGCAAAGTCGCAATGGAGACCTTCATCTCGAGAGATCAACTTGTTTGAGA 54862694 Query 42117 ACGTGAGTCCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATAG-ACGCAAA-TGATCC 42174 | || ||| ||||||| || |||||||| | ||||||||| | || ||| || || Sbjct 54862693 AAGTTTATCCAGGCATTAACCCGCGCTTTTTTAACCAAAATATCGCACAGAAACTG--CC 54862636 Query 42175 AGAAAAGAAGATTCCTTCTACTGCCGCAAAGGCAATAAGTCTCTCTCCATAACCGGCACT 42234 || || || || |||||||| || || || || | | || || || | | | Sbjct 54862635 GGAGAAAAATATGCCTTCTACGCAAGCGAAAGCGATTAACCGTTCGGCAAAAGCTTCGCC 54862576 Query 42235 GTCATGTATCCACTTTTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATCGTTTCTAT 42294 | | | ||||| || |||||||||||| || || || || |||| |||||| | Sbjct 54862575 GCCGTCGATCCATTTCAAAGCCCAATCGGCTTTTTTAGCCACGCACGGCACCGTTTCAGT 54862516 Query 42295 GGCATTAAAGAGATAGtttttttCATTACTATCTTTAACATATGTATCGATCAAAAGACT 42354 || | ||||| ||| ||||| | |||||||| ||| || |||| | ||||| Sbjct 54862515 AGCGTGGAAGAGGCGGTTCTTTTCGGTGGAATCTTTAATATAAGTTTCGAGGAGGAGACT 54862456 Query 42355 ATACATTTCTGAATGAATGTTTTCAATGGCCATCTGAAATCCGTAGAAACATCTGGCCTC 42414 |||||| || || || || || || ||||| || || ||||| || || | ||||| Sbjct 54862455 ATACATCTCAGAGTGGATATTCTCGATGGCGATTTGGAATCCATAAAATGCACGCGCCTC 54862396 Query 42415 GGTAACCTGTACTTCTGTACAAAATCGTTCAGCTAAATTTTCGTTCACTATTCCGTCACT 42474 | | || || ||| | || || | || | |||||| || || || || Sbjct 54862395 CGCGATTTGGACCTCTTTCATGAAGCGAACGGCGAGATTTTCTAGGACGATGCCATCGGA 54862336 Query 42475 GGCTGCAAAAAACGCCAATACATGTTTTATAAAATATTTTTCGTCCGGTGTTAA-TTTAT 42533 || || || || || | ||||| | || || | ||||| ||| ||||| || | Sbjct 54862335 TGCGGCGAAGAAGGCAAGGACATGACTGATGAAGTGGCGTTCGT-CGGCGTTAAGATTTT 54862277 Query 42534 TCCAATCATTGATATCTTTAGATATATCTACTTCTTCTACCGTCCAAAATGATGCTTCTG 42593 ||| | | ||| ||| | ||| ||||| || | |||||||| || ||||| | Sbjct 54862276 GCCAGTGTGGAAGATCGGAAGAGAGATCAACTTCCTCGGCAGTCCAAAAAGAGGCTTCGG 54862217 Query 42594 CCTTTTTATACATATTCCAGATATCATGATATTGAATTGGGAAAAT 42639 | || || ||||| | ||| || | | ||||| |||||||| || Sbjct 54862216 CTTTCTTGTACATTTCCCATATCTGTGGGTATTGGATTGGGAACAT 54862171 >seq3 Length=45765648 Score = 96.9 bits (106), Expect = 5e-15 Identities = 158/228 (69%), Gaps = 0/228 (0%) Strand=Plus/Plus Query 72417 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGACAGTAGATT 72476 |||||| ||||| || | || |||||||| || ||||||||| ||| ||||| | | Sbjct 6820279 AGTTCCAGCATTGAAAAGTGTGGGAGAAGCATGAGTAAACCATCTTTGAGACATCATGTG 6820338 Query 72477 GTACGTCTCAATAGCTGATTCTATATCCCATTGATGTATTCCTACCGCGACACGCATTAA 72536 || || | ||||| || || || || | ||| ||||| || || || | |||||| Sbjct 6820339 ATAAGTTTTTATAGCAGAATCAATGTCATTCTTATGAATTCCAACTGCAACCCTCATTAA 6820398 Query 72537 CATATGCTGAGGTCTTTCAACGATCTTGTTATTTATTTTCAACAAGTAGGATTTTTCCAA 72596 ||| || || || ||||| | | ||| | | |||||| | |||||| | || | Sbjct 6820399 CATGTGTTGGGGCCTTTCTATAACCTTCCCTTGAACTTTCAAGAGGTAGGACCTCTCAAG 6820458 Query 72597 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 72644 ||||| ||||||||||| | || |||||| || || || || || Sbjct 6820459 GGTTTTGAAACCAAAATAATCATAGTCAAAGTCCCGATCATATATGAT 6820506 Score = 84.2 bits (92), Expect = 3e-11 Identities = 88/116 (76%), Gaps = 0/116 (0%) Strand=Plus/Plus Query 71164 ACTCTACGAGTGTAAATATTACTGGTATACGGTTCCACTGACTCATTATTTCCCAAAATT 71223 ||||||||| | || ||||| ||||| ||||| | ||||||||||||| | ||| Sbjct 6817978 ACTCTACGACTATAGATATTGGAAGTATATGGTTCAAAGCACTCATTATTTCCAAGAATC 6818037 Query 71224 TGAGCAGTTGATGCAGTCGGCATAGGTGCCACCAATAGACTATTTCTAAGACCATG 71279 || |||||||||||| ||||||||||| | ||| || |||||| | ||||| Sbjct 6818038 TGGCTAGTTGATGCAGTTGGCATAGGTGCTAACAAAAGTGAATTTCTCACTCCATG 6818093 >seq2 Length=62769430 Score = 91.5 bits (100), Expect = 2e-13 Identities = 143/205 (70%), Gaps = 0/205 (0%) Strand=Plus/Minus Query 72177 TCCTCCCTGATCTATGTATCTAGCGGTGTTATTATAAACTCTCAACATTGGAATAATACC 72236 |||||| ||||| | |||| ||| || | ||| | || | || |||||| | ||| || Sbjct 29135071 TCCTCCTTGATCAACATATCGAGCAGTATCATTGAACACCCGCAGCATTGGGACAATTCC 29135012 Query 72237 ATTGGATGCACCATTGGTCCCGGAGATATAGCTTCCACTGGCACGAATATTGCTAATTGA 72296 ||| |||| |||||| || || ||||| || || |||| ||||||||| || || Sbjct 29135011 ATTAGATGTACCATTTGTTCCACGAATATAACTACCTGTGGCTCGAATATTGTGAACAGA 29134952 Query 72297 TAGACCTATTCCCCCTGCCATTTTAGAGATTAATGCGCATCGTTTTAACGTATCATAGAT 72356 | ||| ||||| || || ||| ||| | || || || || || ||||| || Sbjct 29134951 AACACCAATTCCTCCAGCTGATTTGCTGATAACAGCACACTCCTTCAAAGTTTCATATAT 29134892 Query 72357 GCCCTCTATACTATCATCCATCATG 72381 || || ||||||||||| ||||| Sbjct 29134891 TCCTTCAATACTATCATCTTTCATG 29134867 Score = 84.2 bits (92), Expect = 3e-11 Identities = 90/119 (76%), Gaps = 0/119 (0%) Strand=Plus/Minus Query 71160 CAATACTCTACGAGTGTAAATATTACTGGTATACGGTTCCACTGACTCATTATTTCCCAA 71219 ||| ||||||||| | |||||||| |||||| || || | | |||||||| || | Sbjct 29137045 CAAAACTCTACGACTATAAATATTGGAGGTATATGGCTCAAAGCATTCATTATTCCCAAG 29136986 Query 71220 AATTTGAGCAGTTGATGCAGTCGGCATAGGTGCCACCAATAGACTATTTCTAAGACCAT 71278 ||| ||| |||||| ||||| ||||||||||| | |||||| |||||| | |||| Sbjct 29136985 AATCTGACTAGTTGAAGCAGTTGGCATAGGTGCTAACAATAGTGAATTTCTCACTCCAT 29136927 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 671130525525840