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_20hirsutum_20[refseq_20GCF_5F000987745.1_202015-05-05] 9,148 sequences; 2,189,140,010 total letters Query= NC_001266.1 Length=159857 Score E Sequences producing significant alignments: (Bits) Value seq19 129 6e-25 seq22 120 3e-22 seq228 98.7 1e-15 seq16 98.7 1e-15 >seq19 Length=70911690 Score = 129 bits (142), Expect = 6e-25 Identities = 259/374 (69%), Gaps = 15/374 (4%) Strand=Plus/Minus Query 16202 CACGCGAAGTCGCAATGTAGTCCTTCGTCTCTGCTGATAAGTTCGTTGGAAAAAGTTAAC 16261 || || ||||||||||| || ||||| |||| ||| | ||||| || |||||||| Sbjct 44463877 CAAGCAAAGTCGCAATGGAGACCTTCATCTCGAGAGATCAACTCGTTTGAGAAAGTTAAT 44463818 Query 16262 CCTGGCATTTTTCCTCGTTTCTTTAACCAGAATATCGCA--GCAAATGACCCCGAAAAGA 16319 || |||||| || || || |||||||| ||||||||| | || || || || || | Sbjct 44463817 CCAGGCATTAACCCGCGCTTTTTTAACCAAAATATCGCACAGAAACTG--CCGGAGAAAA 44463760 Query 16320 ATATACCCTCAACAGATGCAAAAGCGATTAATCGTTCCGCGTA--CGTAGCATCTTTATT 16377 |||| || || || | || ||||||||||| ||||| || | | | || | | Sbjct 44463759 ATATGCCTTCTACGCAAGCGAAAGCGATTAACCGTTCGGCAAAAGCTTCGCCGCCGT--- 44463703 Query 16378 ACGAATCCATTTCTGTACCCATTCGGCTTTTTGTTTTATACAATCCATCGTTTCTATGGC 16437 || ||||||||| |||| |||||||||| | || || |||||| | || Sbjct 44463702 -CG-ATCCATTTCAAAGCCCAATCGGCTTTTTTAGCCACGCACGGCACCGTTTCAGTAGC 44463645 Query 16438 CTTAAACAATTTCTCTTTTTC-CTGAATATCGATTATATACGTATCAATCAGTAAACTGT 16496 | || | | |||||| || | ||| | ||||| || || | || | ||| | Sbjct 44463644 GTGGAAGAGGCGGTTTTTTTCGGTGGA-ATCTTTAATATAAGTTTCGAGGAGGAGACTAT 44463586 Query 16497 ACATTTCTGAGTGTATGTTCTCTATGGCTATCTGAAATCCATAGAA-GCATCGAGCCTCC 16555 |||| || ||||| || ||||| ||||| || || |||||||| || ||| || |||||| Sbjct 44463585 ACATCTCAGAGTGGATATTCTCGATGGCGATTTGGAATCCATAAAATGCA-CGCGCCTCC 44463527 Query 16556 GCTATTTGTACTTC 16569 || ||||| || || Sbjct 44463526 GCGATTTGGACCTC 44463513 >seq22 Length=61129363 Score = 120 bits (132), Expect = 3e-22 Identities = 380/580 (66%), Gaps = 13/580 (2%) Strand=Plus/Plus Query 16202 CACGCGAAGTCGCAATGTAGTCCTTCGTCTCTGCTGATAAGTTCGTTGGAAAAAGTTAAC 16261 || ||||| ||||| || || ||||| |||| ||| | ||||| || |||||||| Sbjct 6287579 CAAGCGAAATCGCAGTGGAGACCTTCATCTCGTGAGATTAACTCGTTTGAGAAAGTTAAT 6287638 Query 16262 CCTGGCATTTTTCCTCGTTTCTTTAACCAGAATATCGCAGCAAATGACCCCGAAAAGAAT 16321 || |||||| || | || |||||||| ||||| ||| || || || || || Sbjct 6287639 CCGGGCATTAACCCCCTCTTTTTTAACCAAAATATGGCACAGAAACTTCCGGAGAAAAAG 6287698 Query 16322 ATACCCTCAACAGATGCAAAAGCGATTAATCGTTCCGCGTACGTAGCATCTTTATTACGA 16381 || || || || | |||||||||||||| ||||| ||| | || | | | || Sbjct 6287699 ATCCCTTCTACGCAAGCAAAAGCGATTAACCGTTCGGCGAAAGTTTCTCCGCCGT--CG- 6287755 Query 16382 ATCCATTTCTGTACCCATTCGGCTTTTTGTTTTATACAATCCATCGTTTCTATGGC-CTT 16440 ||||||||| |||| |||||||||| | ||| || ||| || ||||| | Sbjct 6287756 ATCCATTTCATAGCCCACTCGGCTTTTTTAGCCACACACGGCACCGTCTCGATGGCGCGG 6287815 Query 16441 AAACAATTTCTCTTTTTCCTGAATATCGATTATATACGTATCAATCAGTAAACTGTACAT 16500 ||| | || ||||| | ||| |||| || || || | || | ||||||||| Sbjct 6287816 AAAAGACGGTTC-TTTTCATCGGAATCTTTTATGTAAGTCTCGAGAAGGAGACTGTACAT 6287874 Query 16501 TTCTGAGTGTATGTTCTCTATGGCTATCTGAAATCCAT-AGAAGCATCGAGCCTCCGCTA 16559 || ||||| || || || || || || || || |||| | ||||| || ||||| | | Sbjct 6287875 CTCGGAGTGGATATTTTCGATAGCGATTTGGAAACCATAAAAAGCA-CGCGCCTCGGAGA 6287933 Query 16560 TTTGTA---CTTCCACGTAAAATCGTTCCGCCAGGTTCTCATTCACGATACCGTCACTTG 16616 | || | ||| || | || || | || ||||||||| || || || || | Sbjct 6287934 TCTGGACCTCTTTCATG---AACCGAACAGCAAGGTTCTCAAGGACTATGCCATCGGAGG 6287990 Query 16617 CAGCAAAAAACGCCAATATGTGCTTAATGAAATATTTTTCGTCAGATGTAAGAATATGCC 16676 | || ||||| || | | ||| ||||||| | | || || | || ||| | | || Sbjct 6287991 CGGCGAAAAAGGCGAGAACGTGACTAATGAAGTGATGCTCATCGGCGGTGAGAGTTTCCC 6288050 Query 16677 AATCTTTTAAATCTTTGGATATATCCACTTCTTCTGGCGTCCAAAAGCTAGCCACTGCCT 16736 | | | |||| || | ||| ||||| |||| |||||||| || | || | Sbjct 6288051 AGTGACGAAGATCTGAAGACAGATCGACTTCCTCTGCGGTCCAAAACGACGCTTCGGCTT 6288110 Query 16737 TTTTATACATTTTCCAAATATCATTGTATTGTATGGGAAA 16776 | || ||||||| ||| | || |||||| || ||||| Sbjct 6288111 TCTTGTACATTTCCCATACTTCTGGGTATTGGATCGGAAA 6288150 >seq228 Length=356584 Score = 98.7 bits (108), Expect = 1e-15 Identities = 119/160 (74%), Gaps = 4/160 (3%) Strand=Plus/Plus Query 16202 CACGCGAAGTCGCAATGTAGTCCTTCGTCTCTGCTGATAAGTTCGTTGGAAAAAGTTAAC 16261 || || ||||||||||| || ||||| |||| ||| | ||||| || |||||||| Sbjct 282330 CAAGCAAAGTCGCAATGGAGACCTTCATCTCGAGAGATCAACTCGTTTGAGAAAGTTAAT 282389 Query 16262 CCTGGCATTTTTCCTCGTTTCTTTAACCAGAATAT--CGCAGCAAATGACCCCGAAAAGA 16319 || |||||| || || || |||||||| ||||| ||||| || || || || || | Sbjct 282390 CCAGGCATTAACCCGCGCTTTTTTAACCAAAATATCGCGCAGAAACTG--CCGGAGAAAA 282447 Query 16320 ATATACCCTCAACAGATGCAAAAGCGATTAATCGTTCCGC 16359 |||| || || || | || ||||||||||| ||||| || Sbjct 282448 ATATGCCTTCTACGCAAGCGAAAGCGATTAACCGTTCGGC 282487 >seq16 Length=102030775 Score = 98.7 bits (108), Expect = 1e-15 Identities = 230/342 (67%), Gaps = 5/342 (1%) Strand=Plus/Minus Query 16202 CACGCGAAGTCGCAATGTAGTCCTTCGTCTCTGCTGATAAGTTCGTTGGAAAAAGTTAAC 16261 || ||||| || || || || ||||| |||| ||| | ||||| || |||||||| Sbjct 57862375 CAAGCGAAATCACAGTGGAGACCTTCATCTCGTGAGATTAACTCGTTTGAGAAAGTTAAT 57862316 Query 16262 CCTGGCATTTTTCCTCGTTTCTTTAACCAGAATATCGCAGCAAATGACCCCGAAAAGAAT 16321 || |||||| || | || |||||||| ||||| ||| || || || || || Sbjct 57862315 CCGGGCATTAACCCCCTCTTTTTTAACCAAAATATGGCACAGAAACTTCCGGAGAAAAAG 57862256 Query 16322 ATACCCTCAACAGATGCAAAAGCGATTAATCGTTCCGCGTACGTAGCATCTTTATTACGA 16381 || ||||| || | |||||||||||||| ||||| ||| | || | | | || Sbjct 57862255 ATCCCCTCTACGCAAGCAAAAGCGATTAACCGTTCGGCGAAAGTTTCTCCGCCGT--CG- 57862199 Query 16382 ATCCATTTCTGTACCCATTCGGCTTTTTGTTTTATACAATCCATCGTTTCTATGGC-CTT 16440 ||||||||| |||| |||||||||| | ||| || ||| || ||||| | Sbjct 57862198 ATCCATTTCATAGCCCACTCGGCTTTTTTAGCCACACACGGCACCGTCTCGATGGCGCGG 57862139 Query 16441 AAACAATTTCTCTTTTTCCTGAATATCGATTATATACGTATCAATCAGTAAACTGTACAT 16500 ||| | || ||||| | ||| |||| || || || | || | ||||||||| Sbjct 57862138 AAAAGACGGTTC-TTTTCATCGGAATCTTTTATGTAAGTCTCGAGAAGGAGACTGTACAT 57862080 Query 16501 TTCTGAGTGTATGTTCTCTATGGCTATCTGAAATCCATAGAA 16542 || ||||| || || || || || || || || ||||| || Sbjct 57862079 CTCGGAGTGGATATTTTCGATAGCGATTTGGAAACCATAAAA 57862038 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 511355919763360