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_004778.3 Length=129593 Score E Sequences producing significant alignments: (Bits) Value seq48 96.9 3e-15 seq23 95.1 1e-14 seq168 93.3 3e-14 seq19 89.7 4e-13 seq24 87.8 1e-12 seq18 86.0 5e-12 seq27 84.2 2e-11 seq1 84.2 2e-11 >seq48 Length=1435396 Score = 96.9 bits (106), Expect = 3e-15 Identities = 143/203 (70%), Gaps = 0/203 (0%) Strand=Plus/Minus Query 18839 TGCAACGTAGACTCCTTTTGAATATTGTAATCCGCCATTGTTTTGGCGTCCTCCAGCTGT 18898 |||| ||||||||||| || |||||||| || || | ||| ||||||||| ||| Sbjct 1250725 TGCAGAGTAGACTCCTTCTGGATATTGTAGTCAGCTAGAGTTCGACCGTCCTCCAACTGC 1250666 Query 18899 TTACCCGCATAAATAAGTCTCTGCTGATCCACGGGCACGCCCTCTTTGTCGGCAATTTTC 18958 || || ||| | || | |||||||||||| ||| | ||||| ||||| ||| || Sbjct 1250665 TTCCCAGCAAAGATCAACCTCTGCTGATCCGGGGGAATTCCCTCCTTGTCCTGAATCTTT 1250606 Query 18959 TGTTTTACCTGGCCGACAGTATCGCCAGGCTCCGTTTCGACGGTAATGGTTTTACCTGTT 19018 |||||| | | | | ||||| | ||| ||| | ||| || || || ||||| Sbjct 1250605 GCTTTTACATTGTCAATCGTATCAGAACTCTCAACTTCCAAGGTTATAGTCTTTCCTGTG 1250546 Query 19019 AAAGTTTTGACAAAAATTTGCAT 19041 | || || |||||||||||||| Sbjct 1250545 AGGGTCTTCACAAAAATTTGCAT 1250523 >seq23 Length=61753794 Score = 95.1 bits (104), Expect = 1e-14 Identities = 145/204 (71%), Gaps = 2/204 (1%) Strand=Plus/Minus Query 18839 TGCAACGTAGACTCCTTTTGAATATTGTAATCCGCCATTGTTTTGGCGTCCTCCAGCTGT 18898 |||| ||||||||||| || |||||||| || || | ||| ||||||||| ||| Sbjct 11031474 TGCAGAGTAGACTCCTTCTGGATATTGTAGTCAGCTAGGGTTCGACCGTCCTCCAACTGC 11031415 Query 18899 TTACCCGCATAAATAAGTCTCTGCTGATCCACGGGCACGCCCTCTTTGTCGGCAATTTTC 18958 || || ||| | || | |||||||||||| ||| | ||||| ||||| ||| || Sbjct 11031414 TTCCCAGCAAAGATCAACCTCTGCTGATCCGGGGGAATTCCCTCCTTGTCCTGAATCTTT 11031355 Query 18959 TGTTTTACCTGGCCGACAGTATCGCCAG-GCTCCGTTTCGACGGTAATGGTTTTACCTGT 19017 |||||| | | | | ||||| | || ||| || | ||| |||||||| || || Sbjct 11031354 GCTTTTACATTGTCAATCGTATC-CGAGCTCTCAACCTCCAGGGTGATGGTTTTCCCAGT 11031296 Query 19018 TAAAGTTTTGACAAAAATTTGCAT 19041 || || |||||||| || ||||| Sbjct 11031295 CAAGGTCTTGACAAATATCTGCAT 11031272 Score = 84.2 bits (92), Expect = 2e-11 Identities = 156/229 (68%), Gaps = 0/229 (0%) Strand=Plus/Minus Query 18813 TTCCTCCTCGCAACCTTAACACCATGTGCAACGTAGACTCCTTTTGAATATTGTAATCCG 18872 |||| || |||| | | ||||| ||| | || ||||| || |||||||| ||||| | Sbjct 11031044 TTCCACCACGCAGGCGAAGCACCAAGTGGAGGGTTGACTCTTTCTGAATATTATAATCAG 11030985 Query 18873 CCATTGTTTTGGCGTCCTCCAGCTGTTTACCCGCATAAATAAGTCTCTGCTGATCCACGG 18932 | | || | | ||||||||||| || || ||| |||| || ||||| |||||| | Sbjct 11030984 CAAGGGTCCTCCCATCCTCCAGCTGCTTGCCAGCAAAAATCAGCCTCTGTTGATCCGGTG 11030925 Query 18933 GCACGCCCTCTTTGTCGGCAATTTTCTGTTTTACCTGGCCGACAGTATCGCCAGGCTCCG 18992 | | || || ||||| || || ||| || | | | | ||||| | ||| Sbjct 11030924 GAATACCTTCCTTGTCCTGGATCTTAGCTTTCACATTGTCAATCGTATCAGAACTCTCAA 11030865 Query 18993 TTTCGACGGTAATGGTTTTACCTGTTAAAGTTTTGACAAAAATTTGCAT 19041 ||| | |||||| || || ||||| | || || ||||||| |||||| Sbjct 11030864 CTTCCAAGGTAATAGTCTTTCCTGTGAGGGTCTTCACAAAAACTTGCAT 11030816 >seq168 Length=529997 Score = 93.3 bits (102), Expect = 3e-14 Identities = 141/198 (71%), Gaps = 2/198 (1%) Strand=Plus/Minus Query 18845 GTAGACTCCTTTTGAATATTGTAATCCGCCATTGTTTTGGCGTCCTCCAGCTGTTTACCC 18904 || |||||||||||||||||||||| |||| || | | || ||||||||||| || Sbjct 131799 GTGGACTCCTTTTGAATATTGTAATTAGCCAAAGTCCTTCCATCTTCCAGCTGTTTCCCA 131740 Query 18905 GCATAAATAAGTCTCTGCTGATCCACGGGCACGCCCTCTTTGTCGGCAATTTTCTGTTTT 18964 ||| |||| | || |||||| | || | || |||||||| ||| ||| ||| Sbjct 131739 GCAAAAATCAACCTTTGCTGACCTGGTGGAATTCCTTCTTTGTCCTGAATCTTCGCTTTC 131680 Query 18965 ACCTGGCCGACAGTATCGCCAG-GCTCCGTTTCGACGGTAATGGTTTTACCTGTTAAAGT 19023 || | | | ||||| | || |||| ||| | |||||||| ||||| || ||||| Sbjct 131679 ACGTTATCAATCGTATC-CGAGCTCTCCACTTCTAAAGTAATGGTCTTACCGGTCAAAGT 131621 Query 19024 TTTGACAAAAATTTGCAT 19041 ||||| || || ||||| Sbjct 131620 CTTGACGAAGATCTGCAT 131603 >seq19 Length=70911690 Score = 89.7 bits (98), Expect = 4e-13 Identities = 157/229 (69%), Gaps = 0/229 (0%) Strand=Plus/Plus Query 18813 TTCCTCCTCGCAACCTTAACACCATGTGCAACGTAGACTCCTTTTGAATATTGTAATCCG 18872 |||| || |||| | | ||||| ||||| || ||||||||||| || || ||||||| Sbjct 3146156 TTCCACCACGCAGTCGCAGCACCAAGTGCAGGGTTGACTCCTTTTGGATGTTATAATCCG 3146215 Query 18873 CCATTGTTTTGGCGTCCTCCAGCTGTTTACCCGCATAAATAAGTCTCTGCTGATCCACGG 18932 | | ||| | | ||||| ||||| || || ||| |||| | ||||||||||| | Sbjct 3146216 CAAGTGTCCTCCCATCCTCGAGCTGCTTTCCGGCAAAAATCAACCTCTGCTGATCTGGTG 3146275 Query 18933 GCACGCCCTCTTTGTCGGCAATTTTCTGTTTTACCTGGCCGACAGTATCGCCAGGCTCCG 18992 | | || || ||||| || || || || | ||| ||||||| |||| Sbjct 3146276 GAATCCCTTCCTTGTCTTGGATCTTGGCCTTGACATTATCGATAGTATCGGAGCTCTCCA 3146335 Query 18993 TTTCGACGGTAATGGTTTTACCTGTTAAAGTTTTGACAAAAATTTGCAT 19041 || | ||| ||||| ||||| || | ||||| ||||| || ||||| Sbjct 3146336 CCTCAAGGGTGATGGTCTTACCAGTAAGGGTTTTTACAAAGATCTGCAT 3146384 Score = 86.0 bits (94), Expect = 5e-12 Identities = 155/227 (68%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 18815 CCTCCTCGCAACCTTAACACCATGTGCAACGTAGACTCCTTTTGAATATTGTAATCCGCC 18874 |||||||| | | | ||||| ||| | |||||||| || || ||||| ||||| || Sbjct 3137496 CCTCCTCGAAGTCGGAGCACCAAGTGGAGGGTAGACTCTTTCTGGATATTATAATCTGCA 3137555 Query 18875 ATTGTTTTGGCGTCCTCCAGCTGTTTACCCGCATAAATAAGTCTCTGCTGATCCACGGGC 18934 | ||| | | || || |||||||| || ||| |||| | ||||||||||| || Sbjct 3137556 AGTGTCCTACCATCTTCGAGCTGTTTGCCAGCAAAAATCAACCTCTGCTGATCTGGTGGA 3137615 Query 18935 ACGCCCTCTTTGTCGGCAATTTTCTGTTTTACCTGGCCGACAGTATCGCCAGGCTCCGTT 18994 | || || ||||| || || |||||| | | | || || || | ||| | Sbjct 3137616 ATCCCTTCCTTGTCCTGGATCTTAGCTTTTACATTGTCAACGGTGTCAGAACTCTCAACT 3137675 Query 18995 TCGACGGTAATGGTTTTACCTGTTAAAGTTTTGACAAAAATTTGCAT 19041 || | ||||| || || || || | ||| || |||||||||||||| Sbjct 3137676 TCCAAAGTAATAGTCTTTCCGGTGAGAGTCTTCACAAAAATTTGCAT 3137722 >seq24 Length=55877068 Score = 87.8 bits (96), Expect = 1e-12 Identities = 146/211 (69%), Gaps = 0/211 (0%) Strand=Plus/Minus Query 18832 CACCATGTGCAACGTAGACTCCTTTTGAATATTGTAATCCGCCATTGTTTTGGCGTCCTC 18891 ||||| ||| | || |||||||| || || || || || |||| || | | ||||| Sbjct 24584517 CACCAAGTGGAGGGTGGACTCCTTCTGGATGTTATAGTCAGCCAGGGTACGGCCATCCTC 24584458 Query 18892 CAGCTGTTTACCCGCATAAATAAGTCTCTGCTGATCCACGGGCACGCCCTCTTTGTCGGC 18951 ||| || ||||| ||| |||| || ||||| || || ||| | ||||| ||||| Sbjct 24584457 CAGTTGCTTACCAGCAAAAATCAGCCTCTGTTGGTCTGGGGGGATTCCCTCCTTGTCCTG 24584398 Query 18952 AATTTTCTGTTTTACCTGGCCGACAGTATCGCCAGGCTCCGTTTCGACGGTAATGGTTTT 19011 |||||| || || | | | | ||||| | ||| || | |||||||| || Sbjct 24584397 AATTTTTGCCTTAACATTGTCAATGGTATCTGAACTCTCTACCTCCAATGTAATGGTCTT 24584338 Query 19012 ACCTGTTAAAGTTTTGACAAAAATTTGCATT 19042 || || ||||| || ||||||||||||||| Sbjct 24584337 CCCAGTCAAAGTCTTAACAAAAATTTGCATT 24584307 >seq18 Length=57801308 Score = 86.0 bits (94), Expect = 5e-12 Identities = 137/197 (70%), Gaps = 0/197 (0%) Strand=Plus/Minus Query 18845 GTAGACTCCTTTTGAATATTGTAATCCGCCATTGTTTTGGCGTCCTCCAGCTGTTTACCC 18904 || || ||||| |||||||||||||| |||| || | | || |||| |||||| || Sbjct 49489111 GTGGATTCCTTCTGAATATTGTAATCAGCCAAAGTCCTTCCATCTTCCAACTGTTTCCCA 49489052 Query 18905 GCATAAATAAGTCTCTGCTGATCCACGGGCACGCCCTCTTTGTCGGCAATTTTCTGTTTT 18964 || |||| | || |||||||| || | || |||||||| ||| ||| || Sbjct 49489051 GCGAAAATCAACCTTTGCTGATCTGGTGGAATCCCTTCTTTGTCCTGAATCTTCGCCTTA 49488992 Query 18965 ACCTGGCCGACAGTATCGCCAGGCTCCGTTTCGACGGTAATGGTTTTACCTGTTAAAGTT 19024 || | | ||| |||||| | |||| || | || |||||||| || || || || Sbjct 49488991 ACATTGTCGATCGTATCGGAACTCTCCACCTCCAAAGTTATGGTTTTCCCAGTCAACGTC 49488932 Query 19025 TTGACAAAAATTTGCAT 19041 ||||| ||||| ||||| Sbjct 49488931 TTGACGAAAATCTGCAT 49488915 >seq27 Length=3408634 Score = 84.2 bits (92), Expect = 2e-11 Identities = 139/198 (70%), Gaps = 2/198 (1%) Strand=Plus/Minus Query 18845 GTAGACTCCTTTTGAATATTGTAATCCGCCATTGTTTTGGCGTCCTCCAGCTGTTTACCC 18904 || ||||||||||||||||||||||| |||| || | |||| ||||| ||||| || Sbjct 2140721 GTGGACTCCTTTTGAATATTGTAATCAGCCAAAGTCCTTCCGTCTTCCAGTTGTTTCCCA 2140662 Query 18905 GCATAAATAAGTCTCTGCTGATCCACGGGCACGCCCTCTTTGTCGGCAATTTTCTGTTTT 18964 ||| |||| | || |||||||| || | || ||||| || | | ||| ||| Sbjct 2140661 GCAAAAATCAACCTTTGCTGATCTGGTGGAATCCCTTCTTTCTCCTGACTCTTCGCTTTC 2140602 Query 18965 ACCTGGCCGACAGTATCGCCAG-GCTCCGTTTCGACGGTAATGGTTTTACCTGTTAAAGT 19023 | | | | ||||| | || |||| ||| | ||||| || ||||| || ||||| Sbjct 2140601 GCGTTATCAATCGTATC-CGAGCTCTCCACTTCTAAAGTAATCGTCTTACCGGTCAAAGT 2140543 Query 19024 TTTGACAAAAATTTGCAT 19041 ||||| || || ||||| Sbjct 2140542 CTTGACGAAGATCTGCAT 2140525 >seq1 Length=92291805 Score = 84.2 bits (92), Expect = 2e-11 Identities = 156/229 (68%), Gaps = 0/229 (0%) Strand=Plus/Plus Query 18813 TTCCTCCTCGCAACCTTAACACCATGTGCAACGTAGACTCCTTTTGAATATTGTAATCCG 18872 |||| || |||| | | ||||| ||||| || ||||||||||| || || ||||||| Sbjct 4409343 TTCCACCACGCAGTCGCAGCACCAAGTGCAGGGTTGACTCCTTTTGGATGTTATAATCCG 4409402 Query 18873 CCATTGTTTTGGCGTCCTCCAGCTGTTTACCCGCATAAATAAGTCTCTGCTGATCCACGG 18932 | | || | | ||||| ||||| || || ||| |||| | ||||||||||| | Sbjct 4409403 CAAGCGTCCTCCCATCCTCGAGCTGCTTTCCGGCAAAAATCAACCTCTGCTGATCTGGTG 4409462 Query 18933 GCACGCCCTCTTTGTCGGCAATTTTCTGTTTTACCTGGCCGACAGTATCGCCAGGCTCCG 18992 | | ||||| ||||| ||| ||| || || | | | ||||| | |||| Sbjct 4409463 GGATACCCTCCTTGTCCTGAATCTTCGCCTTAACATTATCAATGGTATCAGAACTCTCCA 4409522 Query 18993 TTTCGACGGTAATGGTTTTACCTGTTAAAGTTTTGACAAAAATTTGCAT 19041 || | || |||||||| || || | ||||| ||||| || ||||| Sbjct 4409523 CCTCCAAAGTGATGGTTTTTCCGGTGAGGGTTTTTACAAATATCTGCAT 4409571 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 414526578760312