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_004062.1 Length=119217 Score E Sequences producing significant alignments: (Bits) Value seq9 104 2e-17 seq2 98.7 8e-16 seq6 95.1 9e-15 seq8 91.5 1e-13 seq11 86.0 5e-12 >seq9 Length=70713020 Score = 104 bits (114), Expect = 2e-17 Identities = 159/227 (70%), Gaps = 0/227 (0%) Strand=Plus/Plus Query 42883 CCTCCACGCAGTCTTAACACCAAATGGATAGTGCTCTCCTTTTGCACATTGTAATCGGAC 42942 ||||| || |||| | |||||| |||| || ||| || || | ||| ||||| | Sbjct 66881583 CCTCCTCGAAGTCGGAGCACCAAGTGGAGGGTAGACTCTTTCTGGATATTATAATCTGCA 66881642 Query 42943 AATGTACGTTCGTCGTCCAATTGTTTGCCGGCAAAAATCAATCGCTGTTGATCGGCCGGC 43002 | ||| | | || || | |||||||| ||||||||||| | ||| ||||| | || Sbjct 66881643 AGTGTCCTACCATCTTCGAGCTGTTTGCCAGCAAAAATCAACCTCTGCTGATCTGGTGGA 66881702 Query 43003 ACACCTTCTTTTTCGCTGATCAACTCTTTGACTCTGCCAACTGTGTCGCCAGCCTCGACG 43062 | ||||| || || |||| |||| || || ||| ||||| | ||| || Sbjct 66881703 ATCCCTTCCTTGTCCTGGATCTTAGCTTTTACATTGTCAATGGTGTCAGAACTCTCAACT 66881762 Query 43063 TCTACCGTTATAGTTTTTCCGGTTAGAGTTTTCACAAAAATTTGCAT 43109 || | || ||||| |||||||| ||||| ||||||||||||||||| Sbjct 66881763 TCCAAAGTAATAGTCTTTCCGGTGAGAGTCTTCACAAAAATTTGCAT 66881809 >seq2 Length=62769430 Score = 98.7 bits (108), Expect = 8e-16 Identities = 160/228 (70%), Gaps = 2/228 (1%) Strand=Plus/Minus Query 42883 CCTCCACGCAGTCTTAACACCAAATGGATAGTGCTCTCCTTTTGCACATTGTAATCGGAC 42942 |||||||| || | | ||||||||||| ||| ||||||||| | |||||||| | | Sbjct 10549619 CCTCCACGAAGGCGGAGCACCAAATGGAGGGTGGACTCCTTTTGGATGTTGTAATCAGCC 10549560 Query 42943 AATGTACGTTCGTCGTCCAATTGTTTGCCGGCAAAAATCAATCGCTGTTGATCGGCCGGC 43002 | ||||| | || || | ||| || |||||||| || | || ||| || || | || Sbjct 10549559 AGGGTACGGCCATCTTCTAGTTGCTTACCGGCAAAGATAAGTCTCTGCTGGTCTGGAGGG 10549500 Query 43003 ACACCTTCTTTTTCGCTGATCAACTCTTTGACTCTGCCAACTGTGTCGCCAGC-CTCGAC 43061 | |||||||| || |||| | ||||| | ||| ||||| | ||| || || Sbjct 10549499 ATCCCTTCTTTGTCTTGGATCTTGGCCTTGACATTATCAATGGTGTC-CGAGCTTTCCAC 10549441 Query 43062 GTCTACCGTTATAGTTTTTCCGGTTAGAGTTTTCACAAAAATTTGCAT 43109 || | || ||||| || ||||| || || || ||||| |||||||| Sbjct 10549440 CTCGAGGGTGATAGTCTTGCCGGTGAGGGTCTTAACAAAGATTTGCAT 10549393 Score = 96.9 bits (106), Expect = 3e-15 Identities = 149/210 (71%), Gaps = 2/210 (1%) Strand=Plus/Minus Query 42901 ACCAAATGGATAGTGCTCTCCTTTTGCACATTGTAATCGGACAATGTACGTTCGTCGTCC 42960 |||||||||| ||| |||||| || | ||| ||||||| | || | | | || || Sbjct 27609668 ACCAAATGGAGAGTAGACTCCTTCTGGATATTATAATCGGCAAGAGTTCTTCCATCTTCA 27609609 Query 42961 AATTGTTTGCCGGCAAAAATCAATCGCTGTTGATCGGCCGGCACACCTTCTTTTTCGCTG 43020 | |||||| || ||||||||||||| ||||| || | || | |||||||| || ||| Sbjct 27609608 AGTTGTTTTCCAGCAAAAATCAATCTTTGTTGGTCTGGTGGGATTCCTTCTTTGTC-CTG 27609550 Query 43021 -ATCAACTCTTTGACTCTGCCAACTGTGTCGCCAGCCTCGACGTCTACCGTTATAGTTTT 43079 ||| |||| || | ||| || || | |||||| || | || || || || Sbjct 27609549 AATCTTGGCTTTCACATTATCAATGGTATCCGAACTCTCGACCTCCAAGGTGATTGTCTT 27609490 Query 43080 TCCGGTTAGAGTTTTCACAAAAATTTGCAT 43109 ||| || |||||||| ||||| |||||||| Sbjct 27609489 TCCAGTGAGAGTTTTGACAAAGATTTGCAT 27609460 Score = 95.1 bits (104), Expect = 9e-15 Identities = 157/227 (69%), Gaps = 0/227 (0%) Strand=Plus/Minus Query 42883 CCTCCACGCAGTCTTAACACCAAATGGATAGTGCTCTCCTTTTGCACATTGTAATCGGAC 42942 || ||||| || | | ||||||||||| ||| |||||||| | |||||||| | Sbjct 10550075 CCACCACGAAGACGAAGCACCAAATGGAGGGTGGATTCCTTTTGGATGTTGTAATCAGCG 10550016 Query 42943 AATGTACGTTCGTCGTCCAATTGTTTGCCGGCAAAAATCAATCGCTGTTGATCGGCCGGC 43002 | || || | || || | ||| || |||||||| ||||| | |||||| || | || Sbjct 10550015 AGAGTGCGGCCATCTTCAAGTTGCTTACCGGCAAAGATCAACCTCTGTTGGTCTGGGGGA 10549956 Query 43003 ACACCTTCTTTTTCGCTGATCAACTCTTTGACTCTGCCAACTGTGTCGCCAGCCTCGACG 43062 | ||| || || || |||| | ||||| || ||| || || | ||| || Sbjct 10549955 ATACCCTCCTTGTCCTGGATCTTAGCCTTGACATTGTCAATGGTATCTGAACTCTCAACC 10549896 Query 43063 TCTACCGTTATAGTTTTTCCGGTTAGAGTTTTCACAAAAATTTGCAT 43109 || | || || || |||||||| ||||| |||||||| |||||||| Sbjct 10549895 TCCAAAGTAATGGTCTTTCCGGTAAGAGTCTTCACAAATATTTGCAT 10549849 Score = 84.2 bits (92), Expect = 2e-11 Identities = 157/228 (69%), Gaps = 2/228 (1%) Strand=Plus/Minus Query 42883 CCTCCACGCAGTCTTAACACCAAATGGATAGTGCTCTCCTTTTGCACATTGTAATCGGAC 42942 || ||||| || | | |||||||||| || ||||||||| | ||||| || | Sbjct 10550303 CCACCACGAAGACGAAGAACCAAATGGAGGGTCGACTCCTTTTGAATGTTGTAGTCTGCA 10550244 Query 42943 AATGTACGTTCGTCGTCCAATTGTTTGCCGGCAAAAATCAATCGCTGTTGATCGGCCGGC 43002 | ||| | | || || | || || || || |||||||| | |||||| || | || Sbjct 10550243 AGTGTCCTGCCATCCTCAAGCTGCTTACCCGCGAAAATCAACCTCTGTTGGTCTGGAGGG 10550184 Query 43003 ACACCTTCTTTTTCGCTGATCAACTCTTTGACTCTGCCAACTGTGTCGCCAGC-CTCGAC 43061 | |||||| || || ||| | ||||| || ||| |||||| ||| ||| || Sbjct 10550183 ATACCTTCCTTGTCCTGGATTTTGGCCTTGACATTGTCAATAGTGTCGG-AGCTCTCAAC 10550125 Query 43062 GTCTACCGTTATAGTTTTTCCGGTTAGAGTTTTCACAAAAATTTGCAT 43109 || | || || ||||| ||||| ||||| ||||||||||| ||||| Sbjct 10550124 TTCCAAGGTGATGGTTTTCCCGGTAAGAGTCTTCACAAAAATCTGCAT 10550077 Score = 82.4 bits (90), Expect = 6e-11 Identities = 155/228 (68%), Gaps = 0/228 (0%) Strand=Plus/Minus Query 42883 CCTCCACGCAGTCTTAACACCAAATGGATAGTGCTCTCCTTTTGCACATTGTAATCGGAC 42942 || ||||| || | | ||||||||||| ||| |||||||| | ||||| || | | Sbjct 10549847 CCACCACGAAGACGAAGCACCAAATGGAGGGTGGATTCCTTTTGGATGTTGTAGTCAGCC 10549788 Query 42943 AATGTACGTTCGTCGTCCAATTGTTTGCCGGCAAAAATCAATCGCTGTTGATCGGCCGGC 43002 | || || | || || ||||| || || ||||| ||||| | ||| || || | ||| Sbjct 10549787 AGGGTGCGGCCATCTTCTAATTGCTTACCAGCAAAGATCAACCTCTGCTGGTCTGGCGGA 10549728 Query 43003 ACACCTTCTTTTTCGCTGATCAACTCTTTGACTCTGCCAACTGTGTCGCCAGCCTCGACG 43062 | ||| || || || |||| | ||||| || ||| || || | ||| || Sbjct 10549727 ATACCCTCCTTGTCCTGGATCTTAGCCTTGACATTGTCAATGGTATCTGAACTCTCAACC 10549668 Query 43063 TCTACCGTTATAGTTTTTCCGGTTAGAGTTTTCACAAAAATTTGCATT 43110 || | || || || |||||||| | || || ||||| ||||||||| Sbjct 10549667 TCCAAAGTAATTGTCTTTCCGGTCAAGGTCTTAACAAAGATTTGCATT 10549620 >seq6 Length=51074515 Score = 95.1 bits (104), Expect = 9e-15 Identities = 157/227 (69%), Gaps = 0/227 (0%) Strand=Plus/Minus Query 42883 CCTCCACGCAGTCTTAACACCAAATGGATAGTGCTCTCCTTTTGCACATTGTAATCGGAC 42942 |||||||| || || || || | || | ||| |||||||| | ||| ||||| | | Sbjct 42745428 CCTCCACGAAGCCTCAAAACAAGGTGAAGGGTGGATTCCTTTTGGATATTATAATCAGCC 42745369 Query 42943 AATGTACGTTCGTCGTCCAATTGTTTGCCGGCAAAAATCAATCGCTGTTGATCGGCCGGC 43002 || || | | || |||||||||||||| || || ||||| |||||||| || | || Sbjct 42745368 AAGGTCCTCCCATCTTCCAATTGTTTGCCAGCGAAGATCAAACGCTGTTGGTCAGGTGGG 42745309 Query 43003 ACACCTTCTTTTTCGCTGATCAACTCTTTGACTCTGCCAACTGTGTCGCCAGCCTCGACG 43062 | ||||| || || ||| | || || || | | |||||| | |||||| Sbjct 42745308 ATGCCTTCCTTGTCTTGAATCTTGGCCTTAACGTTGTCGATGGTGTCGGAACTCTCGACT 42745249 Query 43063 TCTACCGTTATAGTTTTTCCGGTTAGAGTTTTCACAAAAATTTGCAT 43109 || | || || || || ||||||| ||||| ||||| |||||||| Sbjct 42745248 TCGAGGGTGATGGTCTTGCCGGTTAAGGTTTTGACAAAGATTTGCAT 42745202 Score = 84.2 bits (92), Expect = 2e-11 Identities = 161/235 (69%), Gaps = 2/235 (1%) Strand=Plus/Minus Query 42882 GCCTCCACGCAGTCTTAACACCAAATGGATAGTGCTCTCCTTTTGCACATTGTAATCGGA 42941 ||| ||||| || | ||| || | |||| ||| || || || | || ||||||| Sbjct 42745201 GCCCCCACGAAGGCGTAAGACGAGGTGGAGGGTGGATTCTTTCTGGATGTTATAATCGGC 42745142 Query 42942 CAATGTACGTTCGTCGTCCAATTGTTTGCCGGCAAAAATCAATCGCTGTTGATCGGCCGG 43001 | || || |||| || | |||||||| || ||||| | ||||| || |||| || Sbjct 42745141 AAGGGTCCGACCGTCTTCGAGCTGTTTGCCAGCGAAAATGAGACGCTGCTGGTCGGGTGG 42745082 Query 43002 CACACCTTCTTTTTCGCTGATCAACTCTTTGACTCTGCCAACTGTGTCGCCAGCCT-CGA 43060 | ||||| || || |||| | ||||| || | | |||||| ||| | ||| Sbjct 42745081 GATCCCTTCCTTGTCTTGGATCTTGGCCTTGACGTTGTCGATGGTGTCGG-AGCTTTCGA 42745023 Query 43061 CGTCTACCGTTATAGTTTTTCCGGTTAGAGTTTTCACAAAAATTTGCATTTTCTT 43115 | || | ||||| || || ||||| || ||||||||||| || ||||| ||||| Sbjct 42745022 CCTCGAGTGTTATGGTCTTGCCGGTAAGGGTTTTCACAAAGATCTGCATCTTCTT 42744968 >seq8 Length=57128820 Score = 91.5 bits (100), Expect = 1e-13 Identities = 148/213 (69%), Gaps = 0/213 (0%) Strand=Plus/Minus Query 42900 CACCAAATGGATAGTGCTCTCCTTTTGCACATTGTAATCGGACAATGTACGTTCGTCGTC 42959 ||| | ||||| ||| ||||| || | ||||| |||| || || || |||| || Sbjct 38526355 CACGAGATGGAGGGTGGATTCCTTCTGGATGTTGTAGTCGGCTAAGGTGCGGCCGTCCTC 38526296 Query 42960 CAATTGTTTGCCGGCAAAAATCAATCGCTGTTGATCGGCCGGCACACCTTCTTTTTCGCT 43019 | || ||||||||||| || | |||||||| |||| || | || || || || Sbjct 38526295 GAGCTGCTTGCCGGCAAAGATGAGGCGCTGTTGGTCGGGTGGGATGCCCTCCTTGTCTTG 38526236 Query 43020 GATCAACTCTTTGACTCTGCCAACTGTGTCGCCAGCCTCGACGTCTACCGTTATAGTTTT 43079 |||| ||||||| || | | |||||| || ||| || |||| ||||| || || Sbjct 38526235 GATCTTGGCTTTGACATTGTCGATGGTGTCGGAAGACTCAACCTCTAGGGTTATGGTCTT 38526176 Query 43080 TCCGGTTAGAGTTTTCACAAAAATTTGCATTTT 43112 || ||||| ||||| || || |||||||| || Sbjct 38526175 CCCCGTTAGGGTTTTGACGAAGATTTGCATCTT 38526143 >seq11 Length=62681010 Score = 86.0 bits (94), Expect = 5e-12 Identities = 142/200 (71%), Gaps = 4/200 (2%) Strand=Plus/Plus Query 42912 AGTGCTCTCCTTTTGCACATTGTAATCGGACAATGTACGTTCGTCGTCCAATTGTTTGCC 42971 |||| ||||||||| | ||||||||| | ||| || | | | || |||| ||||| || Sbjct 1163254 AGTGGACTCCTTTTGAATATTGTAATCAGCCAAAGTCCTTCCATCTTCCAGCTGTTTCCC 1163313 Query 42972 GGCAAAAATCAATCGCTGTTGATCGGCCGGCACACCTTCTTTTTCGCTG-ATCAACTCTT 43030 ||||||||||| | || ||||| | || | |||||||| || ||| ||| | ||| Sbjct 1163314 AGCAAAAATCAACCTTTGCTGATCTGGTGGAATTCCTTCTTTGTC-CTGAATCTTCGCTT 1163372 Query 43031 TGACTCTGCCAACTGTGTCGCCAGC-CTCGACGTCTACCGTTATAGTTTTTCCGGTTAGA 43089 | || | ||| || || | ||| ||| || |||| || || || || ||||| | | Sbjct 1163373 TCACGTTATCAATCGTATC-CGAGCTCTCCACTTCTAAAGTAATCGTCTTACCGGTCAAA 1163431 Query 43090 GTTTTCACAAAAATTTGCAT 43109 || || || || || ||||| Sbjct 1163432 GTCTTGACGAAGATCTGCAT 1163451 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 381364794027972