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_028093.1 Length=182309 Score E Sequences producing significant alignments: (Bits) Value seq104 131 2e-25 seq7 98.7 1e-15 seq4 98.7 1e-15 seq10 93.3 5e-14 seq25 89.7 6e-13 seq2 89.7 6e-13 seq242 86.0 7e-12 >seq104 Length=774161 Score = 131 bits (144), Expect = 2e-25 Identities = 251/365 (69%), Gaps = 4/365 (1%) Strand=Plus/Minus Query 9526 ATCAAAGCGACCTGGACGAAGGAGCGCGTCATCAAGGATATCAACGCGATTCGTCGCGGC 9585 |||||| || ||||| | | | ||| |||||| || ||| | | || || || || Sbjct 269183 ATCAAACCGTCCTGGCCTCAACAAAGCGGAATCAAGAATGTCAGCTCTGTTAGTTGCTGC 269124 Query 9586 GATGACAACAATACCTGTTTCATTATCAAAACCATCCATCTCTGTCAAAAGTTGGTTAAT 9645 || || | ||||| || | | || ||||||||||| || |||||||| ||||||| Sbjct 269123 AATTACGATGATACCGGTGTTACCCTCGAAACCATCCATTTCGGTCAAAAGCTGGTTAAG 269064 Query 9646 AGTTTGTTCCCGTTCATCATTCGCTGGCATACCACCAGCACTGCGTTGCTTTCCCACGGC 9705 |||||| || | ||||||||| || | ||||| | | ||| ||| ||||| Sbjct 269063 AGTTTGCTCTCTCTCATCATTCCCTCCACCAATACCAGTTCCTCTTTGTCGTCCAACGGC 269004 Query 9706 ATCAATCTCATCAATGAAGACGATGCATGGTTGATT-TTCGCGAGCGACTTCAAAGAGAT 9764 |||||| ||||| | ||||| || || || ||| | | | | ||| ||| |||| Sbjct 269003 ATCAATTTCATCCACAAAGACAATACAGGGGGCATTCTCCTTGGCCTTCTTGAAA-AGAT 268945 Query 9765 CCCGTACACGCTTGGCGCCCACACCAACAAACATCTCCACAAAGTTTGCGGCGGAACATT 9824 | || || || || || |||||||||||||| || ||||| | | ||||| || Sbjct 268944 CACGAACTCGAGAAGCACCAACACCAACAAACATTTCAACAAACTCAGAACCGGAA-ATG 268886 Query 9825 G-GATGAAGGGGACATTAGATTCACCCGCAATGGCTCGGGCGAGAAGAGTCTTACCCGTA 9883 | || ||| || ||| || |||||| ||||| || || ||||||||||| || || Sbjct 268885 GAGAAGAATGGCACACCAGCTTCACCGGCAATTGCCTTAGCAAGAAGAGTCTTTCCGGTT 268826 Query 9884 CCTGG 9888 || || Sbjct 268825 CCAGG 268821 >seq7 Length=42802127 Score = 98.7 bits (108), Expect = 1e-15 Identities = 159/226 (70%), Gaps = 2/226 (1%) Strand=Plus/Plus Query 104141 GACTACGACTTTGGTTATTTTGGTCTCAAAACCCTTGAGAAGAGCTATCT-TCAACGGCT 104199 |||| |||| || |||||||||| ||||||||||||||| | ||| || | || | | Sbjct 28740980 GACTTTGACTATGATTATTTTGGTTTCAAAACCCTTGAGAGGTCCTACCTCTTAAAAGTT 28741039 Query 104200 CGATGGTGTCTTGATGGAAACCCCACAGTACATGTTCATGCGCGTGGCCATCGGTATTCA 104259 | | || || || |||| || || ||||||| ||| | || || | || ||||| Sbjct 28741040 CAAGGGAAGGTT-ATAGAAAGGCCCCAACACATGTTGATGAGGGTTGCAGTTGGAATTCA 28741098 Query 104260 TGGGGAAGACATTGATTCTGTCTTGGAGACATACGACAAGATGTCCCAAGGTATGTTCAT 104319 | | | ||||||||||||| | | || || ||| |||||| ||| | ||| | Sbjct 28741099 TAAGAATGACATTGATTCTGCTATAAAAACTTATCACATGATGTCTCAAAGATGGTTTAC 28741158 Query 104320 TCACGCAACACCAACCCTCTTCAATGCTGGTACACCAAGACCCCAA 104365 ||| || | || || || ||||||||||| || ||||| || ||| Sbjct 28741159 TCATGCTTCTCCCACACTTTTCAATGCTGGAACTCCAAGGCCTCAA 28741204 >seq4 Length=78750349 Score = 98.7 bits (108), Expect = 1e-15 Identities = 159/226 (70%), Gaps = 2/226 (1%) Strand=Plus/Plus Query 104141 GACTACGACTTTGGTTATTTTGGTCTCAAAACCCTTGAGAAGAGCTATCT-TCAACGGCT 104199 |||| |||| || |||||||||| ||||||||||||||| | ||| || | || | | Sbjct 13233259 GACTTTGACTATGATTATTTTGGTTTCAAAACCCTTGAGAGGTCCTACCTCTTAAAAGTT 13233318 Query 104200 CGATGGTGTCTTGATGGAAACCCCACAGTACATGTTCATGCGCGTGGCCATCGGTATTCA 104259 | | || || || |||| || || ||||||| ||| | || || | || ||||| Sbjct 13233319 CAAGGGAAGGTT-ATAGAAAGGCCCCAACACATGTTGATGAGGGTTGCAGTTGGAATTCA 13233377 Query 104260 TGGGGAAGACATTGATTCTGTCTTGGAGACATACGACAAGATGTCCCAAGGTATGTTCAT 104319 | | | ||||||||||||| | | || || ||| |||||| ||| | ||| | Sbjct 13233378 TAAGAATGACATTGATTCTGCTATAAAAACTTATCACATGATGTCTCAAAGATGGTTTAC 13233437 Query 104320 TCACGCAACACCAACCCTCTTCAATGCTGGTACACCAAGACCCCAA 104365 ||| || | || || || ||||||||||| || ||||| || ||| Sbjct 13233438 TCATGCTTCTCCCACACTTTTCAATGCTGGAACTCCAAGGCCTCAA 13233483 >seq10 Length=91128445 Score = 93.3 bits (102), Expect = 5e-14 Identities = 307/469 (65%), Gaps = 14/469 (3%) Strand=Plus/Plus Query 9556 ATCAAGGATATCAACGCGATTCGTCGCGGCGATGACAACAATACCTGTTTCATTATCAAA 9615 ||| || || ||| | ||| || || || ||||||| || || || | | | ||| Sbjct 89879471 ATCCAGAATTTCAGGCCTATTAGTGGCAGCAATGACAATAACTCCAGTATTACCAGTAAA 89879530 Query 9616 ACCATCCATCTCTGTCAAAAGTTGGTTAATAGTTTGTTCCCGTTCATCATTCGCTGGCAT 9675 ||||||||| || ||||| || || || | |||||| |||| |||||||||| || Sbjct 89879531 ACCATCCATTTCAGTCAACAGCTGATTCAAAGTTTGCTCCCTTTCATCATTCCCT---CC 89879587 Query 9676 ACCA---CCAGCACTGCGTTGCTTTCCCACGGCATCAATCTCATCAATGAAGACGATGCA 9732 |||| |||| | | || |||| || |||||||||||||| ||||| || | || Sbjct 89879588 ACCAATCCCAGTTCCTCTCTGTCTTCCAACAGCATCAATCTCATCGATGAACACCAAACA 89879647 Query 9733 TGGTTGATTTTCGCGAGCGACTTCAAAGAGATCCCGTACACGCTTG--GCGCCCACACCA 9790 ||| ||| | || | ||| || |||| || || || | || || || ||| Sbjct 89879648 TGGGGAATTAGCCTTTGCCTTGTTAAACAGGTCCC-TA-ACTCTGGAAGCTCCAACGCCA 89879705 Query 9791 ACAAACATCTCCACAAAGTTTGCGGCGGAACATTGGATGAAGGGGACATTAGATTCACCC 9850 ||||||||||| | || | || | ||| | ||| || || | ||| || Sbjct 89879706 ACAAACATCTCGATGAACTCTGAACCAGAAAGGGAAAAGAAAGGAACCCCTGCTTCCCCT 89879765 Query 9851 GCAATGGCTCGGGCGAGAAGAGTCTTACCCGTACCTGGCTTACCCGCGAGGAGGGCACCT 9910 |||||||| ||| || | |||||||| || ||||| || || || | ||| Sbjct 89879766 GCAATGGCCTTGGCCAGCAATGTCTTACCAGTCCCTGGAGGTCCAATTAGAAGCACTCCT 89879825 Query 9911 CGTGGAATCTTGGCGCCACTTCC--AAAGTATCTCTCAGGTTGCTTAAGAAAATCCACAA 9968 ||||| |||| ||| || | || | | ||| |||| ||||| || ||||| | Sbjct 89879826 TTGGGAATTGTGGCACCAATTGCTGCAAATTTTTCTGGGGTT-TTTAAG-AACTCCACTA 89879883 Query 9969 TTTCTTCCAATTCATCTTTGGCGGCGTCAATCCCCTCAACATCGGTAAA 10017 |||| || || | ||||| | ||||| || | |||||| |||| Sbjct 89879884 CCTCTTGAAAATCTTGCTTGGCTTCATCAATACCAGCTACATCGTTAAA 89879932 >seq25 Length=50193149 Score = 89.7 bits (98), Expect = 6e-13 Identities = 157/226 (69%), Gaps = 2/226 (1%) Strand=Plus/Plus Query 104141 GACTACGACTTTGGTTATTTTGGTCTCAAAACCCTTGAGAAGAGCTATCT-TCAACGGCT 104199 |||| |||| | ||| ||||| |||||||||| |||| | ||||| | | | | Sbjct 26655538 GACTTTGACTACGATTACTTTGGCTTCAAAACCCTGGAGAGGTCTTATCTCTTGAAAGTT 26655597 Query 104200 CGATGGTGTCTTGATGGAAACCCCACAGTACATGTTCATGCGCGTGGCCATCGGTATTCA 104259 | | || || || |||| || ||| ||||||| ||| | || || | || ||||| Sbjct 26655598 CAAGGGAAGGTT-ATAGAAAGGCCTCAGCACATGTTAATGAGGGTTGCTGTTGGAATTCA 26655656 Query 104260 TGGGGAAGACATTGATTCTGTCTTGGAGACATACGACAAGATGTCCCAAGGTATGTTCAT 104319 | ||| ||||||||||||| | | || || ||| |||||| ||| | ||||| Sbjct 26655657 TAAGGATGACATTGATTCTGCTATAAAAACTTATCACATGATGTCTCAAAGATGGTTCAC 26655716 Query 104320 TCACGCAACACCAACCCTCTTCAATGCTGGTACACCAAGACCCCAA 104365 ||| || | || || || ||||||||||| || ||||| || ||| Sbjct 26655717 TCATGCTTCTCCCACTCTTTTCAATGCTGGGACTCCAAGGCCTCAA 26655762 Score = 82.4 bits (90), Expect = 9e-11 Identities = 115/159 (72%), Gaps = 2/159 (1%) Strand=Plus/Plus Query 105128 GTTACGAAAACTGTCACCAAAAACCTAAACAGAGTTATTGATAGAAATTTTTACCCCGTT 105187 ||||| ||| ||| |||| ||| || |||| | |||||||| |||| ||||||||| Sbjct 26657314 GTTACTGAAATTGTAACCAGAAATCTTAACAAAATTATTGATGTTAATTACTACCCCGTT 26657373 Query 105188 GAGACTGCTCGTAAATCTAATATGAGACACCGTCCAATTGGTCTCGGTGTTCAGGGTCTC 105247 || ||||| | ||| ||| || | || | ||||||||| | || || |||||||| Sbjct 26657374 GAAACTGCCAAAAGATCAAATTTGCGTCATAGGCCAATTGGTATTGGAGTGCAGGGTCTT 26657433 Query 105248 GCGGATGTATTCATTCTTTGTCGCCA-CGCATTTGATTC 105285 || || ||||| |||| | | || || |||||||| Sbjct 26657434 GCAGACACATTCA-TCTTACTTGGCATGGCCTTTGATTC 26657471 >seq2 Length=106994729 Score = 89.7 bits (98), Expect = 6e-13 Identities = 157/226 (69%), Gaps = 2/226 (1%) Strand=Plus/Plus Query 104141 GACTACGACTTTGGTTATTTTGGTCTCAAAACCCTTGAGAAGAGCTATCT-TCAACGGCT 104199 |||| |||| || ||| ||||| |||||||| | |||| | ||||| | | | | Sbjct 29495475 GACTTTGACTATGATTACTTTGGCTTCAAAACCTTGGAGAGGTCTTATCTCTTGAAAGTT 29495534 Query 104200 CGATGGTGTCTTGATGGAAACCCCACAGTACATGTTCATGCGCGTGGCCATCGGTATTCA 104259 | | || || || |||| || ||| ||||||| ||| | || || | || ||||| Sbjct 29495535 CAAGGGAAGGTT-ATAGAAAGGCCTCAGCACATGTTAATGAGGGTTGCTGTTGGAATTCA 29495593 Query 104260 TGGGGAAGACATTGATTCTGTCTTGGAGACATACGACAAGATGTCCCAAGGTATGTTCAT 104319 | ||| ||||||||||||| | | || || ||| |||||| ||| | ||||| Sbjct 29495594 TAAGGATGACATTGATTCTGCTATAAAAACTTATCACATGATGTCTCAAAGATGGTTCAC 29495653 Query 104320 TCACGCAACACCAACCCTCTTCAATGCTGGTACACCAAGACCCCAA 104365 ||| || | || || || ||||||||||| || ||||| || ||| Sbjct 29495654 TCATGCTTCTCCCACTCTTTTCAATGCTGGCACTCCAAGGCCTCAA 29495699 >seq242 Length=346230 Score = 86.0 bits (94), Expect = 7e-12 Identities = 308/471 (65%), Gaps = 18/471 (4%) Strand=Plus/Plus Query 9556 ATCAAGGATATCAACGCGATTCGTCGCGGCGATGACAACAATACCTGTTTCATTATCAAA 9615 ||| || || ||| | ||| || || || ||||||| || || || | | | ||| Sbjct 215903 ATCCAGAATTTCAGGCCTATTAGTAGCAGCAATGACAATAACTCCAGTATTACCAGTAAA 215962 Query 9616 ACCATCCATCTCTGTCAAAAGTTGGTTAATAGTTTGTTCCCGTTCATCATTCGCTGGCAT 9675 ||||||||| || ||||| || || || | |||||| |||| |||||||||| || Sbjct 215963 ACCATCCATTTCAGTCAACAGCTGATTCAAAGTTTGCTCCCTTTCATCATTCCCT---CC 216019 Query 9676 ACCA---CCAGCACTGCGTTGCTTTCCCACGGCATCAATCTCATCAATGAAGACGATGCA 9732 |||| |||| | | || |||| || |||||||||||||| ||||| || | || Sbjct 216020 ACCAATCCCAGTTCCTCTCTGTCTTCCAACAGCATCAATCTCATCGATGAACACCAAACA 216079 Query 9733 TGGTTGATTTTCGCGAGCGACT--TCAAAGAGATCCCGTACACGCTTG--GCGCCCACAC 9788 ||| | || || | || | ||| || |||| || || || | || || || | Sbjct 216080 TGG--GGAGTTAGCCTTTGCCTTGTTAAACAGGTCCC-TA-ACTCTGGAAGCTCCAACGC 216135 Query 9789 CAACAAACATCTCCACAAAGTTTGCGGCGGAACATTGGATGAAGGGGACATTAGATTCAC 9848 | ||||||||||| | || | || | ||| | ||| || || | ||| | Sbjct 216136 CTACAAACATCTCGATGAACTCTGAACCAGAAAGGGAAAAGAAAGGAACCCCTGCTTCCC 216195 Query 9849 CCGCAATGGCTCGGGCGAGAAGAGTCTTACCCGTACCTGGCTTACCCGCGAGGAGGGCAC 9908 | |||||||| ||| || | |||||||| || ||||| || || || | | Sbjct 216196 CTGCAATGGCCTTGGCCAGCAATGTCTTACCAGTCCCTGGAGGTCCAATTAGAAGCACTC 216255 Query 9909 CTCGTGGAATCTTGGCGCCACTTCC--AAAGTATCTCTCAGGTTGCTTAAGAAAATCCAC 9966 || ||||| |||| ||| || | || | | ||| |||| ||||| || ||||| Sbjct 216256 CTTTGGGAATTGTGGCACCAATTGCTGCAAATTTTTCTGGGGTT-TTTAAG-AACTCCAC 216313 Query 9967 AATTTCTTCCAATTCATCTTTGGCGGCGTCAATCCCCTCAACATCGGTAAA 10017 | |||| || || | ||||| | ||||| || | |||||| |||| Sbjct 216314 TACCTCTTGAAAATCTTGCTTGGCTTCATCAATACCAGCTACATCGTTAAA 216364 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 583194104127520