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_020852.1 Length=186468 Score E Sequences producing significant alignments: (Bits) Value seq104 100 3e-16 seq7 98.7 1e-15 seq4 98.7 1e-15 seq25 91.5 2e-13 seq23 91.5 2e-13 seq2 89.7 6e-13 seq10 86.0 7e-12 >seq104 Length=774161 Score = 100 bits (110), Expect = 3e-16 Identities = 303/461 (66%), Gaps = 8/461 (2%) Strand=Plus/Plus Query 175191 TGATGTTGAGGGGATTGACGCCGCCAAAGATGAACTTGAAG-AGATTGTGGATTTTCTCA 175249 |||||||| || |||| | || |||| | |||| | | || ||||||| || | | Sbjct 268697 TGATGTTGCTGGAGTTGATGAAGC-AAAGCAGGACTTCATGGAGGTTGTGGAGTTCTTAA 268755 Query 175250 AGCAACCCGAGAGATATTTTGGAAGTGGTGCCAAG-ATCCCCCGAGGCGCCCTTCTCGCG 175308 || | || || |||| || | ||| | | | | ||||| ||| | |||||| Sbjct 268756 AGAAGCCAGAAAGAT-TTACCGCAGTCGGGGCTCGTATCCCTAAAGGTGTTCTTCTCATT 268814 Query 175309 GGTAAGCCAGGTACGGGAAAGACCCTCCTCGCCCGAGCCATCGCGGGTGAATCAAATGTC 175368 || || || || |||||||| || || || || || || |||||| | ||| Sbjct 268815 GGCCCTCCTGGAACCGGAAAGACTCTTCTTGCTAAGGCAATTGCCGGTGAAGCTGGTGTG 268874 Query 175369 CCATTCATC--CAGTGCTCTGCCGCAAACTTTGTGGAGATGTTTGTTGGTGTGGGTGCCA 175426 |||||| || || | || | | | ||||| || |||||||||||||| ||||| Sbjct 268875 CCATTCTTCTCCATT--TCCGGTTCTGAGTTTGTTGAAATGTTTGTTGGTGTTGGTGCTT 268932 Query 175427 AAAGGGTTCGCGATCTCTTTGAAATCGCCCGCGAAAATCAACCATGTATTGTCTTCATTG 175486 | ||||| ||||| || | | ||| || ||| || ||||||||||| | | Sbjct 268933 CTCGAGTTCGTGATCTTTTCAAGAAGGCCAAGGAGAATGCCCCCTGTATTGTCTTTGTGG 268992 Query 175487 ATGAGATTGATGCGGTGGGCAAGCAACGCAGCGCTGGTGGTATGCCAGCAAATGACGAGA 175546 |||| |||||||| || || ||| | | ||||| | || ||||| |||| Sbjct 268993 ATGAAATTGATGCCGTTGGACGACAAAGAGGAACTGGTATTGGTGGAGGGAATGATGAGA 269052 Query 175547 GAGAACAAACAATTAATCAACTACTCACCGAGATGGATGGCTTTGACAATGAGACTGGCA 175606 |||| ||||| |||| || || | ||||| |||||||| || || | | || || | Sbjct 269053 GAGAGCAAACTCTTAACCAGCTTTTGACCGAAATGGATGGTTTCGAGGGTAACACCGGTA 269112 Query 175607 TTGTGGTTATTGCGGCCACTAATCGCGTGGATATCCTTGAT 175647 | | || ||||| || ||||| | | || || |||||| Sbjct 269113 TCATCGTAATTGCAGCAACTAACAGAGCTGACATTCTTGAT 269153 >seq7 Length=42802127 Score = 98.7 bits (108), Expect = 1e-15 Identities = 160/228 (70%), Gaps = 2/228 (1%) Strand=Plus/Plus Query 75128 CGGGACTATGATTTTGGTTACTTTGGTCTCAAAACCCTTGAGAAGAGCTATCT-TCAACG 75186 ||||||| ||| | || ||| |||||| ||||||||||||||| | ||| || | || Sbjct 28740977 CGGGACTTTGACTATGATTATTTTGGTTTCAAAACCCTTGAGAGGTCCTACCTCTTAAAA 28741036 Query 75187 GCTCGATGGCATCCTCATGGAAACCCCACAGTACATGTTCATGCGGGTCGCAATCGGCAT 75246 | || | || | | || |||| || || ||||||| ||| |||| ||| | || || Sbjct 28741037 GTTCAAGGGAAGGTT-ATAGAAAGGCCCCAACACATGTTGATGAGGGTTGCAGTTGGAAT 28741095 Query 75247 CCACGGGGAAGACATTGATTCTGTCTTGGAGACATACGACAAGATGTCCCAAGGTATGTT 75306 || | | ||||||||||||| | | || || ||| |||||| ||| | ||| Sbjct 28741096 TCATAAGAATGACATTGATTCTGCTATAAAAACTTATCACATGATGTCTCAAAGATGGTT 28741155 Query 75307 CATTCACGCAACACCAACCCTCTTCAATGCTGGTACACCAAGACCGCA 75354 | ||| || | || || || ||||||||||| || ||||| || || Sbjct 28741156 TACTCATGCTTCTCCCACACTTTTCAATGCTGGAACTCCAAGGCCTCA 28741203 >seq4 Length=78750349 Score = 98.7 bits (108), Expect = 1e-15 Identities = 160/228 (70%), Gaps = 2/228 (1%) Strand=Plus/Plus Query 75128 CGGGACTATGATTTTGGTTACTTTGGTCTCAAAACCCTTGAGAAGAGCTATCT-TCAACG 75186 ||||||| ||| | || ||| |||||| ||||||||||||||| | ||| || | || Sbjct 13233256 CGGGACTTTGACTATGATTATTTTGGTTTCAAAACCCTTGAGAGGTCCTACCTCTTAAAA 13233315 Query 75187 GCTCGATGGCATCCTCATGGAAACCCCACAGTACATGTTCATGCGGGTCGCAATCGGCAT 75246 | || | || | | || |||| || || ||||||| ||| |||| ||| | || || Sbjct 13233316 GTTCAAGGGAAGGTT-ATAGAAAGGCCCCAACACATGTTGATGAGGGTTGCAGTTGGAAT 13233374 Query 75247 CCACGGGGAAGACATTGATTCTGTCTTGGAGACATACGACAAGATGTCCCAAGGTATGTT 75306 || | | ||||||||||||| | | || || ||| |||||| ||| | ||| Sbjct 13233375 TCATAAGAATGACATTGATTCTGCTATAAAAACTTATCACATGATGTCTCAAAGATGGTT 13233434 Query 75307 CATTCACGCAACACCAACCCTCTTCAATGCTGGTACACCAAGACCGCA 75354 | ||| || | || || || ||||||||||| || ||||| || || Sbjct 13233435 TACTCATGCTTCTCCCACACTTTTCAATGCTGGAACTCCAAGGCCTCA 13233482 >seq25 Length=50193149 Score = 91.5 bits (100), Expect = 2e-13 Identities = 244/370 (66%), Gaps = 10/370 (3%) Strand=Plus/Plus Query 175315 CCAGGTACGGGAAAGACCCTCCTCGCCCGAGCCATCGCGGGTGAATCAAATGTCCCATTC 175374 || ||||| |||||||| || | || |||| | || || ||| | || || || Sbjct 41158889 CCTGGTACTGGAAAGACTCTATTGGCGAGAGCAGTAGCAGGAGAAGCCGGGGTTCCGTTT 41158948 Query 175375 ATCCAGTGCTCTGCCGCAAACTTTGTGGAGATGTTTGTTGGTGTGGGTGCCAAAAGGGTT 175434 || ||| |||| | | ||||||||| |||| ||||| || ||||| || || Sbjct 41158949 TTCTCATGCGCTGCTTCTGAGTTTGTGGAGTTGTTCGTTGGAGTAGGTGCATCCAGAGTA 41159008 Query 175435 CGCGATCTCTTTGAAATCGCCCGCGAAAATCAA----CCATGTATTGTCTTCATTGATGA 175490 | || | || || | ||| ||| ||| || || || |||||||||||||| Sbjct 41159009 AGGGACTTATTCGATAAGGCC----AAATCCAAGGCTCCTTGCATCGTCTTCATTGATGA 41159064 Query 175491 GATTGATGCGGTGGGCAAGCAACGCAGCGCTGGTGGTATGCCAGCAAATGACGAGAGAGA 175550 ||||||||| || || | || | | |||||| | || |||||| |||||||| Sbjct 41159065 GATTGATGCTGTTGGGAGACAGAGAGGAGCTGGTCTTGGAGGAGGAAATGATGAGAGAGA 41159124 Query 175551 ACAAACAATTAATCAACTACTCACCGAGATGGATGGCTTTGACAATG-AGACTGGCATTG 175609 || ||||| ||||| | | || ||||||||||| ||| || | | |||| | Sbjct 41159125 GCAGACAATCAATCAGTTGTTGACTGAGATGGATGGATTT-TCAGGGAATTCTGGTGTCA 41159183 Query 175610 TGGTTATTGCGGCCACTAATCGCGTGGATATCCTTGATGACGCCCTCCTTCGCCCGGGTC 175669 | ||| | || || || || | |||| | ||||||| ||| | | || |||||| Sbjct 41159184 TTGTTTTGGCAGCAACCAACAGACCGGATGTTCTTGATGCCGCTTTGTTGCGGCCGGGTA 41159243 Query 175670 GTTTTGATCG 175679 | ||||| || Sbjct 41159244 GGTTTGACCG 41159253 Score = 89.7 bits (98), Expect = 6e-13 Identities = 158/228 (69%), Gaps = 2/228 (1%) Strand=Plus/Plus Query 75128 CGGGACTATGATTTTGGTTACTTTGGTCTCAAAACCCTTGAGAAGAGCTATCT-TCAACG 75186 || |||| ||| | | ||||||||| |||||||||| |||| | ||||| | | Sbjct 26655535 CGTGACTTTGACTACGATTACTTTGGCTTCAAAACCCTGGAGAGGTCTTATCTCTTGAAA 26655594 Query 75187 GCTCGATGGCATCCTCATGGAAACCCCACAGTACATGTTCATGCGGGTCGCAATCGGCAT 75246 | || | || | | || |||| || ||| ||||||| ||| |||| || | || || Sbjct 26655595 GTTCAAGGGAAGGTT-ATAGAAAGGCCTCAGCACATGTTAATGAGGGTTGCTGTTGGAAT 26655653 Query 75247 CCACGGGGAAGACATTGATTCTGTCTTGGAGACATACGACAAGATGTCCCAAGGTATGTT 75306 || ||| ||||||||||||| | | || || ||| |||||| ||| | ||| Sbjct 26655654 TCATAAGGATGACATTGATTCTGCTATAAAAACTTATCACATGATGTCTCAAAGATGGTT 26655713 Query 75307 CATTCACGCAACACCAACCCTCTTCAATGCTGGTACACCAAGACCGCA 75354 || ||| || | || || || ||||||||||| || ||||| || || Sbjct 26655714 CACTCATGCTTCTCCCACTCTTTTCAATGCTGGGACTCCAAGGCCTCA 26655761 >seq23 Length=61753794 Score = 91.5 bits (100), Expect = 2e-13 Identities = 244/370 (66%), Gaps = 10/370 (3%) Strand=Plus/Minus Query 175315 CCAGGTACGGGAAAGACCCTCCTCGCCCGAGCCATCGCGGGTGAATCAAATGTCCCATTC 175374 || ||||| |||||||| || | || |||| | || || ||| | || || || Sbjct 28935085 CCTGGTACTGGAAAGACTCTATTGGCGAGAGCAGTAGCAGGAGAAGCCGGGGTTCCGTTT 28935026 Query 175375 ATCCAGTGCTCTGCCGCAAACTTTGTGGAGATGTTTGTTGGTGTGGGTGCCAAAAGGGTT 175434 || ||| |||| | | ||||||||| |||| ||||| || ||||| || || Sbjct 28935025 TTCTCATGCGCTGCTTCTGAGTTTGTGGAGTTGTTCGTTGGAGTAGGTGCATCCAGAGTA 28934966 Query 175435 CGCGATCTCTTTGAAATCGCCCGCGAAAATCAA----CCATGTATTGTCTTCATTGATGA 175490 | || | || || | ||| ||| ||| || || || |||||||||||||| Sbjct 28934965 AGGGACTTATTCGATAAGGCC----AAATCCAAGGCTCCTTGCATCGTCTTCATTGATGA 28934910 Query 175491 GATTGATGCGGTGGGCAAGCAACGCAGCGCTGGTGGTATGCCAGCAAATGACGAGAGAGA 175550 ||||||||| || || | || | | |||||| | || |||||| |||||||| Sbjct 28934909 GATTGATGCTGTTGGGAGACAGAGAGGAGCTGGTCTTGGAGGAGGAAATGATGAGAGAGA 28934850 Query 175551 ACAAACAATTAATCAACTACTCACCGAGATGGATGGCTTTGACAATG-AGACTGGCATTG 175609 || ||||| ||||| | | || ||||||||||| ||| || | | |||| | Sbjct 28934849 GCAGACAATCAATCAGTTGTTGACTGAGATGGATGGATTT-TCAGGGAATTCTGGTGTCA 28934791 Query 175610 TGGTTATTGCGGCCACTAATCGCGTGGATATCCTTGATGACGCCCTCCTTCGCCCGGGTC 175669 | ||| | || || || || | |||| | ||||||| ||| | | || |||||| Sbjct 28934790 TTGTTTTGGCAGCAACCAACAGACCGGATGTTCTTGATGCCGCTTTGTTGCGGCCGGGTA 28934731 Query 175670 GTTTTGATCG 175679 | ||||| || Sbjct 28934730 GGTTTGACCG 28934721 >seq2 Length=106994729 Score = 89.7 bits (98), Expect = 6e-13 Identities = 158/228 (69%), Gaps = 2/228 (1%) Strand=Plus/Plus Query 75128 CGGGACTATGATTTTGGTTACTTTGGTCTCAAAACCCTTGAGAAGAGCTATCT-TCAACG 75186 || |||| ||| | || ||||||||| |||||||| | |||| | ||||| | | Sbjct 29495472 CGTGACTTTGACTATGATTACTTTGGCTTCAAAACCTTGGAGAGGTCTTATCTCTTGAAA 29495531 Query 75187 GCTCGATGGCATCCTCATGGAAACCCCACAGTACATGTTCATGCGGGTCGCAATCGGCAT 75246 | || | || | | || |||| || ||| ||||||| ||| |||| || | || || Sbjct 29495532 GTTCAAGGGAAGGTT-ATAGAAAGGCCTCAGCACATGTTAATGAGGGTTGCTGTTGGAAT 29495590 Query 75247 CCACGGGGAAGACATTGATTCTGTCTTGGAGACATACGACAAGATGTCCCAAGGTATGTT 75306 || ||| ||||||||||||| | | || || ||| |||||| ||| | ||| Sbjct 29495591 TCATAAGGATGACATTGATTCTGCTATAAAAACTTATCACATGATGTCTCAAAGATGGTT 29495650 Query 75307 CATTCACGCAACACCAACCCTCTTCAATGCTGGTACACCAAGACCGCA 75354 || ||| || | || || || ||||||||||| || ||||| || || Sbjct 29495651 CACTCATGCTTCTCCCACTCTTTTCAATGCTGGCACTCCAAGGCCTCA 29495698 >seq10 Length=91128445 Score = 86.0 bits (94), Expect = 7e-12 Identities = 289/445 (65%), Gaps = 14/445 (3%) Strand=Plus/Minus Query 175192 GATGTTGAGGGGATTGACGCCGCCAAAGATGAACTTGAAGAGATTGTGGATTTTCTCAAG 175251 ||||| | || ||||| | ||||| | || || ||||| | ||||| || | || Sbjct 89879926 GATGTAGCTGGTATTGATGAAGCCAAGCAAGATTTTCAAGAGGTAGTGGAGTTCTTAAA- 89879868 Query 175252 CAACCCGAGAGATATTTT--GGAAGTGGTGCCAAGATCCCCCGAGGCGCCCTTCTCGCGG 175309 ||||| ||| | |||| | || |||||||| || ||| ||| | ||||| | Sbjct 89879867 -AACCCCAGAAAAATTTGCAGCAATTGGTGCCACAATTCCCAAAGGAGTGCTTCTAATTG 89879809 Query 175310 GTAAGCCAGGTACGGGAAAGACCCTCCTCGCCCGAGCCATCGCGGGTGAATCAAATGTCC 175369 | ||||| || || ||||| | || ||| ||||| || || ||| || || | Sbjct 89879808 GACCTCCAGGGACTGGTAAGACATTGCTGGCCAAGGCCATTGCAGGGGAAGCAGGGGTTC 89879749 Query 175370 CATTCAT--CCAGTGCTCTGCCGCAAACTTTGTGGAGATGTTTGTTGGTGTGGGTGCCAA 175427 | ||| | || | |||| || | || | |||||||||||||| || || || Sbjct 89879748 CTTTCTTTTCCCTT--TCTGGTTCAGAGTTCATCGAGATGTTTGTTGGCGTTGGAGCTTC 89879691 Query 175428 AAGGGTTCGCGATCTCTTTGAAATCGCCCGCGAAAATCAACCATGTATTGTCTTCATTGA 175487 || ||| | || || ||| | | || | ||| |||||| | || ||||| || Sbjct 89879690 CAGAGTTAGGGACCTGTTTAACAAGGCAAAGGCTAATTCCCCATGTTTGGTGTTCATCGA 89879631 Query 175488 TGAGATTGATGCGGTGGGCAAGCAACGCAGCGCTGG---TGGTATGCCAGCAAATGACGA 175544 |||||||||||| || || | || | | |||| |||| || ||||| || Sbjct 89879630 TGAGATTGATGCTGTTGGAAGACAGAGAGGAACTGGGATTGGT---GGAGGGAATGATGA 89879574 Query 175545 GAGAGAACAAACAATTAATCAACTACTCACCGAGATGGATGGCTTTGACAATGAGACTGG 175604 || || ||||| | ||||| || | || || |||||||| ||| | | ||||| Sbjct 89879573 AAGGGAGCAAACTTTGAATCAGCTGTTGACTGAAATGGATGGTTTTACTGGTAATACTGG 89879514 Query 175605 CATTGTGGTTATTGCGGCCACTAAT 175629 || | || ||||| ||||||||| Sbjct 89879513 AGTTATTGTCATTGCTGCCACTAAT 89879489 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 596501382266240