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_004003.1 Length=149599 Score E Sequences producing significant alignments: (Bits) Value seq22 134 1e-26 seq16 129 6e-25 seq19 102 8e-17 seq228 98.7 1e-15 >seq22 Length=61129363 Score = 134 bits (148), Expect = 1e-26 Identities = 369/562 (66%), Gaps = 5/562 (1%) Strand=Plus/Plus Query 13657 AAACACGCAAAATCACAATGAAGGCCCTCATCTCTACTAATAAGTTCGTTTGAAAATGTT 13716 || || || ||||| || || || || ||||||| || | |||||||| || ||| Sbjct 6287576 AAGCAAGCGAAATCGCAGTGGAGACCTTCATCTCGTGAGATTAACTCGTTTGAGAAAGTT 6287635 Query 13717 AATCCTGGCATCAATCCTCGtttttttAACCAAAATATTGCAGCGAATGATCCGGAAAAG 13776 ||||| ||||| || || | ||||||||||||||||| ||| ||| |||||| || Sbjct 6287636 AATCCGGGCATTAACCCCCTCTTTTTTAACCAAAATATGGCACAGAAACTTCCGGAGAAA 6287695 Query 13777 AATATTCCCTCAACTGCAGCAAACGCTATTAGTCGTTCTCCAAACGATGCTTTTTTGTTT 13836 || || || || || |||||| || |||| ||||| | || | | || || Sbjct 6287696 AAGATCCCTTCTACGCAAGCAAAAGCGATTAACCGTTCGGCGAAAGTTTCTCCGCCGT-- 6287753 Query 13837 GATATCCATTTTCTAGCCCATTCAGAtttttttttAATAAAATCCATTGTTTCGATTGCA 13896 |||||||| ||||||| || | |||||| | | | || || ||||| || Sbjct 6287754 -CGATCCATTTCATAGCCCACTCGGCTTTTTTAGCCACACACGGCACCGTCTCGATGGCG 6287812 Query 13897 TTGAATAAATGTTCCTTCTCTTTAGTACTTGAAATGTATGTATCAATAAGTAAGCTATAC 13956 ||| | | | | ||| || | | | | ||||| || || | ||| | || ||| Sbjct 6287813 CGGAAAAGACGGTTCTTTTCATCGGAATCTTTTATGTAAGTCTCGAGAAGGAGACTGTAC 6287872 Query 13957 ATTTCAGAGTGTATGTTTTCTATAGCTATCTGAAAACCATAAAAACATCTAGCTTCTGAC 14016 || || ||||| || ||||| ||||| || || |||||||||||| | || || || Sbjct 6287873 ATCTCGGAGTGGATATTTTCGATAGCGATTTGGAAACCATAAAAAGCACGCGCCTCGGAG 6287932 Query 14017 CATTGTACCTCCGAGTAAAATCTTTCTGCCAAGTTTTCATTAACAATACCATCACTAGCT 14076 || ||||| || | | || | ||| ||| || || ||||| || Sbjct 6287933 ATCTGGACCTCTTTCATGAACCGAACAGCAAGGTTCTCAAGGACTATGCCATCGGAGGCG 6287992 Query 14077 GCAAAAAATGCCAATATGTTTTTAATAAAGTATTGCTCTTCATTGTTGAGTTTTTTCCAA 14136 || ||||| || | | || |||| |||| ||||| || | |||| ||| ||| Sbjct 6287993 GCGAAAAAGGCGAGAACGTGACTAATGAAGTGATGCTCATCGGCGGTGAGAGTTTCCCAG 6288052 Query 14137 TCGGCTAA-ATCCTTAGAAAGATCTACTTCATCAACTGTCCAAAAACTAGCGACAGCTTT 14195 | | | || ||| ||| ||||| ||||| || | |||||||| || | ||||| Sbjct 6288053 T-GACGAAGATCTGAAGACAGATCGACTTCCTCTGCGGTCCAAAACGACGCTTCGGCTTT 6288111 Query 14196 TTTATACATTACCCATATTTCT 14217 || |||||| |||||| |||| Sbjct 6288112 CTTGTACATTTCCCATACTTCT 6288133 >seq16 Length=102030775 Score = 129 bits (142), Expect = 6e-25 Identities = 236/345 (68%), Gaps = 3/345 (1%) Strand=Plus/Minus Query 13657 AAACACGCAAAATCACAATGAAGGCCCTCATCTCTACTAATAAGTTCGTTTGAAAATGTT 13716 || || || |||||||| || || || ||||||| || | |||||||| || ||| Sbjct 57862378 AAGCAAGCGAAATCACAGTGGAGACCTTCATCTCGTGAGATTAACTCGTTTGAGAAAGTT 57862319 Query 13717 AATCCTGGCATCAATCCTCGtttttttAACCAAAATATTGCAGCGAATGATCCGGAAAAG 13776 ||||| ||||| || || | ||||||||||||||||| ||| ||| |||||| || Sbjct 57862318 AATCCGGGCATTAACCCCCTCTTTTTTAACCAAAATATGGCACAGAAACTTCCGGAGAAA 57862259 Query 13777 AATATTCCCTCAACTGCAGCAAACGCTATTAGTCGTTCTCCAAACGATGCTTTTTTGTTT 13836 || || ||||| || |||||| || |||| ||||| | || | | || || Sbjct 57862258 AAGATCCCCTCTACGCAAGCAAAAGCGATTAACCGTTCGGCGAAAGTTTCTCCGCCGT-- 57862201 Query 13837 GATATCCATTTTCTAGCCCATTCAGAtttttttttAATAAAATCCATTGTTTCGATTGCA 13896 |||||||| ||||||| || | |||||| | | | || || ||||| || Sbjct 57862200 -CGATCCATTTCATAGCCCACTCGGCTTTTTTAGCCACACACGGCACCGTCTCGATGGCG 57862142 Query 13897 TTGAATAAATGTTCCTTCTCTTTAGTACTTGAAATGTATGTATCAATAAGTAAGCTATAC 13956 ||| | | | | ||| || | | | | ||||| || || | ||| | || ||| Sbjct 57862141 CGGAAAAGACGGTTCTTTTCATCGGAATCTTTTATGTAAGTCTCGAGAAGGAGACTGTAC 57862082 Query 13957 ATTTCAGAGTGTATGTTTTCTATAGCTATCTGAAAACCATAAAAA 14001 || || ||||| || ||||| ||||| || || |||||||||||| Sbjct 57862081 ATCTCGGAGTGGATATTTTCGATAGCGATTTGGAAACCATAAAAA 57862037 >seq19 Length=70911690 Score = 102 bits (112), Expect = 8e-17 Identities = 121/164 (74%), Gaps = 0/164 (0%) Strand=Plus/Minus Query 13657 AAACACGCAAAATCACAATGAAGGCCCTCATCTCTACTAATAAGTTCGTTTGAAAATGTT 13716 || || ||||| || ||||| || || ||||||| | || | |||||||| || ||| Sbjct 44463880 AAGCAAGCAAAGTCGCAATGGAGACCTTCATCTCGAGAGATCAACTCGTTTGAGAAAGTT 44463821 Query 13717 AATCCTGGCATCAATCCTCGtttttttAACCAAAATATTGCAGCGAATGATCCGGAAAAG 13776 ||||| ||||| || || || ||||||||||||||||| ||| ||| ||||| || Sbjct 44463820 AATCCAGGCATTAACCCGCGCTTTTTTAACCAAAATATCGCACAGAAACTGCCGGAGAAA 44463761 Query 13777 AATATTCCCTCAACTGCAGCAAACGCTATTAGTCGTTCTCCAAA 13820 ||||| || || || ||| || || |||| ||||| |||| Sbjct 44463760 AATATGCCTTCTACGCAAGCGAAAGCGATTAACCGTTCGGCAAA 44463717 >seq228 Length=356584 Score = 98.7 bits (108), Expect = 1e-15 Identities = 120/164 (73%), Gaps = 0/164 (0%) Strand=Plus/Plus Query 13657 AAACACGCAAAATCACAATGAAGGCCCTCATCTCTACTAATAAGTTCGTTTGAAAATGTT 13716 || || ||||| || ||||| || || ||||||| | || | |||||||| || ||| Sbjct 282327 AAGCAAGCAAAGTCGCAATGGAGACCTTCATCTCGAGAGATCAACTCGTTTGAGAAAGTT 282386 Query 13717 AATCCTGGCATCAATCCTCGtttttttAACCAAAATATTGCAGCGAATGATCCGGAAAAG 13776 ||||| ||||| || || || ||||||||||||||||| || ||| ||||| || Sbjct 282387 AATCCAGGCATTAACCCGCGCTTTTTTAACCAAAATATCGCGCAGAAACTGCCGGAGAAA 282446 Query 13777 AATATTCCCTCAACTGCAGCAAACGCTATTAGTCGTTCTCCAAA 13820 ||||| || || || ||| || || |||| ||||| |||| Sbjct 282447 AATATGCCTTCTACGCAAGCGAAAGCGATTAACCGTTCGGCAAA 282490 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 478534073370720