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_029304.1 Length=111246 Score E Sequences producing significant alignments: (Bits) Value seq1 100 2e-16 seq168 96.9 2e-15 seq23 96.9 2e-15 seq19 96.9 2e-15 seq11 93.3 3e-14 seq27 87.8 1e-12 seq18 86.0 4e-12 seq25 84.2 2e-11 >seq1 Length=92291805 Score = 100 bits (110), Expect = 2e-16 Identities = 142/195 (73%), Gaps = 6/195 (3%) Strand=Plus/Minus Query 27790 ATGCAAATTTTTGTGAAAACTCTTACTGGGAAATGTATTACAATTGATGTCGAAAGCACC 27849 ||||| || ||||||||||| |||||||| ||| || || |||| || |||||| || Sbjct 4410027 ATGCAGATCTTTGTGAAAACCCTTACTGGTAAAACCATCACCCTTGAGGTGGAAAGCTCC 4409968 Query 27850 GA--CGATGTACAATCGGTCAAACAAAAAATAGCCGACAAAGAAGGTGTTCCGATGGAGC 27907 || | || | ||| ||||| ||||| ||||||||||| |||| || | Sbjct 4409967 GATACTATTGATAAT--GTCAAGGCCAAAATCCAAGACAAAGAAGGCATTCCTCCAGACC 4409910 Query 27908 AGCAACGGTTAATTTTTGCCGGAAAACAATTGGACGACGAACGCAG-CTTGTCCGATTAC 27966 | || || | |||||||||||||||||| | || || | || | |||| |||| ||| Sbjct 4409909 AACAGAGGCTTATTTTTGCCGGAAAACAACTCGAGGATGGCCGAACTCTTG-CCGACTAC 4409851 Query 27967 AACATCCAAAAAGAG 27981 ||||||||||| ||| Sbjct 4409850 AACATCCAAAAGGAG 4409836 Score = 86.0 bits (94), Expect = 4e-12 Identities = 157/224 (70%), Gaps = 16/224 (7%) Strand=Plus/Minus Query 27789 AATGCAAATTTTTGTGAAAACTCTTACTGGGAAATGTATTACAATTGATGTCGAAAGCAC 27848 |||||| ||||||||||||||| | ||||| ||| ||||||| | || || || ||| | Sbjct 4409344 AATGCAGATTTTTGTGAAAACTTTGACTGGAAAAACTATTACATTGGAGGTGGAGAGCTC 4409285 Query 27849 CGACGATGTACAATCGGTCAAAC---AAAA--AATAGCC--GACAAAGAAGGTGTTCCGA 27901 ||| ||||| | | ||| || | || | || ||||| || ||| | || Sbjct 4409284 AGAC-----ACAATTGAT--AACGTGAAGACCAAGATCCAAGACAAGGAGGGTATCCCAC 4409232 Query 27902 TGGAGCAGCAACGGTTAATTTTTGCCGGAAAACAATTGGACGA-CGAACGCAGCTTGTCC 27960 || ||||| |||| |||||||| ||||| ||| | || || | | | |||| | Sbjct 4409231 CTGACCAGCAGAGGTTGATTTTTGCTGGAAAGCAACTCGAGGATGGGAGGACTCTTG-CG 4409173 Query 27961 GATTACAACATCCAAAAAGAGAGCACTTTGCATTTGGTTTTGCG 28004 ||||| ||||||||||| ||| || |||| |||||| |||| Sbjct 4409172 GATTATAACATCCAAAAGGAGTCAACCCTGCACTTGGTTCTGCG 4409129 >seq168 Length=529997 Score = 96.9 bits (106), Expect = 2e-15 Identities = 160/229 (70%), Gaps = 4/229 (2%) Strand=Plus/Plus Query 27790 ATGCAAATTTTTGTGAAAACTCTTACTGGGAAATGTATTACAATTGATGTCGAAAGCACC 27849 |||||||| || |||||||| | ||||| || || || | || ||||| ||| || Sbjct 131147 ATGCAAATCTTCGTGAAAACCTTGACTGGCAAGACAATCACTCTCGAGGTCGAGAGCTCC 131206 Query 27850 GAC--GATGTACAATCGGTCAAACAAAAAATAGCCGACAAAGAAGGTGTTCCGATGGAGC 27907 ||| ||| |||| || ||| || || ||||| ||||| | || || | Sbjct 131207 GACACGATCGACAAC--GTTAAAGCGAAGATCCAAGACAAGGAAGGCATCCCCCCAGACC 131264 Query 27908 AGCAACGGTTAATTTTTGCCGGAAAACAATTGGACGACGAACGCAGCTTGTCCGATTACA 27967 ||||||| | || ||||||||||||||| | || |||| || | |||| |||| |||| Sbjct 131265 AGCAACGTCTCATCTTTGCCGGAAAACAACTCGAAGACGGCCGTACCTTGGCCGACTACA 131324 Query 27968 ACATCCAAAAAGAGAGCACTTTGCATTTGGTTTTGCGTTTGCGTGGCGG 28016 ||||||| || ||| ||| | || | || | |||||||| ||||| Sbjct 131325 ACATCCAGAAGGAGTCAACTCTCCACCTTGTCCTTCGTTTGCGCGGCGG 131373 >seq23 Length=61753794 Score = 96.9 bits (106), Expect = 2e-15 Identities = 139/194 (72%), Gaps = 4/194 (2%) Strand=Plus/Plus Query 27790 ATGCAAATTTTTGTGAAAACTCTTACTGGGAAATGTATTACAATTGATGTCGAAAGCACC 27849 |||||||| ||||| |||||||||||||| || || || |||| || |||||| || Sbjct 11030360 ATGCAAATATTTGTCAAAACTCTTACTGGCAAGACAATCACCCTTGAAGTGGAAAGCTCC 11030419 Query 27850 GACG--ATGTACAATCGGTCAAACAAAAAATAGCCGACAAAGAAGGTGTTCCGATGGAGC 27907 ||| || | ||| ||||| || || |||||||||||| | || || | Sbjct 11030420 GACACAATTGATAAT--GTCAAGGCCAAGATCCAAGACAAAGAAGGTATCCCTCCTGACC 11030477 Query 27908 AGCAACGGTTAATTTTTGCCGGAAAACAATTGGACGACGAACGCAGCTTGTCCGATTACA 27967 | || || | || ||||| |||||||||||||| || | |||| | | | || |||| Sbjct 11030478 AACAGAGGCTTATCTTTGCTGGAAAACAATTGGAGGATGGCCGCACCCTTGCTGACTACA 11030537 Query 27968 ACATCCAAAAAGAG 27981 ||||||| |||||| Sbjct 11030538 ACATCCAGAAAGAG 11030551 >seq19 Length=70911690 Score = 96.9 bits (106), Expect = 2e-15 Identities = 141/195 (72%), Gaps = 6/195 (3%) Strand=Plus/Minus Query 27790 ATGCAAATTTTTGTGAAAACTCTTACTGGGAAATGTATTACAATTGATGTCGAAAGCACC 27849 ||||| || ||||||||||| |||||||| || || || |||| || |||||| || Sbjct 3146840 ATGCAGATCTTTGTGAAAACCCTTACTGGTAAGACCATCACCCTTGAGGTAGAAAGCTCC 3146781 Query 27850 GA--CGATGTACAATCGGTCAAACAAAAAATAGCCGACAAAGAAGGTGTTCCGATGGAGC 27907 || | || | ||| ||||| ||||| ||||||||||| |||| || | Sbjct 3146780 GATACTATCGATAAT--GTCAAGGCCAAAATCCAAGACAAAGAAGGGATTCCTCCAGACC 3146723 Query 27908 AGCAACGGTTAATTTTTGCCGGAAAACAATTGGACGACGAACGCAG-CTTGTCCGATTAC 27966 | ||| || | || ||||||||||||||| | || || | || | |||| |||| ||| Sbjct 3146722 AACAAAGGCTTATCTTTGCCGGAAAACAACTTGAGGATGGCCGAACTCTTG-CCGACTAC 3146664 Query 27967 AACATCCAAAAAGAG 27981 ||||||||||| ||| Sbjct 3146663 AACATCCAAAAGGAG 3146649 Score = 87.8 bits (96), Expect = 1e-12 Identities = 139/195 (71%), Gaps = 6/195 (3%) Strand=Plus/Minus Query 27790 ATGCAAATTTTTGTGAAAACTCTTACTGGGAAATGTATTACAATTGATGTCGAAAGCACC 27849 ||||| || ||||| ||||| |||||||| || || || |||| || || ||| || Sbjct 3138406 ATGCAGATCTTTGTAAAAACCCTTACTGGTAAGACCATCACCCTTGAGGTGGAGAGCTCC 3138347 Query 27850 GA--CGATGTACAATCGGTCAAACAAAAAATAGCCGACAAAGAAGGTGTTCCGATGGAGC 27907 || | || | ||| ||||| ||||| ||||||||||| |||| || | Sbjct 3138346 GATACTATCGATAAT--GTCAAGGCCAAAATCCAAGACAAAGAAGGGATTCCTCCAGACC 3138289 Query 27908 AGCAACGGTTAATTTTTGCCGGAAAACAATTGGACGACGAACGCAG-CTTGTCCGATTAC 27966 | ||| || | || ||||||||||||||| | || || | || | |||| |||| ||| Sbjct 3138288 AACAAAGGCTTATCTTTGCCGGAAAACAACTTGAGGATGGCCGAACTCTTG-CCGACTAC 3138230 Query 27967 AACATCCAAAAAGAG 27981 ||||||||||| ||| Sbjct 3138229 AACATCCAAAAGGAG 3138215 Score = 87.8 bits (96), Expect = 1e-12 Identities = 154/222 (69%), Gaps = 12/222 (5%) Strand=Plus/Minus Query 27789 AATGCAAATTTTTGTGAAAACTCTTACTGGGAAATGTATTACAATTGATGTCGAAAGCAC 27848 |||||| ||||||||||||||| | ||||| ||| ||||||| | || || || ||| | Sbjct 3146157 AATGCAGATTTTTGTGAAAACTTTGACTGGAAAAACTATTACATTGGAGGTGGAGAGCTC 3146098 Query 27849 CGACGATGTACAATCG-----GTCAAACAAAAAATAGCCGACAAAGAAGGTGTTCCGATG 27903 || |||||| | || || || || ||||| || ||| | || Sbjct 3146097 AGA-----TACAATTGATAACGTGAAGGCCAAGATTCAGGACAAGGAGGGTATCCCACCT 3146043 Query 27904 GAGCAGCAACGGTTAATTTTTGCCGGAAAACAATTGGACGA-CGAACGCAGCTTGTCCGA 27962 || ||||| |||| |||||||| ||||| ||| | || || | | | ||||| | || Sbjct 3146042 GACCAGCAGAGGTTGATTTTTGCTGGAAAGCAACTCGAGGATGGGAGGACGCTTG-CGGA 3145984 Query 27963 TTACAACATCCAAAAAGAGAGCACTTTGCATTTGGTTTTGCG 28004 ||| ||||||||||| ||| || |||| |||||| |||| Sbjct 3145983 TTATAACATCCAAAAGGAGTCAACCCTGCACTTGGTTCTGCG 3145942 Score = 82.4 bits (90), Expect = 5e-11 Identities = 138/195 (71%), Gaps = 6/195 (3%) Strand=Plus/Minus Query 27790 ATGCAAATTTTTGTGAAAACTCTTACTGGGAAATGTATTACAATTGATGTCGAAAGCACC 27849 ||||| || ||||| ||||| |||||||| || || || |||| || ||||| | Sbjct 3138862 ATGCAGATCTTTGTAAAAACCCTTACTGGTAAGACCATCACCCTTGAGGTAGAAAGTTCT 3138803 Query 27850 GA--CGATGTACAATCGGTCAAACAAAAAATAGCCGACAAAGAAGGTGTTCCGATGGAGC 27907 || | || | ||| ||||| ||||| ||||||||||| | || || | Sbjct 3138802 GATACTATCGATAAT--GTCAAGGCTAAAATCCAAGACAAAGAAGGGATCCCTCCTGACC 3138745 Query 27908 AGCAACGGTTAATTTTTGCCGGAAAACAATTGGACGACGAACGCAG-CTTGTCCGATTAC 27966 ||||| || | || ||||||||||||||| | || || | || | |||| |||| ||| Sbjct 3138744 AGCAAAGGCTTATCTTTGCCGGAAAACAACTTGAGGATGGCCGAACTCTTG-CCGACTAC 3138686 Query 27967 AACATCCAAAAAGAG 27981 ||||||||||| ||| Sbjct 3138685 AACATCCAAAAGGAG 3138671 Score = 82.4 bits (90), Expect = 5e-11 Identities = 138/195 (71%), Gaps = 6/195 (3%) Strand=Plus/Minus Query 27790 ATGCAAATTTTTGTGAAAACTCTTACTGGGAAATGTATTACAATTGATGTCGAAAGCACC 27849 ||||| || ||||||||||| |||||||| || || || |||| || ||||| | Sbjct 3139318 ATGCAGATCTTTGTGAAAACCCTTACTGGTAAGACCATCACCCTTGAGGTAGAAAGTTCT 3139259 Query 27850 GA--CGATGTACAATCGGTCAAACAAAAAATAGCCGACAAAGAAGGTGTTCCGATGGAGC 27907 || | || | ||| ||||| ||||| ||||||||||| | || || | Sbjct 3139258 GATACTATCGATAAT--GTCAAGGCTAAAATCCAAGACAAAGAAGGGATCCCTCCTGACC 3139201 Query 27908 AGCAACGGTTAATTTTTGCCGGAAAACAATTGGACGACGAACGCA-GCTTGTCCGATTAC 27966 ||||| || | || ||||||||||||||| | || || | || | |||| |||| ||| Sbjct 3139200 AGCAAAGGCTTATCTTTGCCGGAAAACAACTCGAGGATGGCCGAACTCTTG-CCGACTAC 3139142 Query 27967 AACATCCAAAAAGAG 27981 || |||||||| ||| Sbjct 3139141 AATATCCAAAAGGAG 3139127 Score = 82.4 bits (90), Expect = 5e-11 Identities = 159/230 (69%), Gaps = 6/230 (3%) Strand=Plus/Minus Query 27790 ATGCAAATTTTTGTGAAAACTCTTACTGGGAAATGTATTACAATTGATGTCGAAAGCACC 27849 ||||| || ||||| ||||| |||||||| || || || |||| || || ||| || Sbjct 3146384 ATGCAGATCTTTGTAAAAACCCTTACTGGTAAGACCATCACCCTTGAGGTGGAGAGCTCC 3146325 Query 27850 GA--CGATGTACAATCGGTCAAACAAAAAATAGCCGACAAAGAAGGTGTTCCGATGGAGC 27907 || | || | ||| ||||| || || ||||| ||||| |||| || | Sbjct 3146324 GATACTATCGATAAT--GTCAAGGCCAAGATCCAAGACAAGGAAGGGATTCCACCAGATC 3146267 Query 27908 AGCAACGGTTAATTTTTGCCGGAAAACAATTGGACGACGAACGCAG-CTTGTCCGATTAC 27966 |||| |||| |||||||||||||| || | || || | | | |||| | ||||| Sbjct 3146266 AGCAGAGGTTGATTTTTGCCGGAAAGCAGCTCGAGGATGGGAGGACACTTG-CGGATTAT 3146208 Query 27967 AACATCCAAAAAGAGAGCACTTTGCATTTGGTTTTGCGTTTGCGTGGCGG 28016 ||||||||||| ||| || |||| ||||| |||| ||||||| || Sbjct 3146207 AACATCCAAAAGGAGTCAACCCTGCACTTGGTGCTGCGACTGCGTGGTGG 3146158 >seq11 Length=95484752 Score = 93.3 bits (102), Expect = 3e-14 Identities = 159/229 (69%), Gaps = 4/229 (2%) Strand=Plus/Plus Query 27790 ATGCAAATTTTTGTGAAAACTCTTACTGGGAAATGTATTACAATTGATGTCGAAAGCACC 27849 ||||| || || || ||||| || || || || || || | || ||||||||| | Sbjct 29434661 ATGCAGATCTTCGTCAAAACCCTGACCGGCAAGACCATAACTTTGGAAGTCGAAAGCTCT 29434720 Query 27850 GACG--ATGTACAATCGGTCAAACAAAAAATAGCCGACAAAGAAGGTGTTCCGATGGAGC 27907 ||| || |||| ||||| ||| || ||||| ||||| | || || | Sbjct 29434721 GACACCATTGACAAC--GTCAAGGCAAAGATCCAAGACAAGGAAGGCATCCCACCAGACC 29434778 Query 27908 AGCAACGGTTAATTTTTGCCGGAAAACAATTGGACGACGAACGCAGCTTGTCCGATTACA 27967 ||||| || | || |||||||| |||||| | || |||| |||| |||| ||||||||| Sbjct 29434779 AGCAAAGGCTCATATTTGCCGGGAAACAACTCGAGGACGGTCGCACCTTGGCCGATTACA 29434838 Query 27968 ACATCCAAAAAGAGAGCACTTTGCATTTGGTTTTGCGTTTGCGTGGCGG 28016 ||||||| || ||| || | |||||||| ||| | | ||||| || Sbjct 29434839 ACATCCAGAAGGAGTCGACCCTCCATTTGGTATTGAGGCTTCGTGGTGG 29434887 >seq27 Length=3408634 Score = 87.8 bits (96), Expect = 1e-12 Identities = 158/229 (69%), Gaps = 4/229 (2%) Strand=Plus/Plus Query 27790 ATGCAAATTTTTGTGAAAACTCTTACTGGGAAATGTATTACAATTGATGTCGAAAGCACC 27849 |||||||| || |||||||| | || || || || || | || ||||| ||| || Sbjct 2140069 ATGCAAATCTTCGTGAAAACCTTGACCGGCAAGACAATCACTCTCGAGGTCGAGAGCTCC 2140128 Query 27850 GAC--GATGTACAATCGGTCAAACAAAAAATAGCCGACAAAGAAGGTGTTCCGATGGAGC 27907 ||| ||| |||| || || || || ||||| ||||| | || || | Sbjct 2140129 GACACGATCGACAAC--GTTAAGGCGAAGATCCAAGACAAGGAAGGCATCCCCCCAGACC 2140186 Query 27908 AGCAACGGTTAATTTTTGCCGGAAAACAATTGGACGACGAACGCAGCTTGTCCGATTACA 27967 ||||||| | || || |||||||||||| | || |||| || | |||| |||| |||| Sbjct 2140187 AGCAACGTCTCATCTTCGCCGGAAAACAACTTGAAGACGGCCGTACCTTGGCCGACTACA 2140246 Query 27968 ACATCCAAAAAGAGAGCACTTTGCATTTGGTTTTGCGTTTGCGTGGCGG 28016 ||||||| || ||| || | ||| | || | |||||||||||||| Sbjct 2140247 ACATCCAGAAGGAGTCAACGCTCCATCTTGTCCTTCGTTTGCGTGGCGG 2140295 >seq18 Length=57801308 Score = 86.0 bits (94), Expect = 4e-12 Identities = 160/233 (69%), Gaps = 4/233 (2%) Strand=Plus/Plus Query 27786 TAAAATGCAAATTTTTGTGAAAACTCTTACTGGGAAATGTATTACAATTGATGTCGAAAG 27845 ||| ||||| || || || || || || || || || || || | || |||||||| Sbjct 49488683 TAAGATGCAGATCTTCGTTAAGACCCTGACCGGCAAGACCATAACTTTGGAAGTCGAAAG 49488742 Query 27846 CACCGACG--ATGTACAATCGGTCAAACAAAAAATAGCCGACAAAGAAGGTGTTCCGATG 27903 | | ||| || |||| ||||| || || ||||| ||||| | || Sbjct 49488743 CTCTGACACCATTGACAAC--GTCAAGGCCAAGATCCAAGACAAGGAAGGCATCCCACCA 49488800 Query 27904 GAGCAGCAACGGTTAATTTTTGCCGGAAAACAATTGGACGACGAACGCAGCTTGTCCGAT 27963 || |||||| || | || |||||||| |||||| | || |||| |||| |||| ||||| Sbjct 49488801 GACCAGCAAAGGCTCATCTTTGCCGGGAAACAACTCGAGGACGGTCGCACCTTGGCCGAT 49488860 Query 27964 TACAACATCCAAAAAGAGAGCACTTTGCATTTGGTTTTGCGTTTGCGTGGCGG 28016 ||||||||||| || ||| || | |||||||| ||| | | ||||| || Sbjct 49488861 TACAACATCCAGAAGGAGTCGACCCTCCATTTGGTATTGAGGCTTCGTGGTGG 49488913 >seq25 Length=50193149 Score = 84.2 bits (92), Expect = 2e-11 Identities = 149/213 (70%), Gaps = 6/213 (3%) Strand=Plus/Plus Query 27790 ATGCAAATTTTTGTGAAAACTCTTACTGGGAAATGTATTACAATTGATGTCGAAAGCACC 27849 |||||||| ||||| |||||||| ||||| || ||||| | || ||||| || | Sbjct 28160263 ATGCAAATCTTTGTCAAAACTCTCACTGGAAAGACAATTACCTTGGAGGTCGAGAGTTCG 28160322 Query 27850 GA--CGATGTACAATCGGTCAAACAAAAAATAGCCGACAAAGAAGGTGTTCCGATGGAGC 27907 || | || ||||| || ||| || || ||||||||||| | || || | Sbjct 28160323 GATACCATTGACAAT--GTGAAAGCCAAGATTCAGGACAAAGAAGGAATCCCACCAGACC 28160380 Query 27908 AGCAACGGTTAATTTTTGCCGGAAAACAATTGGACGACGAACGCA-GCTTGTCCGATTAC 27966 | ||| | || |||||||| ||||||||| | || || | | | | |||| ||||||| Sbjct 28160381 AACAAAGATTGATTTTTGCTGGAAAACAACTTGAAGATGGAAGAACTCTTG-CCGATTAT 28160439 Query 27967 AACATCCAAAAAGAGAGCACTTTGCATTTGGTT 27999 || ||||| || ||| ||| | ||||||||| Sbjct 28160440 AATATCCAGAAGGAGTCTACTCTCCATTTGGTT 28160472 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 355822724456196