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_004105.1
Length=209771
Score E
Sequences producing significant alignments: (Bits) Value
seq22 163 4e-35
seq19 136 5e-27
seq16 125 1e-23
seq228 93.3 6e-14
seq4 93.3 6e-14
seq25 91.5 2e-13
seq2 91.5 2e-13
seq7 87.8 2e-12
>seq22
Length=61129363
Score = 163 bits (180), Expect = 4e-35
Identities = 391/587 (67%), Gaps = 6/587 (1%)
Strand=Plus/Plus
Query 42057 ACATCAAACATGCGAAATCGCAGTGCAGACCCTCATCTCTACTAATTAATTCGTTGGAAA 42116
||| ||| || |||||||||||||| ||||| ||||||| ||||| ||||| || |
Sbjct 6287571 ACAGCAAGCAAGCGAAATCGCAGTGGAGACCTTCATCTCGTGAGATTAACTCGTTTGAGA 6287630
Query 42117 ACGTGAGTCCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATAGACGCA-AATGATCCA 42175
| || | ||||||||||| || | |||||| | ||||||||| | | || || |||
Sbjct 6287631 AAGTTAATCCGGGCATTAACCCCCTCTTTTTTAACCAAAATAT-GGCACAGAAACTTCCG 6287689
Query 42176 GAAAAGAAGATTCCTTCTACTGCCGCAAAGGCAATAAGTCTCTCTCCATAACCGGCACTG 42235
|| || ||||| |||||||| ||||| || || | | || | || | | |
Sbjct 6287690 GAGAAAAAGATCCCTTCTACGCAAGCAAAAGCGATTAACCGTTCGGCGAAAGTTTCTCCG 6287749
Query 42236 TCATGTATCCACTTTTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATCGTTTCTATG 42295
| | ||||| || |||||| ||||| || || ||||| |||| ||| || |||
Sbjct 6287750 CCGTCGATCCATTTCATAGCCCACTCGGCTTTTTTAGCCACACACGGCACCGTCTCGATG 6287809
Query 42296 GCATTAAAGAGATAGtttttttCATTACTATCTTTAACATATGTATCGATCAAAAGACTA 42355
|| || ||| ||| ||||||| |||||| | || || |||| | |||||
Sbjct 6287810 GCGCGGAAAAGACGGTTCTTTTCATCGGAATCTTTTATGTAAGTCTCGAGAAGGAGACTG 6287869
Query 42356 TACATTTCTGAATGAATGTTTTCAATGGCCATCTGAAATCCGTAGAAACATCTGGCCTCG 42415
||||| || || || || ||||| || || || || || || || ||| | ||||||
Sbjct 6287870 TACATCTCGGAGTGGATATTTTCGATAGCGATTTGGAAACCATAAAAAGCACGCGCCTCG 6287929
Query 42416 GTAACCTGTACTTCTGTACAAAATCGTTCAGCTAAATTTTCGTTCACTATTCCGTCACTG 42475
| | ||| || ||| | || || |||| | || || ||||| || || |
Sbjct 6287930 GAGATCTGGACCTCTTTCATGAACCGAACAGCAAGGTTCTCAAGGACTATGCCATCGGAG 6287989
Query 42476 GCTGCAAAAAACGCCAATACATGTTTTATAAAATATTTTTCGTC--CGGTGTTAATTTAT 42533
|| || ||||| || | || || | || || | | || || ||||| | || |
Sbjct 6287990 GCGGCGAAAAAGGCGAGAACGTGACTAATGAAGTGATGCTCATCGGCGGTGAGAGTT--T 6288047
Query 42534 TCCAATCATTGATATCTTTAGATATATCTACTTCTTCTACCGTCCAAAATGATGCTTCTG 42593
||| | | | |||| ||| | ||| ||||| ||| | |||||||| || ||||| |
Sbjct 6288048 CCCAGTGACGAAGATCTGAAGACAGATCGACTTCCTCTGCGGTCCAAAACGACGCTTCGG 6288107
Query 42594 CCTTTTTATACATATTCCAGATATCATGATATTGAATTGGGAAAATA 42640
| || || ||||| | ||| | || | ||||| || || || |||
Sbjct 6288108 CTTTCTTGTACATTTCCCATACTTCTGGGTATTGGATCGGAAACATA 6288154
>seq19
Length=70911690
Score = 136 bits (150), Expect = 5e-27
Identities = 241/348 (69%), Gaps = 4/348 (1%)
Strand=Plus/Minus
Query 42057 ACATCAAACATGCGAAATCGCAGTGCAGACCCTCATCTCTACTAATTAATTCGTTGGAAA 42116
||| ||| || || || ||||| || ||||| ||||||| | || || ||||| || |
Sbjct 44463885 ACAGCAAGCAAGCAAAGTCGCAATGGAGACCTTCATCTCGAGAGATCAACTCGTTTGAGA 44463826
Query 42117 ACGTGAGTCCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATAG-ACGCAAA-TGATCC 42174
| || | ||| ||||||| || |||||||| | ||||||||| | || ||| || ||
Sbjct 44463825 AAGTTAATCCAGGCATTAACCCGCGCTTTTTTAACCAAAATATCGCACAGAAACTG--CC 44463768
Query 42175 AGAAAAGAAGATTCCTTCTACTGCCGCAAAGGCAATAAGTCTCTCTCCATAACCGGCACT 42234
|| || || || |||||||| || || || || | | || || || | | |
Sbjct 44463767 GGAGAAAAATATGCCTTCTACGCAAGCGAAAGCGATTAACCGTTCGGCAAAAGCTTCGCC 44463708
Query 42235 GTCATGTATCCACTTTTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATCGTTTCTAT 42294
| | | ||||| || |||||||||||| || || || || |||| |||||| |
Sbjct 44463707 GCCGTCGATCCATTTCAAAGCCCAATCGGCTTTTTTAGCCACGCACGGCACCGTTTCAGT 44463648
Query 42295 GGCATTAAAGAGATAGtttttttCATTACTATCTTTAACATATGTATCGATCAAAAGACT 42354
|| | ||||| ||||||||| | |||||||| ||| || |||| | |||||
Sbjct 44463647 AGCGTGGAAGAGGCGGTTTTTTTCGGTGGAATCTTTAATATAAGTTTCGAGGAGGAGACT 44463588
Query 42355 ATACATTTCTGAATGAATGTTTTCAATGGCCATCTGAAATCCGTAGAA 42402
|||||| || || || || || || ||||| || || ||||| || ||
Sbjct 44463587 ATACATCTCAGAGTGGATATTCTCGATGGCGATTTGGAATCCATAAAA 44463540
>seq16
Length=102030775
Score = 125 bits (138), Expect = 1e-23
Identities = 238/348 (68%), Gaps = 2/348 (1%)
Strand=Plus/Minus
Query 42057 ACATCAAACATGCGAAATCGCAGTGCAGACCCTCATCTCTACTAATTAATTCGTTGGAAA 42116
||| ||| || |||||||| ||||| ||||| ||||||| ||||| ||||| || |
Sbjct 57862383 ACAGCAAGCAAGCGAAATCACAGTGGAGACCTTCATCTCGTGAGATTAACTCGTTTGAGA 57862324
Query 42117 ACGTGAGTCCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATAGACGCA-AATGATCCA 42175
| || | ||||||||||| || | |||||| | ||||||||| | | || || |||
Sbjct 57862323 AAGTTAATCCGGGCATTAACCCCCTCTTTTTTAACCAAAATAT-GGCACAGAAACTTCCG 57862265
Query 42176 GAAAAGAAGATTCCTTCTACTGCCGCAAAGGCAATAAGTCTCTCTCCATAACCGGCACTG 42235
|| || ||||| || ||||| ||||| || || | | || | || | | |
Sbjct 57862264 GAGAAAAAGATCCCCTCTACGCAAGCAAAAGCGATTAACCGTTCGGCGAAAGTTTCTCCG 57862205
Query 42236 TCATGTATCCACTTTTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATCGTTTCTATG 42295
| | ||||| || |||||| ||||| || || ||||| |||| ||| || |||
Sbjct 57862204 CCGTCGATCCATTTCATAGCCCACTCGGCTTTTTTAGCCACACACGGCACCGTCTCGATG 57862145
Query 42296 GCATTAAAGAGATAGtttttttCATTACTATCTTTAACATATGTATCGATCAAAAGACTA 42355
|| || ||| ||| ||||||| |||||| | || || |||| | |||||
Sbjct 57862144 GCGCGGAAAAGACGGTTCTTTTCATCGGAATCTTTTATGTAAGTCTCGAGAAGGAGACTG 57862085
Query 42356 TACATTTCTGAATGAATGTTTTCAATGGCCATCTGAAATCCGTAGAAA 42403
||||| || || || || ||||| || || || || || || || |||
Sbjct 57862084 TACATCTCGGAGTGGATATTTTCGATAGCGATTTGGAAACCATAAAAA 57862037
>seq228
Length=356584
Score = 93.3 bits (102), Expect = 6e-14
Identities = 193/285 (68%), Gaps = 2/285 (1%)
Strand=Plus/Plus
Query 42061 CAAACATGCGAAATCGCAGTGCAGACCCTCATCTCTACTAATTAATTCGTTGGAAAACGT 42120
||| || || || ||||| || ||||| ||||||| | || || ||||| || || ||
Sbjct 282326 CAAGCAAGCAAAGTCGCAATGGAGACCTTCATCTCGAGAGATCAACTCGTTTGAGAAAGT 282385
Query 42121 GAGTCCGGGCATTAGGCCACGCTTTTTAAGCCAAAATATAGACGCAAATGAT-CCAGAAA 42179
| ||| ||||||| || |||||||| | ||||||||| | |||| | | || || |
Sbjct 282386 TAATCCAGGCATTAACCCGCGCTTTTTTAACCAAAATATCG-CGCAGAAACTGCCGGAGA 282444
Query 42180 AGAAGATTCCTTCTACTGCCGCAAAGGCAATAAGTCTCTCTCCATAACCGGCACTGTCAT 42239
| || || |||||||| || || || || | | || || || | | | | | |
Sbjct 282445 AAAATATGCCTTCTACGCAAGCGAAAGCGATTAACCGTTCGGCAAAAGCTTCGCGGCCGT 282504
Query 42240 GTATCCACTTTTGAGCCCAATCGGCCTTCTTTTTTACACAAGGCATCGTTTCTATGGCAT 42299
||||| || |||||||||||| || || || || |||| |||||| | || |
Sbjct 282505 CGATCCATTTGAAAGCCCAATCGGCTTTTTTAGCCACGCACGGCACCGTTTCAGTAGCGT 282564
Query 42300 TAAAGAGATAGtttttttCATTACTATCTTTAACATATGTATCGA 42344
||||| ||||||||| | |||||| | | | || ||||
Sbjct 282565 GGAAGAGGCGGTTTTTTTCGGTGGAATCTTTGATAGAAGTTTCGA 282609
>seq4
Length=78750349
Score = 93.3 bits (102), Expect = 6e-14
Identities = 153/221 (69%), Gaps = 0/221 (0%)
Strand=Plus/Minus
Query 72178 CCTCCCTGATCTATGTATCTAGCGGTGTTATTATAAACTCTCAACATTGGAATAATACCA 72237
||||| ||||| | || | ||| |||| ||| | || | || |||||| | ||| |||
Sbjct 13233814 CCTCCTTGATCAACATAACGAGCAGTGTCATTGAACACCCGCAGCATTGGGACAATGCCA 13233755
Query 72238 TTGGATGCACCATTGGTCCCGGAGATATAGCTTCCACTGGCACGAATATTGCTAATTGAT 72297
|| |||| |||||| || || || || || | | || ||||||||| || |||
Sbjct 13233754 TTAGATGTACCATTTGTTCCACGAATGTAACTACTTGTAGCCCGAATATTGTGAACTGAG 13233695
Query 72298 AGACCTATTCCCCCTGCCATTTTAGAGATTAATGCGCATCGTTTTAACGTATCATAGATG 72357
| ||| ||||| || || ||| ||||| || || || || || ||||| ||
Sbjct 13233694 ACACCAATTCCTCCAGCTGATTTGCTGATTATAGCACACTCCTTCAAAGTGTCATATATT 13233635
Query 72358 CCCTCTATACTATCATCCATCATGTTAAGTAGAAAACAGCT 72398
||||| ||||||||||| |||| |||| ||| |||||
Sbjct 13233634 CCCTCGATACTATCATCTTTCATACACAGTAAAAAGCAGCT 13233594
Score = 87.8 bits (96), Expect = 2e-12
Identities = 156/228 (68%), Gaps = 0/228 (0%)
Strand=Plus/Minus
Query 72417 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGACAGTAGATT 72476
|||||| ||||| || | || |||||||| || ||||||||| ||| ||||| | |
Sbjct 13233471 AGTTCCAGCATTGAAAAGTGTGGGAGAAGCATGAGTAAACCATCTTTGAGACATCATGTG 13233412
Query 72477 GTACGTCTCAATAGCTGATTCTATATCCCATTGATGTATTCCTACCGCGACACGCATTAA 72536
|| || | ||||| || || || || | ||| ||||| || || || | ||| ||
Sbjct 13233411 ATAAGTTTTTATAGCAGAATCAATGTCATTCTTATGAATTCCAACTGCAACCCTCATCAA 13233352
Query 72537 CATATGCTGAGGTCTTTCAACGATCTTGTTATTTATTTTCAACAAGTAGGATTTTTCCAA 72596
||| || || || ||||| | | ||| | | ||| || | |||||| | || |
Sbjct 13233351 CATGTGTTGGGGCCTTTCTATAACCTTCCCTTGAACTTTTAAGAGGTAGGACCTCTCAAG 13233292
Query 72597 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 72644
||||| ||||||||||| | || |||||| || || || || ||
Sbjct 13233291 GGTTTTGAAACCAAAATAATCATAGTCAAAGTCCCGATCATATATGAT 13233244
Score = 84.2 bits (92), Expect = 3e-11
Identities = 115/158 (73%), Gaps = 2/158 (1%)
Strand=Plus/Minus
Query 71164 ACTCTACGAGTGTAAATATTACTGGTATACGGTTCCACTGACTCATTATTTCCCAAAATT 71223
||||||||| | || ||||| ||||| ||||| | ||||||||||||| | |||
Sbjct 13235774 ACTCTACGACTATAGATATTGGAAGTATATGGTTCAAAGCACTCATTATTTCCAAGAATC 13235715
Query 71224 TGAGCAGTTGATGCAGTCGGCATAGGTGCCACCAATAGACTATTTCTAAGACCATG-TGA 71282
|| |||||||||||| ||||||||||| | ||| || |||||| | ||||| | |
Sbjct 13235714 TGGCTAGTTGATGCAGTTGGCATAGGTGCTAACAAAAGTGAATTTCTCACTCCATGCTTA 13235655
Query 71283 TCGGATTTTATCTTTTAGAGATTCCCAATTCCAAAGAT 71320
| || || ||| | |||| | ||| | ||| ||||
Sbjct 13235654 GC-TATGTTGTCTCTAAGAGCATTCCAGTCCCACAGAT 13235618
>seq25
Length=50193149
Score = 91.5 bits (100), Expect = 2e-13
Identities = 143/205 (70%), Gaps = 0/205 (0%)
Strand=Plus/Minus
Query 72177 TCCTCCCTGATCTATGTATCTAGCGGTGTTATTATAAACTCTCAACATTGGAATAATACC 72236
|||||| ||||| | |||| ||| || | ||| | || | || |||||| | ||| ||
Sbjct 26656093 TCCTCCTTGATCAACATATCGAGCAGTATCATTGAACACCCGCAGCATTGGGACAATTCC 26656034
Query 72237 ATTGGATGCACCATTGGTCCCGGAGATATAGCTTCCACTGGCACGAATATTGCTAATTGA 72296
||| |||| |||||| || || ||||| || || |||| ||||||||| || ||
Sbjct 26656033 ATTAGATGTACCATTTGTTCCACGAATATAACTACCTGTGGCTCGAATATTGTGAACAGA 26655974
Query 72297 TAGACCTATTCCCCCTGCCATTTTAGAGATTAATGCGCATCGTTTTAACGTATCATAGAT 72356
| ||| ||||| || || ||| ||| | || || || || || ||||| ||
Sbjct 26655973 AACACCAATTCCTCCAGCTGATTTGCTGATAACAGCACACTCCTTCAAAGTTTCATAAAT 26655914
Query 72357 GCCCTCTATACTATCATCCATCATG 72381
|| || ||||||||||| |||||
Sbjct 26655913 TCCTTCAATACTATCATCTTTCATG 26655889
Score = 84.2 bits (92), Expect = 3e-11
Identities = 90/119 (76%), Gaps = 0/119 (0%)
Strand=Plus/Minus
Query 71160 CAATACTCTACGAGTGTAAATATTACTGGTATACGGTTCCACTGACTCATTATTTCCCAA 71219
||| ||||||||| | |||||||| |||||| || || | | |||||||| || |
Sbjct 26658072 CAAAACTCTACGACTATAAATATTGGAGGTATATGGCTCAAAGCATTCATTATTCCCAAG 26658013
Query 71220 AATTTGAGCAGTTGATGCAGTCGGCATAGGTGCCACCAATAGACTATTTCTAAGACCAT 71278
||| ||| |||||| ||||| ||||||||||| | |||||| |||||| | ||||
Sbjct 26658012 AATCTGACTAGTTGAAGCAGTTGGCATAGGTGCTAACAATAGTGAATTTCTCACTCCAT 26657954
>seq2
Length=106994729
Score = 91.5 bits (100), Expect = 2e-13
Identities = 143/205 (70%), Gaps = 0/205 (0%)
Strand=Plus/Minus
Query 72177 TCCTCCCTGATCTATGTATCTAGCGGTGTTATTATAAACTCTCAACATTGGAATAATACC 72236
|||||| ||||| | |||| ||| || | ||| | || | || |||||| | ||| ||
Sbjct 29496030 TCCTCCTTGATCAACATATCGAGCAGTATCATTGAACACCCGCAGCATTGGGACAATTCC 29495971
Query 72237 ATTGGATGCACCATTGGTCCCGGAGATATAGCTTCCACTGGCACGAATATTGCTAATTGA 72296
||| |||| |||||| || || ||||| || || |||| ||||||||| || ||
Sbjct 29495970 ATTAGATGTACCATTTGTTCCACGAATATAACTACCTGTGGCTCGAATATTGTGAACAGA 29495911
Query 72297 TAGACCTATTCCCCCTGCCATTTTAGAGATTAATGCGCATCGTTTTAACGTATCATAGAT 72356
| ||| ||||| || || ||| ||| | || || || || || ||||| ||
Sbjct 29495910 AACACCAATTCCTCCAGCTGATTTGCTGATAACAGCACACTCCTTCAAAGTTTCATATAT 29495851
Query 72357 GCCCTCTATACTATCATCCATCATG 72381
|| || ||||||||||| |||||
Sbjct 29495850 TCCTTCAATACTATCATCTTTCATG 29495826
>seq7
Length=42802127
Score = 87.8 bits (96), Expect = 2e-12
Identities = 156/228 (68%), Gaps = 0/228 (0%)
Strand=Plus/Minus
Query 72417 AGTTCCCGCATTAAATAAGGTAGGAGAAGCGTGCGTAAACCATTTTTCAGACAGTAGATT 72476
|||||| ||||| || | || |||||||| || ||||||||| ||| ||||| | |
Sbjct 28741192 AGTTCCAGCATTGAAAAGTGTGGGAGAAGCATGAGTAAACCATCTTTGAGACATCATGTG 28741133
Query 72477 GTACGTCTCAATAGCTGATTCTATATCCCATTGATGTATTCCTACCGCGACACGCATTAA 72536
|| || | ||||| || || || || | ||| ||||| || || || | ||| ||
Sbjct 28741132 ATAAGTTTTTATAGCAGAATCAATGTCATTCTTATGAATTCCAACTGCAACCCTCATCAA 28741073
Query 72537 CATATGCTGAGGTCTTTCAACGATCTTGTTATTTATTTTCAACAAGTAGGATTTTTCCAA 72596
||| || || || ||||| | | ||| | | ||| || | |||||| | || |
Sbjct 28741072 CATGTGTTGGGGCCTTTCTATAACCTTCCCTTGAACTTTTAAGAGGTAGGACCTCTCAAG 28741013
Query 72597 AGTTTTAAAACCAAAATAGTTGTATGAAAAGTCTCGTTCGTAAATAAT 72644
||||| ||||||||||| | || |||||| || || || || ||
Sbjct 28741012 GGTTTTGAAACCAAAATAATCATAGTCAAAGTCCCGATCATATATGAT 28740965
Score = 84.2 bits (92), Expect = 3e-11
Identities = 88/116 (76%), Gaps = 0/116 (0%)
Strand=Plus/Minus
Query 71164 ACTCTACGAGTGTAAATATTACTGGTATACGGTTCCACTGACTCATTATTTCCCAAAATT 71223
||||||||| | || ||||| ||||| ||||| | ||||||||||||| | |||
Sbjct 28743500 ACTCTACGACTATAGATATTGGATGTATATGGTTCAAAGCACTCATTATTTCCAAGAATC 28743441
Query 71224 TGAGCAGTTGATGCAGTCGGCATAGGTGCCACCAATAGACTATTTCTAAGACCATG 71279
|| |||||||||||| ||||||||||| | ||| || |||||| | |||||
Sbjct 28743440 TGGCTAGTTGATGCAGTTGGCATAGGTGCTAACAAAAGTGAATTTCTCACTCCATG 28743385
Lambda K H
0.634 0.408 0.912
Gapped
Lambda K H
0.625 0.410 0.780
Effective search space used: 671062455232480
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