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_20raimondii_20[refseq_20GCF_5F000327365.1_202012-12-20] 1,034 sequences; 761,565,430 total letters Query= NC_008518.1 Length=174059 Score E Sequences producing significant alignments: (Bits) Value seq1 241 1e-58 seq11 196 5e-45 seq10 93.3 5e-14 seq12 91.5 2e-13 seq8 89.7 6e-13 seq2 89.7 6e-13 seq7 87.8 2e-12 seq4 86.0 7e-12 seq5 82.4 9e-11 seq3 82.4 9e-11 >seq1 Length=55868233 Score = 241 bits (266), Expect = 1e-58 Identities = 430/627 (69%), Gaps = 7/627 (1%) Strand=Plus/Minus Query 93082 GTACATTAAGCACGCAAAGTCGGTATGTAAACCTTCGTCTCGTGATATCAACTCATTGCT 93141 ||||| ||||| ||||||||| ||| | |||||| ||||| || ||||||| || Sbjct 54862755 GTACAGCAAGCAAGCAAAGTCGCAATGGAGACCTTCATCTCGAGAGATCAACTTGTTTGA 54862696 Query 93142 GAATGTTAAACCTGGTAACAGTCCTCGTTTCTTGAGCCAAAATATTGAAGCAAAACTACC 93201 ||| ||| | || || | | || || || || | ||||||||| | | ||||| || Sbjct 54862695 GAAAGTTTATCCAGGCATTAACCCGCGCTTTTTTAACCAAAATATCGCACAGAAACTGCC 54862636 Query 93202 AGaaaaaaaTATACCTTCCACGGCTGCAAATGCCACAATACGTTCGGCAAAA--TTTGCG 93259 || |||||||| ||||| ||| || || || | | |||||||||||| || || Sbjct 54862635 GGAGAAAAATATGCCTTCTACGCAAGCGAAAGCGATTAACCGTTCGGCAAAAGCTTCGCC 54862576 Query 93260 GAATTACTGCTGATCCATTTTAAAGCCCAATCGGCTTTTTTCTTAATACAAGGTAGTGTT 93319 | | | ||||||||| |||||||||||||||||||| | || || | ||| Sbjct 54862575 G-----CCGTCGATCCATTTCAAAGCCCAATCGGCTTTTTTAGCCACGCACGGCACCGTT 54862521 Query 93320 TCGATAGCGTTAAATAGGTAATCTCGCTCGTCCGAATCTCGTATGTATGTATCGATTAAC 93379 || |||||| || ||| | ||| |||||| || || || |||| | Sbjct 54862520 TCAGTAGCGTGGAAGAGGCGGTTCTTTTCGGTGGAATCTTTAATATAAGTTTCGAGGAGG 54862461 Query 93380 AGAGAATACATTTCAGAATGGACATTCTCCATTGCAATTTGGAATCCGTAGAAACATCTA 93439 ||| |||||| ||||| |||| |||||| || || ||||||||||| || || | Sbjct 54862460 AGACTATACATCTCAGAGTGGATATTCTCGATGGCGATTTGGAATCCATAAAATGCACGC 54862401 Query 93440 GCTTCCGTGATCTGCACTTCTTGAGAAAATCTCTCTACGAGATTTTCATTGACTATACCA 93499 || |||| ||| || || |||| || | | |||||||||| ||| || ||| Sbjct 54862400 GCCTCCGCGATTTGGACCTCTTTCATGAAGCGAACGGCGAGATTTTCTAGGACGATGCCA 54862341 Query 93500 TCGGATGCTGCaaaaaaaGCCAATATATGCTTTATAAAATGTTTCTCATCATCTTTAAGC 93559 |||||||| || || || || | | ||| | || || || || || | ||||| Sbjct 54862340 TCGGATGCGGCGAAGAAGGCAAGGACATGACTGATGAAGTGGCGTTCGTCGGCGTTAAGA 54862281 Query 93560 TTATCCCAATCGGATAGATCTTTTGAAAGATCGACTTCTTCGACAGTCCAAAACGATGCT 93619 || | ||| | | ||||| || ||||| ||||| ||| |||||||||| || ||| Sbjct 54862280 TTTTGCCAGTGTGGAAGATCGGAAGAGAGATCAACTTCCTCGGCAGTCCAAAAAGAGGCT 54862221 Query 93620 TCTGCTTTTTTGTACATATCCCATATGTCTTGATATTGAATTGGAAATATGACAAAACGA 93679 || ||||| |||||||| |||||||| | | | ||||| ||||| || ||| || || Sbjct 54862220 TCGGCTTTCTTGTACATTTCCCATATCTGTGGGTATTGGATTGGGAACATGCAGAAGCGG 54862161 Query 93680 TTAGGGTTATCTTTTAGTAACGGCTCT 93706 | |||||| ||| ||||||||| Sbjct 54862160 TCCGGGTTAGAGGCTAGCAACGGCTCT 54862134 Score = 84.2 bits (92), Expect = 2e-11 Identities = 71/86 (83%), Gaps = 6/86 (7%) Strand=Plus/Minus Query 126266 GTCAGGTTGGCCGAGTGGTCTAAGGCGCCAGATTTAAGATCTGGTTCCCTCGGGA----G 126321 |||||| ||||||||||||||||||||||||| | ||| |||||| ||||| || | Sbjct 2748145 GTCAGGATGGCCGAGTGGTCTAAGGCGCCAGACTCAAGTTCTGGT--CCTCGTGAGAGGG 2748088 Query 126322 CGTGGGTTCGAACCCCACACCTGACA 126347 ||||||||| || ||||| |||||| Sbjct 2748087 CGTGGGTTCAAATCCCACTTCTGACA 2748062 Score = 82.4 bits (90), Expect = 9e-11 Identities = 68/82 (83%), Gaps = 2/82 (2%) Strand=Plus/Plus Query 126268 CAGGTTGGCCGAGTGGTCTAAGGCGCCAGATTTAAGATCTGGTTCCCTCGGGAGCGTGGG 126327 ||| |||||||||||||||||||||||||||||| | |||||| || | ||||||| Sbjct 13033755 CAGTTTGGCCGAGTGGTCTAAGGCGCCAGATTTAGGCTCTGGT--CCGAAAGGGCGTGGG 13033812 Query 126328 TTCGAACCCCACACCTGACAAA 126349 ||| || |||||| ||| |||| Sbjct 13033813 TTCAAATCCCACAGCTGTCAAA 13033834 >seq11 Length=62681010 Score = 196 bits (216), Expect = 5e-45 Identities = 399/591 (68%), Gaps = 9/591 (2%) Strand=Plus/Minus Query 93082 GTACATTAAGCACGCAAAGTCGGTATGTAAACCTTCGTCTCGTGATATCAACTCATTGCT 93141 ||||| ||||| || || ||| || | |||||| |||||||| || ||||| || Sbjct 8942330 GTACAGCAAGCAAGCGAAATCGCAGTGGAGACCTTCATCTCGTGAGATTAACTCGTTTGA 8942271 Query 93142 GAATGTTAAACCTGGTAACAGTCCTCGTTTCTTGAGCCAAAATATTGAAGCAAAACTACC 93201 ||| ||||| || || | | || | || || | ||||||||| | | ||||| || Sbjct 8942270 GAAAGTTAATCCGGGCATTAACCCCCTCTTTTTTAACCAAAATATGGCACAGAAACTTCC 8942211 Query 93202 AGaaaaaaaTATACCTTCCACGGCTGCAAATGCCACAATACGTTCGGCAAAATTTGCGGA 93261 || ||||| || ||||| ||| ||||| || | | |||||||| ||| || | Sbjct 8942210 GGAGAAAAAGATCCCTTCTACGCAAGCAAAAGCGATTAACCGTTCGGCGAAAGTTTCTCC 8942151 Query 93262 ATTACTGCTGATCCATTTTAAAGCCCAATCGGCTTTTTTCTTAATACAAGGTAGTGTTTC 93321 | | ||||||||| | |||||| ||||||||||| | ||| || | || || Sbjct 8942150 G---CCGTCGATCCATTTCATAGCCCACTCGGCTTTTTTAGCCACACACGGCACCGTCTC 8942094 Query 93322 GATAGCGTTAAATAG---GTAATCTCGCTCGTCCGAATCTCGTATGTATGTATCGATTAA 93378 ||| ||| || || || | | || || |||||| |||||| || |||| | Sbjct 8942093 GATGGCGCGGAAAAGACGGTTCTTT---TCATCGGAATCTTTTATGTAAGTCTCGAGAAG 8942037 Query 93379 CAGAGAATACATTTCAGAATGGACATTCTCCATTGCAATTTGGAATCCGTAGAAACATCT 93438 ||| ||||| || || |||| ||| || || || |||||||| || || ||| | Sbjct 8942036 GAGACTGTACATCTCGGAGTGGATATTTTCGATAGCGATTTGGAAACCATAAAAAGCACG 8941977 Query 93439 AGCTTCCGTGATCTGCACTTCTTGAGAAAATCTCTCTACGAGATTTTCATTGACTATACC 93498 || || | |||||| || |||| || | | | || || ||| |||||| || Sbjct 8941976 CGCCTCGGAGATCTGGACCTCTTTCATGAACCGAACAGCAAGGTTCTCAAGGACTATGCC 8941917 Query 93499 ATCGGATGCTGCaaaaaaaGCCAATATATGCTTTATAAAATGTTTCTCATCATCTTTAAG 93558 |||||| || || ||||| || | | || | || || || | |||||| | | || Sbjct 8941916 ATCGGAGGCGGCGAAAAAGGCGAGAACGTGACTAATGAAGTGGTGCTCATCGGCGGTGAG 8941857 Query 93559 CTTATCCCAATCGGATAGATCTTTTGAAAGATCGACTTCTTCGACAGTCCAAAACGATGC 93618 | ||||| | ||||| || ||||||||||| || | ||||||||||| || Sbjct 8941856 AGTTTCCCAGTGACGAAGATCGGAAGACAGATCGACTTCCTCTGCGGTCCAAAACGACGC 8941797 Query 93619 TTCTGCTTTTTTGTACATATCCCATATGTCTTGATATTGAATTGGAAATAT 93669 ||| ||||| |||||||| ||||||| ||| | ||||| || ||||| || Sbjct 8941796 TTCGGCTTTCTTGTACATTTCCCATACTTCTGGGTATTGGATCGGAAACAT 8941746 >seq10 Length=62175169 Score = 93.3 bits (102), Expect = 5e-14 Identities = 76/91 (84%), Gaps = 6/91 (7%) Strand=Plus/Plus Query 126266 GTCAGGTTGGCCGAGTGGTCTAAGGCGCCAGATTTAAGATCTGGTTCCCTCGGGA----G 126321 |||||| ||||||||||||||||||||||||| | ||| |||||| ||||| || | Sbjct 20170118 GTCAGGATGGCCGAGTGGTCTAAGGCGCCAGACTCAAGTTCTGGT--CCTCGAGAGAGGG 20170175 Query 126322 CGTGGGTTCGAACCCCACACCTGACAAATTA 126352 ||||||||| || ||||| ||||||||||| Sbjct 20170176 CGTGGGTTCAAATCCCACTTCTGACAAATTA 20170206 Score = 93.3 bits (102), Expect = 5e-14 Identities = 85/105 (81%), Gaps = 7/105 (7%) Strand=Plus/Plus Query 126264 CAGTCAGGTTGGCCGAGTGGTCTAAGGCGCCAGATTTAAGATCTGGTTCCCTCGGGA--- 126320 |||||||| ||||||||||||||||||||||||| | ||| |||||| ||||| || Sbjct 20188284 CAGTCAGGGTGGCCGAGTGGTCTAAGGCGCCAGACTCAAGTTCTGGT--CCTCGTGAGAG 20188341 Query 126321 -GCGTGGGTTCGAACCCCACACCTGACAAATTATTATTGGAATTT 126364 |||||||||| || ||||| ||||| |||| | ||| || ||| Sbjct 20188342 GGCGTGGGTTCAAATCCCACTTCTGAC-AATTTTAATTTGATTTT 20188385 Score = 91.5 bits (100), Expect = 2e-13 Identities = 76/92 (83%), Gaps = 6/92 (7%) Strand=Plus/Plus Query 126264 CAGTCAGGTTGGCCGAGTGGTCTAAGGCGCCAGATTTAAGATCTGGTTCCCTCGGGA--- 126320 |||||||| ||||||||||||||||||||||||| | ||| |||||| ||||| || Sbjct 20171285 CAGTCAGGATGGCCGAGTGGTCTAAGGCGCCAGACTCAAGTTCTGGT--CCTCGTGAGAG 20171342 Query 126321 -GCGTGGGTTCGAACCCCACACCTGACAAATT 126351 |||||||||| || ||||| ||||||| || Sbjct 20171343 GGCGTGGGTTCAAATCCCACTTCTGACAATTT 20171374 >seq12 Length=35429946 Score = 91.5 bits (100), Expect = 2e-13 Identities = 71/84 (85%), Gaps = 2/84 (2%) Strand=Plus/Minus Query 126266 GTCAGGTTGGCCGAGTGGTCTAAGGCGCCAGATTTAAGATCTGGTTCCC--TCGGGAGCG 126323 |||||| ||||||||||||||||||||||||| | ||| |||||||| | | | ||||| Sbjct 32760116 GTCAGGATGGCCGAGTGGTCTAAGGCGCCAGACTCAAGTTCTGGTTCTCGTTAGAGAGCG 32760057 Query 126324 TGGGTTCGAACCCCACACCTGACA 126347 ||||||| || ||||| |||||| Sbjct 32760056 TGGGTTCAAATCCCACTTCTGACA 32760033 >seq8 Length=57128820 Score = 89.7 bits (98), Expect = 6e-13 Identities = 84/106 (79%), Gaps = 6/106 (6%) Strand=Plus/Minus Query 126265 AGTCAGGTTGGCCGAGTGGTCTAAGGCGCCAGATTTAAGATCTGGTTCCCTCGGGA---- 126320 ||||||| ||||||||||||||||||||||||| | ||| |||||| | ||| || Sbjct 35404429 AGTCAGGATGGCCGAGTGGTCTAAGGCGCCAGACTCAAGTTCTGGT--CTTCGTGAGAGG 35404372 Query 126321 GCGTGGGTTCGAACCCCACACCTGACAAATTATTATTGGAATTTTT 126366 |||||||||| || ||||| ||||||| || | || ||||||| Sbjct 35404371 GCGTGGGTTCAAATCCCACTTCTGACAATTTCGTTTTCTAATTTTT 35404326 Score = 89.7 bits (98), Expect = 6e-13 Identities = 85/106 (80%), Gaps = 7/106 (7%) Strand=Plus/Plus Query 126265 AGTCAGGTTGGCCGAGTGGTCTAAGGCGCCAGATTTAAGATCTGGTTCCCTCGGGA---- 126320 ||||||| ||||||||||||||||||||||||| | ||| |||||| ||||| || Sbjct 36061351 AGTCAGGATGGCCGAGTGGTCTAAGGCGCCAGACTCAAGTTCTGGT--CCTCGTGAGAGG 36061408 Query 126321 GCGTGGGTTCGAACCCCACACCTGACAAATTATTATTGGAATTTTT 126366 |||||||||| || ||||| |||||| || || || ||||||| Sbjct 36061409 GCGTGGGTTCAAATCCCACTTCTGACATTTTGTT-TTCTAATTTTT 36061453 >seq2 Length=62769430 Score = 89.7 bits (98), Expect = 6e-13 Identities = 77/94 (82%), Gaps = 6/94 (6%) Strand=Plus/Minus Query 126265 AGTCAGGTTGGCCGAGTGGTCTAAGGCGCCAGATTTAAGATCTGGTTCCCTCGGGA---- 126320 ||||||| ||||||||||||||||||||||||| | ||| |||||| ||||| || Sbjct 211096 AGTCAGGATGGCCGAGTGGTCTAAGGCGCCAGACTCAAGTTCTGGT--CCTCGTGAGAGG 211039 Query 126321 GCGTGGGTTCGAACCCCACACCTGACAAATTATT 126354 |||||||||| || ||||| |||||| ||||| Sbjct 211038 GCGTGGGTTCAAATCCCACTTCTGACATTTTATT 211005 Score = 87.8 bits (96), Expect = 2e-12 Identities = 75/92 (82%), Gaps = 2/92 (2%) Strand=Plus/Minus Query 126266 GTCAGGTTGGCCGAGTGGTCTAAGGCGCCAGATTTAAGATCTGGTTCCC--TCGGGAGCG 126323 |||||| ||||||||||||||||||||||||| | ||| |||||||| | | ||||| Sbjct 7290071 GTCAGGATGGCCGAGTGGTCTAAGGCGCCAGACTCAAGTTCTGGTTCTCGTGAGAGAGCG 7290012 Query 126324 TGGGTTCGAACCCCACACCTGACAAATTATTA 126355 ||||||| || ||||| |||||| ||| || Sbjct 7290011 TGGGTTCAAATCCCACTTCTGACATTTTACTA 7289980 >seq7 Length=60982465 Score = 87.8 bits (96), Expect = 2e-12 Identities = 73/88 (83%), Gaps = 6/88 (7%) Strand=Plus/Plus Query 126264 CAGTCAGGTTGGCCGAGTGGTCTAAGGCGCCAGATTTAAGATCTGGTTCCCTCGGGA--- 126320 |||||||| ||||||||||||||||||||||||| | ||| |||||| ||||| || Sbjct 54599252 CAGTCAGGGTGGCCGAGTGGTCTAAGGCGCCAGACTCAAGTTCTGGT--CCTCGTGAGAG 54599309 Query 126321 -GCGTGGGTTCGAACCCCACACCTGACA 126347 |||||||||| || ||||| |||||| Sbjct 54599310 GGCGTGGGTTCAAATCCCACTTCTGACA 54599337 Score = 84.2 bits (92), Expect = 2e-11 Identities = 72/88 (82%), Gaps = 6/88 (7%) Strand=Plus/Plus Query 126264 CAGTCAGGTTGGCCGAGTGGTCTAAGGCGCCAGATTTAAGATCTGGTTCCCTCGGGA--- 126320 |||||||| ||||||||||||||||||||||||| | ||| |||||| ||||| || Sbjct 54602665 CAGTCAGGGTGGCCGAGTGGTCTAAGGCGCCAGACTCAAGTTCTGGT--CCTCGTGAGAG 54602722 Query 126321 -GCGTGGGTTCGAACCCCACACCTGACA 126347 |||||||||| || ||||| || ||| Sbjct 54602723 GGCGTGGGTTCAAATCCCACTTCTAACA 54602750 >seq4 Length=62178258 Score = 86.0 bits (94), Expect = 7e-12 Identities = 72/87 (83%), Gaps = 6/87 (7%) Strand=Plus/Minus Query 126265 AGTCAGGTTGGCCGAGTGGTCTAAGGCGCCAGATTTAAGATCTGGTTCCCTCGGGA---- 126320 ||||||| ||||||||||||||||||||||||| | ||| |||||| ||||| || Sbjct 43902936 AGTCAGGATGGCCGAGTGGTCTAAGGCGCCAGACTCAAGTTCTGGT--CCTCGTGAGAGG 43902879 Query 126321 GCGTGGGTTCGAACCCCACACCTGACA 126347 |||||||||| || ||||| |||||| Sbjct 43902878 GCGTGGGTTCAAATCCCACTTCTGACA 43902852 Score = 82.4 bits (90), Expect = 9e-11 Identities = 73/89 (82%), Gaps = 3/89 (3%) Strand=Plus/Minus Query 126268 CAGGTTGGCCGAGTGGTCTAAGGCGCCAGATTTAAGATCTGGTTCCCTCGGGAGCGTGGG 126327 ||| |||||||||||||||||||||||||||||| | |||||| || | ||||||| Sbjct 31847210 CAGTTTGGCCGAGTGGTCTAAGGCGCCAGATTTAGGCTCTGGT--CCGAAAGGGCGTGGG 31847153 Query 126328 TTCGAACCCCACACCTGACAAATTATTAT 126356 ||| || |||||| ||| ||| || |||| Sbjct 31847152 TTCAAATCCCACAGCTGTCAAGTT-TTAT 31847125 >seq5 Length=64140413 Score = 82.4 bits (90), Expect = 9e-11 Identities = 71/87 (82%), Gaps = 6/87 (7%) Strand=Plus/Minus Query 126265 AGTCAGGTTGGCCGAGTGGTCTAAGGCGCCAGATTTAAGATCTGGTTCCCTCGGGA---- 126320 ||||||| ||||||||||||||||||||||||| | ||| |||||| | ||| || Sbjct 63688987 AGTCAGGATGGCCGAGTGGTCTAAGGCGCCAGACTCAAGTTCTGGT--CTTCGTGAGAAG 63688930 Query 126321 GCGTGGGTTCGAACCCCACACCTGACA 126347 |||||||||| || ||||| |||||| Sbjct 63688929 GCGTGGGTTCAAATCCCACTTCTGACA 63688903 >seq3 Length=45765648 Score = 82.4 bits (90), Expect = 9e-11 Identities = 75/94 (80%), Gaps = 2/94 (2%) Strand=Plus/Plus Query 126266 GTCAGGTTGGCCGAGTGGTCTAAGGCGCCAGATTTAAGATCTGG--TTCCCTCGGGAGCG 126323 |||||| ||||||||||||||||||||||||| | ||| ||||| ||| | | ||| Sbjct 44031709 GTCAGGATGGCCGAGTGGTCTAAGGCGCCAGACTCAAGTTCTGGTCTTCGAAAGAGGGCG 44031768 Query 126324 TGGGTTCGAACCCCACACCTGACAAATTATTATT 126357 ||||||| || ||||| ||||||| || | ||| Sbjct 44031769 TGGGTTCAAATCCCACTTCTGACAATTTTTAATT 44031802 Lambda K H 0.634 0.408 0.912 Gapped Lambda K H 0.625 0.410 0.780 Effective search space used: 556853602574160